-- dump date 20120504_160330 -- class Genbank::misc_feature -- table misc_feature_note -- id note 652103000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 652103000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000018 Walker A/P-loop; other site 652103000019 ATP binding site [chemical binding]; other site 652103000020 Q-loop/lid; other site 652103000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 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 sensory histidine kinase AtoS; Provisional; Region: PRK11360 652103000045 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103000046 Histidine kinase; Region: HisKA_2; cl06527 652103000047 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 652103000048 tetramer interface [polypeptide binding]; other site 652103000049 dimer interface [polypeptide binding]; other site 652103000050 circadian clock protein KaiC; Reviewed; Region: PRK09302 652103000051 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000052 Walker A motif; other site 652103000053 ATP binding site [chemical binding]; other site 652103000054 Walker B motif; other site 652103000055 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000056 Walker A motif; other site 652103000057 ATP binding site [chemical binding]; other site 652103000058 Walker B motif; other site 652103000059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103000060 putative CheW interface [polypeptide binding]; other site 652103000061 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103000062 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 652103000063 putative DNA binding site [nucleotide binding]; other site 652103000064 putative Zn2+ binding site [ion binding]; other site 652103000065 Helix-turn-helix domains; Region: HTH; cl00088 652103000066 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 652103000067 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 652103000068 metal-binding site [ion binding] 652103000069 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 652103000070 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103000071 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103000072 FixH; Region: FixH; cl01254 652103000073 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 652103000074 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103000075 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 652103000076 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 652103000077 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 652103000078 Cytochrome c; Region: Cytochrom_C; cl11414 652103000079 Cytochrome c; Region: Cytochrom_C; cl11414 652103000080 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 652103000081 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 652103000082 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 652103000083 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 652103000084 Low-spin heme binding site [chemical binding]; other site 652103000085 Putative water exit pathway; other site 652103000086 Binuclear center (active site) [active] 652103000087 Putative proton exit pathway; other site 652103000088 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 652103000089 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 652103000090 putative NAD(P) binding site [chemical binding]; other site 652103000091 active site 652103000092 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103000093 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 652103000094 putative catalytic residue [active] 652103000095 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103000096 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 652103000097 putative C-terminal domain interface [polypeptide binding]; other site 652103000098 putative GSH binding site (G-site) [chemical binding]; other site 652103000099 putative dimer interface [polypeptide binding]; other site 652103000100 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 652103000101 putative N-terminal domain interface [polypeptide binding]; other site 652103000102 putative dimer interface [polypeptide binding]; other site 652103000103 putative substrate binding pocket (H-site) [chemical binding]; other site 652103000104 short chain dehydrogenase; Provisional; Region: PRK08278 652103000105 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 652103000106 NAD(P) binding site [chemical binding]; other site 652103000107 homodimer interface [polypeptide binding]; other site 652103000108 active site 652103000109 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 652103000110 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103000111 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 652103000112 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 652103000113 NeuB family; Region: NeuB; cl00496 652103000114 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 652103000115 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 652103000116 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 652103000117 purine monophosphate binding site [chemical binding]; other site 652103000118 dimer interface [polypeptide binding]; other site 652103000119 putative catalytic residues [active] 652103000120 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 652103000121 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 652103000122 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 652103000123 16S rRNA methyltransferase B; Provisional; Region: PRK10901 652103000124 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 652103000125 putative RNA binding site [nucleotide binding]; other site 652103000126 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103000127 S-adenosylmethionine binding site [chemical binding]; other site 652103000128 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 652103000129 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103000130 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 652103000131 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103000132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000133 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 652103000134 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 652103000135 putative tRNA-binding site [nucleotide binding]; other site 652103000136 B3/4 domain; Region: B3_4; cl11458 652103000137 tRNA synthetase B5 domain; Region: B5; cl08394 652103000138 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 652103000139 dimer interface [polypeptide binding]; other site 652103000140 motif 1; other site 652103000141 motif 3; other site 652103000142 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 652103000143 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103000144 putative active site [active] 652103000145 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 652103000146 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 652103000147 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 652103000148 dimer interface [polypeptide binding]; other site 652103000149 motif 1; other site 652103000150 active site 652103000151 motif 2; other site 652103000152 motif 3; other site 652103000153 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 652103000154 23S rRNA binding site [nucleotide binding]; other site 652103000155 L21 binding site [polypeptide binding]; other site 652103000156 L13 binding site [polypeptide binding]; other site 652103000157 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 652103000158 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 652103000159 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 652103000160 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 652103000161 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103000162 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 652103000163 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 652103000164 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103000165 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 652103000166 C-terminal domain interface [polypeptide binding]; other site 652103000167 GSH binding site (G-site) [chemical binding]; other site 652103000168 dimer interface [polypeptide binding]; other site 652103000169 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 652103000170 N-terminal domain interface [polypeptide binding]; other site 652103000171 dimer interface [polypeptide binding]; other site 652103000172 substrate binding pocket (H-site) [chemical binding]; other site 652103000173 Bacitracin resistance protein BacA; Region: BacA; cl00858 652103000174 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 652103000175 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 652103000176 putative NAD(P) binding site [chemical binding]; other site 652103000177 active site 652103000178 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 652103000179 putative active site [active] 652103000180 catalytic site [active] 652103000181 putative substrate binding site [chemical binding]; other site 652103000182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 652103000183 OstA-like protein; Region: OstA; cl00844 652103000184 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 652103000185 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 652103000186 Walker A/P-loop; other site 652103000187 ATP binding site [chemical binding]; other site 652103000188 Q-loop/lid; other site 652103000189 ABC transporter signature motif; other site 652103000190 Walker B; other site 652103000191 D-loop; other site 652103000192 H-loop/switch region; other site 652103000193 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 652103000194 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 652103000195 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 652103000196 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 652103000197 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 652103000198 30S subunit binding site; other site 652103000199 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 652103000200 active site 652103000201 phosphorylation site [posttranslational modification] 652103000202 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 652103000203 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 652103000204 putative dimer interface [polypeptide binding]; other site 652103000205 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 652103000206 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 652103000207 Walker A/P-loop; other site 652103000208 ATP binding site [chemical binding]; other site 652103000209 Q-loop/lid; other site 652103000210 ABC transporter signature motif; other site 652103000211 Walker B; other site 652103000212 D-loop; other site 652103000213 H-loop/switch region; other site 652103000214 TOBE domain; Region: TOBE_2; cl01440 652103000215 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103000216 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 652103000217 dimer interface [polypeptide binding]; other site 652103000218 conserved gate region; other site 652103000219 putative PBP binding loops; other site 652103000220 ABC-ATPase subunit interface; other site 652103000221 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 652103000222 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 652103000223 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103000224 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103000225 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103000226 TIGR02300 family protein; Region: FYDLN_acid 652103000227 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 652103000228 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 652103000229 hinge; other site 652103000230 active site 652103000231 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 652103000232 putative acyl-acceptor binding pocket; other site 652103000233 cytidylate kinase; Provisional; Region: cmk; PRK00023 652103000234 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 652103000235 CMP-binding site; other site 652103000236 The sites determining sugar specificity; other site 652103000237 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 652103000238 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 652103000239 RNA binding site [nucleotide binding]; other site 652103000240 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 652103000241 RNA binding site [nucleotide binding]; other site 652103000242 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 652103000243 RNA binding site [nucleotide binding]; other site 652103000244 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 652103000245 RNA binding site [nucleotide binding]; other site 652103000246 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 652103000247 RNA binding site [nucleotide binding]; other site 652103000248 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 652103000249 RNA binding site [nucleotide binding]; other site 652103000250 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 652103000251 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 652103000252 tandem repeat interface [polypeptide binding]; other site 652103000253 oligomer interface [polypeptide binding]; other site 652103000254 active site residues [active] 652103000255 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 652103000256 IHF dimer interface [polypeptide binding]; other site 652103000257 IHF - DNA interface [nucleotide binding]; other site 652103000258 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 652103000259 active site 652103000260 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 652103000261 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 652103000262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000263 catalytic residue [active] 652103000264 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 652103000265 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 652103000266 substrate binding site [chemical binding]; other site 652103000267 active site 652103000268 catalytic residues [active] 652103000269 heterodimer interface [polypeptide binding]; other site 652103000270 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 652103000271 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103000272 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 652103000273 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 652103000274 catalytic residues [active] 652103000275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000276 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 652103000277 Family description; Region: UvrD_C_2; cl15862 652103000278 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 652103000279 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 652103000280 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 652103000281 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 652103000282 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 652103000283 Substrate binding site; other site 652103000284 metal-binding site 652103000285 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 652103000286 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103000287 PAS fold; Region: PAS_7; pfam12860 652103000288 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103000289 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 652103000290 dimer interface [polypeptide binding]; other site 652103000291 phosphorylation site [posttranslational modification] 652103000292 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 652103000293 ATP binding site [chemical binding]; other site 652103000294 Mg2+ binding site [ion binding]; other site 652103000295 G-X-G motif; other site 652103000296 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 652103000297 trimer interface [polypeptide binding]; other site 652103000298 active site 652103000299 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional; Region: PRK13982 652103000300 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 652103000301 Flavoprotein; Region: Flavoprotein; cl08021 652103000302 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 652103000303 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 652103000304 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103000305 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103000306 ATP binding site [chemical binding]; other site 652103000307 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 652103000308 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103000309 S-adenosylmethionine binding site [chemical binding]; other site 652103000310 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 652103000311 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 652103000312 DNA binding site [nucleotide binding] 652103000313 catalytic residue [active] 652103000314 H2TH interface [polypeptide binding]; other site 652103000315 putative catalytic residues [active] 652103000316 turnover-facilitating residue; other site 652103000317 intercalation triad [nucleotide binding]; other site 652103000318 8OG recognition residue [nucleotide binding]; other site 652103000319 putative reading head residues; other site 652103000320 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 652103000321 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 652103000322 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103000323 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 652103000324 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 652103000325 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 652103000326 ATP binding site [chemical binding]; other site 652103000327 substrate interface [chemical binding]; other site 652103000328 Transmembrane secretion effector; Region: MFS_3; pfam05977 652103000329 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 652103000330 putative substrate translocation pore; other site 652103000331 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 652103000332 Phasin protein; Region: Phasin_2; cl11491 652103000333 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103000334 Helix-turn-helix domains; Region: HTH; cl00088 652103000335 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103000336 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103000337 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103000338 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103000339 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103000340 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 652103000341 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103000342 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103000343 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103000344 Walker A/P-loop; other site 652103000345 ATP binding site [chemical binding]; other site 652103000346 Q-loop/lid; other site 652103000347 ABC transporter signature motif; other site 652103000348 Walker B; other site 652103000349 D-loop; other site 652103000350 H-loop/switch region; other site 652103000351 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103000352 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103000353 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103000354 Walker A/P-loop; other site 652103000355 ATP binding site [chemical binding]; other site 652103000356 Q-loop/lid; other site 652103000357 ABC transporter signature motif; other site 652103000358 Walker B; other site 652103000359 D-loop; other site 652103000360 H-loop/switch region; other site 652103000361 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103000362 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103000363 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 652103000364 dimer interface [polypeptide binding]; other site 652103000365 conserved gate region; other site 652103000366 putative PBP binding loops; other site 652103000367 ABC-ATPase subunit interface; other site 652103000368 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103000369 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 652103000370 dimer interface [polypeptide binding]; other site 652103000371 conserved gate region; other site 652103000372 putative PBP binding loops; other site 652103000373 ABC-ATPase subunit interface; other site 652103000374 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 652103000375 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103000376 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103000377 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000378 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 652103000379 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 652103000380 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 652103000381 active site 652103000382 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 652103000383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103000384 DNA-binding site [nucleotide binding]; DNA binding site 652103000385 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 652103000386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000387 homodimer interface [polypeptide binding]; other site 652103000388 catalytic residue [active] 652103000389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103000390 Magnetospirillum NAD(P)+-dependent aldehyde dehydrogenase MSR-1-like; Region: ALDH_MGR_2402; cd07108 652103000391 NAD(P) binding site [chemical binding]; other site 652103000392 catalytic residues [active] 652103000393 catalytic residues [active] 652103000394 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 652103000395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000396 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 652103000397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000398 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 652103000399 GAF domain; Region: GAF; cl15785 652103000400 Phytochrome region; Region: PHY; pfam00360 652103000401 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 652103000402 ATP binding site [chemical binding]; other site 652103000403 Mg2+ binding site [ion binding]; other site 652103000404 G-X-G motif; other site 652103000405 Ion channel; Region: Ion_trans_2; cl11596 652103000406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000407 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000408 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103000409 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103000410 active site 652103000411 metal binding site [ion binding]; metal-binding site 652103000412 hexamer interface [polypeptide binding]; other site 652103000413 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103000414 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103000415 active site 652103000416 metal binding site [ion binding]; metal-binding site 652103000417 hexamer interface [polypeptide binding]; other site 652103000418 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103000419 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 652103000420 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103000421 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 652103000422 dimer interface [polypeptide binding]; other site 652103000423 conserved gate region; other site 652103000424 putative PBP binding loops; other site 652103000425 ABC-ATPase subunit interface; other site 652103000426 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 652103000427 dimer interface [polypeptide binding]; other site 652103000428 conserved gate region; other site 652103000429 putative PBP binding loops; other site 652103000430 ABC-ATPase subunit interface; other site 652103000431 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 652103000432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000433 Walker A/P-loop; other site 652103000434 ATP binding site [chemical binding]; other site 652103000435 Q-loop/lid; other site 652103000436 ABC transporter signature motif; other site 652103000437 Walker B; other site 652103000438 D-loop; other site 652103000439 H-loop/switch region; other site 652103000440 TOBE domain; Region: TOBE_2; cl01440 652103000441 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 652103000442 Helix-turn-helix domains; Region: HTH; cl00088 652103000443 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 652103000444 dimerization interface [polypeptide binding]; other site 652103000445 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103000446 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 652103000447 Walker A/P-loop; other site 652103000448 ATP binding site [chemical binding]; other site 652103000449 Q-loop/lid; other site 652103000450 ABC transporter signature motif; other site 652103000451 Walker B; other site 652103000452 D-loop; other site 652103000453 H-loop/switch region; other site 652103000454 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 652103000455 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103000456 NMT1-like family; Region: NMT1_2; cl15260 652103000457 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 652103000458 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 652103000459 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 652103000460 4Fe-4S binding domain; Region: Fer4; cl02805 652103000461 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 652103000462 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; cl03503 652103000463 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 652103000464 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 652103000465 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 652103000466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000467 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 652103000468 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 652103000469 PAS domain; Region: PAS_9; pfam13426 652103000470 putative active site [active] 652103000471 heme pocket [chemical binding]; other site 652103000472 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103000473 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 652103000474 putative active site [active] 652103000475 heme pocket [chemical binding]; other site 652103000476 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 652103000477 dimer interface [polypeptide binding]; other site 652103000478 phosphorylation site [posttranslational modification] 652103000479 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 652103000480 ATP binding site [chemical binding]; other site 652103000481 Mg2+ binding site [ion binding]; other site 652103000482 G-X-G motif; other site 652103000483 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103000484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103000485 active site 652103000486 phosphorylation site [posttranslational modification] 652103000487 intermolecular recognition site; other site 652103000488 dimerization interface [polypeptide binding]; other site 652103000489 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 652103000490 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 652103000491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000492 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 652103000493 nucleotide binding region [chemical binding]; other site 652103000494 ATP-binding site [chemical binding]; other site 652103000495 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 652103000496 RNA binding surface [nucleotide binding]; other site 652103000497 Ferredoxin [Energy production and conversion]; Region: COG1146 652103000498 4Fe-4S binding domain; Region: Fer4; cl02805 652103000499 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 652103000500 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 652103000501 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 652103000502 Peptidase family M48; Region: Peptidase_M48; cl12018 652103000503 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103000504 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 652103000505 putative ligand binding site [chemical binding]; other site 652103000506 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103000507 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 652103000508 substrate binding site [chemical binding]; other site 652103000509 oxyanion hole (OAH) forming residues; other site 652103000510 trimer interface [polypeptide binding]; other site 652103000511 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 652103000512 active site 652103000513 metal binding site [ion binding]; metal-binding site 652103000514 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 652103000515 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 652103000516 substrate binding site [chemical binding]; other site 652103000517 oxyanion hole (OAH) forming residues; other site 652103000518 trimer interface [polypeptide binding]; other site 652103000519 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103000520 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103000521 active site 652103000522 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 652103000523 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103000524 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103000525 classical (c) SDRs; Region: SDR_c; cd05233 652103000526 NAD(P) binding site [chemical binding]; other site 652103000527 active site 652103000528 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 652103000529 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 652103000530 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103000531 TadE-like protein; Region: TadE; cl10688 652103000532 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 652103000533 Prostaglandin dehydrogenases; Region: PGDH; cd05288 652103000534 NAD(P) binding site [chemical binding]; other site 652103000535 substrate binding site [chemical binding]; other site 652103000536 dimer interface [polypeptide binding]; other site 652103000537 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 652103000538 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103000539 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 652103000540 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 652103000541 active site 652103000542 FMN binding site [chemical binding]; other site 652103000543 substrate binding site [chemical binding]; other site 652103000544 3Fe-4S cluster binding site [ion binding]; other site 652103000545 Creatinine amidohydrolase; Region: Creatininase; cl00618 652103000546 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103000547 NMT1-like family; Region: NMT1_2; cl15260 652103000548 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103000549 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103000550 Walker A/P-loop; other site 652103000551 ATP binding site [chemical binding]; other site 652103000552 Q-loop/lid; other site 652103000553 ABC transporter signature motif; other site 652103000554 Walker B; other site 652103000555 D-loop; other site 652103000556 H-loop/switch region; other site 652103000557 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 652103000558 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103000559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000560 Uncharacterized conserved protein [Function unknown]; Region: COG5361 652103000561 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 652103000562 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 652103000563 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103000564 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103000565 tetramerization interface [polypeptide binding]; other site 652103000566 NAD(P) binding site [chemical binding]; other site 652103000567 catalytic residues [active] 652103000568 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103000569 AMP-binding domain protein; Validated; Region: PRK08315 652103000570 AMP-binding enzyme; Region: AMP-binding; cl15778 652103000571 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103000572 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 adenosine...; Region: adenosine_kinase; cd01168 652103000573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103000574 substrate binding site [chemical binding]; other site 652103000575 ATP binding site [chemical binding]; other site 652103000576 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 652103000577 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 652103000578 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 652103000579 active site 652103000580 HIGH motif; other site 652103000581 dimer interface [polypeptide binding]; other site 652103000582 KMSKS motif; other site 652103000583 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103000584 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 652103000585 NifU-like domain; Region: NifU; cl00484 652103000586 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 652103000587 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 652103000588 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103000589 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103000590 metal binding site 2 [ion binding]; metal-binding site 652103000591 putative DNA binding helix; other site 652103000592 metal binding site 1 [ion binding]; metal-binding site 652103000593 dimer interface [polypeptide binding]; other site 652103000594 structural Zn2+ binding site [ion binding]; other site 652103000595 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 652103000596 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 652103000597 motif II; other site 652103000598 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 652103000599 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103000600 TRAM domain; Region: TRAM; cl01282 652103000601 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 652103000602 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 652103000603 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103000604 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 652103000605 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 652103000606 Transporter associated domain; Region: CorC_HlyC; cl08393 652103000607 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 652103000608 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 652103000609 putative active site [active] 652103000610 catalytic triad [active] 652103000611 putative dimer interface [polypeptide binding]; other site 652103000612 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103000613 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 652103000614 non-specific DNA binding site [nucleotide binding]; other site 652103000615 salt bridge; other site 652103000616 sequence-specific DNA binding site [nucleotide binding]; other site 652103000617 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103000618 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 652103000619 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 652103000620 ribosome maturation protein RimP; Reviewed; Region: PRK00092 652103000621 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 652103000622 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 652103000623 Sm1 motif; other site 652103000624 D3 - B interaction site; other site 652103000625 D1 - D2 interaction site; other site 652103000626 Hfq - Hfq interaction site; other site 652103000627 RNA binding pocket [nucleotide binding]; other site 652103000628 Sm2 motif; other site 652103000629 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 652103000630 NusA N-terminal domain; Region: NusA_N; pfam08529 652103000631 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 652103000632 RNA binding site [nucleotide binding]; other site 652103000633 homodimer interface [polypeptide binding]; other site 652103000634 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 652103000635 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 652103000636 G-X-X-G motif; other site 652103000637 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 652103000638 hypothetical protein; Provisional; Region: PRK09190 652103000639 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 652103000640 putative RNA binding cleft [nucleotide binding]; other site 652103000641 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 652103000642 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 652103000643 translation initiation factor IF-2; Region: IF-2; TIGR00487 652103000644 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 652103000645 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 652103000646 G1 box; other site 652103000647 putative GEF interaction site [polypeptide binding]; other site 652103000648 GTP/Mg2+ binding site [chemical binding]; other site 652103000649 Switch I region; other site 652103000650 G2 box; other site 652103000651 G3 box; other site 652103000652 Switch II region; other site 652103000653 G4 box; other site 652103000654 G5 box; other site 652103000655 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 652103000656 Translation-initiation factor 2; Region: IF-2; pfam11987 652103000657 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 652103000658 Ribosome-binding factor A; Region: RBFA; cl00542 652103000659 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 652103000660 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 652103000661 RNA binding site [nucleotide binding]; other site 652103000662 active site 652103000663 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 652103000664 16S/18S rRNA binding site [nucleotide binding]; other site 652103000665 S13e-L30e interaction site [polypeptide binding]; other site 652103000666 25S rRNA binding site [nucleotide binding]; other site 652103000667 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 652103000668 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 652103000669 RNase E interface [polypeptide binding]; other site 652103000670 trimer interface [polypeptide binding]; other site 652103000671 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 652103000672 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 652103000673 RNase E interface [polypeptide binding]; other site 652103000674 trimer interface [polypeptide binding]; other site 652103000675 active site 652103000676 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 652103000677 putative nucleic acid binding region [nucleotide binding]; other site 652103000678 G-X-X-G motif; other site 652103000679 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 652103000680 RNA binding site [nucleotide binding]; other site 652103000681 domain interface; other site 652103000682 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 652103000683 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 652103000684 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 652103000685 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 652103000686 PAS domain; Region: PAS_9; pfam13426 652103000687 putative active site [active] 652103000688 heme pocket [chemical binding]; other site 652103000689 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 652103000690 PAS domain; Region: PAS_9; pfam13426 652103000691 putative active site [active] 652103000692 heme pocket [chemical binding]; other site 652103000693 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 652103000694 PAS domain; Region: PAS_9; pfam13426 652103000695 putative active site [active] 652103000696 heme pocket [chemical binding]; other site 652103000697 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103000698 dimer interface [polypeptide binding]; other site 652103000699 putative CheW interface [polypeptide binding]; other site 652103000700 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 652103000701 Helix-turn-helix domains; Region: HTH; cl00088 652103000702 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 652103000703 dimerization interface [polypeptide binding]; other site 652103000704 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 652103000705 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 652103000706 dimer interface [polypeptide binding]; other site 652103000707 active site 652103000708 heme binding site [chemical binding]; other site 652103000709 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 652103000710 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103000711 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 652103000712 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 652103000713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103000714 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 652103000715 DNA binding residues [nucleotide binding] 652103000716 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 652103000717 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 652103000718 RNA binding surface [nucleotide binding]; other site 652103000719 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 652103000720 active site 652103000721 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 652103000722 Int/Topo IB signature motif; other site 652103000723 active site 652103000724 DNA binding site [nucleotide binding] 652103000725 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 652103000726 non-specific DNA binding site [nucleotide binding]; other site 652103000727 salt bridge; other site 652103000728 sequence-specific DNA binding site [nucleotide binding]; other site 652103000729 Domain of unknown function (DUF955); Region: DUF955; cl01076 652103000730 multiple promoter invertase; Provisional; Region: mpi; PRK13413 652103000731 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 652103000732 catalytic residues [active] 652103000733 catalytic nucleophile [active] 652103000734 Presynaptic Site I dimer interface [polypeptide binding]; other site 652103000735 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 652103000736 Synaptic Flat tetramer interface [polypeptide binding]; other site 652103000737 Synaptic Site I dimer interface [polypeptide binding]; other site 652103000738 DNA binding site [nucleotide binding] 652103000739 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 652103000740 DNA-binding interface [nucleotide binding]; DNA binding site 652103000741 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 652103000742 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 652103000743 putative diguanylate cyclase; Provisional; Region: PRK09776 652103000744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103000745 metal binding site [ion binding]; metal-binding site 652103000746 active site 652103000747 I-site; other site 652103000748 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 652103000749 methionine gamma-lyase; Provisional; Region: PRK07503 652103000750 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 652103000751 homodimer interface [polypeptide binding]; other site 652103000752 substrate-cofactor binding pocket; other site 652103000753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103000754 catalytic residue [active] 652103000755 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103000756 Helix-turn-helix domains; Region: HTH; cl00088 652103000757 thioredoxin 2; Provisional; Region: PRK10996 652103000758 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 652103000759 catalytic residues [active] 652103000760 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 652103000761 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 652103000762 putative NAD(P) binding site [chemical binding]; other site 652103000763 putative substrate binding site [chemical binding]; other site 652103000764 catalytic Zn binding site [ion binding]; other site 652103000765 structural Zn binding site [ion binding]; other site 652103000766 ChaB; Region: ChaB; cl01887 652103000767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000768 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 652103000769 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 652103000770 Ligand Binding Site [chemical binding]; other site 652103000771 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 652103000772 alpha-galactosidase; Provisional; Region: PRK15076 652103000773 NAD binding site [chemical binding]; other site 652103000774 sugar binding site [chemical binding]; other site 652103000775 divalent metal binding site [ion binding]; other site 652103000776 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103000777 dimer interface [polypeptide binding]; other site 652103000778 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 652103000779 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 652103000780 putative substrate binding site [chemical binding]; other site 652103000781 putative ATP binding site [chemical binding]; other site 652103000782 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 652103000783 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 652103000784 putative molybdopterin cofactor binding site [chemical binding]; other site 652103000785 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 652103000786 putative molybdopterin cofactor binding site; other site 652103000787 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 652103000788 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 652103000789 ligand binding site; other site 652103000790 oligomer interface; other site 652103000791 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 652103000792 dimer interface [polypeptide binding]; other site 652103000793 N-terminal domain interface [polypeptide binding]; other site 652103000794 sulfate 1 binding site; other site 652103000795 glycogen synthase; Provisional; Region: PRK14099 652103000796 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 652103000797 ADP-binding pocket [chemical binding]; other site 652103000798 homodimer interface [polypeptide binding]; other site 652103000799 enoyl-CoA hydratase; Provisional; Region: PRK08252 652103000800 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 652103000801 substrate binding site [chemical binding]; other site 652103000802 oxyanion hole (OAH) forming residues; other site 652103000803 trimer interface [polypeptide binding]; other site 652103000804 hypothetical protein; Reviewed; Region: PRK00024 652103000805 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 652103000806 MPN+ (JAMM) motif; other site 652103000807 Zinc-binding site [ion binding]; other site 652103000808 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 652103000809 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 652103000810 putative DNA binding site [nucleotide binding]; other site 652103000811 putative homodimer interface [polypeptide binding]; other site 652103000812 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 652103000813 active site 652103000814 potassium/proton antiporter; Reviewed; Region: PRK05326 652103000815 Transporter associated domain; Region: CorC_HlyC; cl08393 652103000816 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 652103000817 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 652103000818 PAS fold; Region: PAS_7; pfam12860 652103000819 PAS domain S-box; Region: sensory_box; TIGR00229 652103000820 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 652103000821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103000822 metal binding site [ion binding]; metal-binding site 652103000823 active site 652103000824 I-site; other site 652103000825 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 652103000826 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 652103000827 Alkaline phosphatase homologues; Region: alkPPc; smart00098 652103000828 active site 652103000829 dimer interface [polypeptide binding]; other site 652103000830 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 652103000831 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103000832 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103000833 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103000834 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103000835 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 652103000836 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 652103000837 ANP binding site [chemical binding]; other site 652103000838 Substrate Binding Site II [chemical binding]; other site 652103000839 Substrate Binding Site I [chemical binding]; other site 652103000840 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 652103000841 active site 652103000842 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 652103000843 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 652103000844 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 652103000845 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 652103000846 FeS/SAM binding site; other site 652103000847 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 652103000848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000849 short chain dehydrogenase; Provisional; Region: PRK07677 652103000850 NAD(P) binding site [chemical binding]; other site 652103000851 active site 652103000852 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103000853 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103000854 NAD(P) binding site [chemical binding]; other site 652103000855 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103000856 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103000857 Helix-turn-helix domains; Region: HTH; cl00088 652103000858 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 652103000859 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 652103000860 aromatic arch; other site 652103000861 DCoH dimer interaction site [polypeptide binding]; other site 652103000862 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 652103000863 DCoH tetramer interaction site [polypeptide binding]; other site 652103000864 substrate binding site [chemical binding]; other site 652103000865 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103000866 NMT1-like family; Region: NMT1_2; cl15260 652103000867 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103000868 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103000869 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103000870 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 652103000871 N-terminal plug; other site 652103000872 ligand-binding site [chemical binding]; other site 652103000873 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 652103000874 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 652103000875 G1 box; other site 652103000876 putative GEF interaction site [polypeptide binding]; other site 652103000877 GTP/Mg2+ binding site [chemical binding]; other site 652103000878 Switch I region; other site 652103000879 G2 box; other site 652103000880 G3 box; other site 652103000881 Switch II region; other site 652103000882 G4 box; other site 652103000883 G5 box; other site 652103000884 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 652103000885 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 652103000886 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103000887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000889 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103000890 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 652103000891 dimer interface [polypeptide binding]; other site 652103000892 substrate binding site [chemical binding]; other site 652103000893 metal binding sites [ion binding]; metal-binding site 652103000894 hypothetical protein; Provisional; Region: PRK08262 652103000895 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 652103000896 metal binding site [ion binding]; metal-binding site 652103000897 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 652103000898 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 652103000899 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 652103000900 homodimer interface [polypeptide binding]; other site 652103000901 NADP binding site [chemical binding]; other site 652103000902 substrate binding site [chemical binding]; other site 652103000903 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 652103000904 YGGT family; Region: YGGT; cl00508 652103000905 enoyl-CoA hydratase; Provisional; Region: PRK06210 652103000906 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 652103000907 substrate binding site [chemical binding]; other site 652103000908 oxyanion hole (OAH) forming residues; other site 652103000909 trimer interface [polypeptide binding]; other site 652103000910 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 652103000911 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 652103000912 classical (c) SDRs; Region: SDR_c; cd05233 652103000913 NAD(P) binding site [chemical binding]; other site 652103000914 active site 652103000915 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 652103000916 putative metal binding site [ion binding]; other site 652103000917 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103000918 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103000919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103000920 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 652103000921 Bacterial SH3 domain; Region: SH3_3; cl02551 652103000922 Bacterial SH3 domain; Region: SH3_3; cl02551 652103000923 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103000924 metal binding site 2 [ion binding]; metal-binding site 652103000925 putative DNA binding helix; other site 652103000926 metal binding site 1 [ion binding]; metal-binding site 652103000927 dimer interface [polypeptide binding]; other site 652103000928 structural Zn2+ binding site [ion binding]; other site 652103000929 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 652103000930 active site 1 [active] 652103000931 dimer interface [polypeptide binding]; other site 652103000932 active site 2 [active] 652103000933 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 652103000934 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 652103000935 dimer interface [polypeptide binding]; other site 652103000936 active site 652103000937 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 652103000938 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103000939 NAD binding site [chemical binding]; other site 652103000940 homotetramer interface [polypeptide binding]; other site 652103000941 homodimer interface [polypeptide binding]; other site 652103000942 substrate binding site [chemical binding]; other site 652103000943 active site 652103000944 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 652103000945 active site 652103000946 substrate-binding site [chemical binding]; other site 652103000947 metal-binding site [ion binding] 652103000948 ATP binding site [chemical binding]; other site 652103000949 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103000950 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 652103000951 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 652103000952 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 652103000953 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103000954 active site 652103000955 phosphorylation site [posttranslational modification] 652103000956 intermolecular recognition site; other site 652103000957 dimerization interface [polypeptide binding]; other site 652103000958 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 652103000959 DNA binding site [nucleotide binding] 652103000960 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 652103000961 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 652103000962 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103000963 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 652103000964 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 652103000965 dimer interface [polypeptide binding]; other site 652103000966 phosphorylation site [posttranslational modification] 652103000967 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 652103000968 ATP binding site [chemical binding]; other site 652103000969 Mg2+ binding site [ion binding]; other site 652103000970 G-X-G motif; other site 652103000971 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 652103000972 Hpr binding site; other site 652103000973 active site 652103000974 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 652103000975 active pocket/dimerization site; other site 652103000976 active site 652103000977 phosphorylation site [posttranslational modification] 652103000978 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 652103000979 dimerization domain swap beta strand [polypeptide binding]; other site 652103000980 regulatory protein interface [polypeptide binding]; other site 652103000981 active site 652103000982 regulatory phosphorylation site [posttranslational modification]; other site 652103000983 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103000984 GTP-binding protein LepA; Provisional; Region: PRK05433 652103000985 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 652103000986 G1 box; other site 652103000987 putative GEF interaction site [polypeptide binding]; other site 652103000988 GTP/Mg2+ binding site [chemical binding]; other site 652103000989 Switch I region; other site 652103000990 G2 box; other site 652103000991 G3 box; other site 652103000992 Switch II region; other site 652103000993 G4 box; other site 652103000994 G5 box; other site 652103000995 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 652103000996 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 652103000997 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 652103000998 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 652103000999 additional DNA contacts [nucleotide binding]; other site 652103001000 mismatch recognition site; other site 652103001001 active site 652103001002 zinc binding site [ion binding]; other site 652103001003 DNA intercalation site [nucleotide binding]; other site 652103001004 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103001005 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 652103001006 cofactor binding site; other site 652103001007 DNA binding site [nucleotide binding] 652103001008 substrate interaction site [chemical binding]; other site 652103001009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103001010 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; cl01891 652103001011 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 652103001012 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 652103001013 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 652103001014 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103001015 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 652103001016 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 652103001017 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 652103001018 minor groove reading motif; other site 652103001019 helix-hairpin-helix signature motif; other site 652103001020 substrate binding pocket [chemical binding]; other site 652103001021 active site 652103001022 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 652103001023 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 652103001024 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103001025 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103001026 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 652103001027 DNA binding site [nucleotide binding] 652103001028 active site 652103001029 Sulfatase; Region: Sulfatase; cl10460 652103001030 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 652103001031 dihydrodipicolinate reductase; Provisional; Region: PRK00048 652103001032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001033 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 652103001034 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 652103001035 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 652103001036 active site 652103001037 dimer interface [polypeptide binding]; other site 652103001038 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103001039 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103001040 S-adenosylmethionine binding site [chemical binding]; other site 652103001041 chaperone protein DnaJ; Provisional; Region: PRK10767 652103001042 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 652103001043 HSP70 interaction site [polypeptide binding]; other site 652103001044 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 652103001045 substrate binding site [polypeptide binding]; other site 652103001046 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 652103001047 Zn binding sites [ion binding]; other site 652103001048 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 652103001049 dimer interface [polypeptide binding]; other site 652103001050 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 652103001051 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 652103001052 dimer interface [polypeptide binding]; other site 652103001053 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 652103001054 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 652103001055 HrcA protein C terminal domain; Region: HrcA; pfam01628 652103001056 ribonuclease PH; Reviewed; Region: rph; PRK00173 652103001057 Ribonuclease PH; Region: RNase_PH_bact; cd11362 652103001058 hexamer interface [polypeptide binding]; other site 652103001059 active site 652103001060 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 652103001061 active site 652103001062 dimerization interface [polypeptide binding]; other site 652103001063 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 652103001064 HemN C-terminal domain; Region: HemN_C; pfam06969 652103001065 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103001066 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 652103001067 putative ligand binding site [chemical binding]; other site 652103001068 Predicted methyltransferases [General function prediction only]; Region: COG0313 652103001069 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103001070 Restriction endonuclease; Region: Mrr_cat; cl00516 652103001071 glutathione synthetase; Provisional; Region: PRK05246 652103001072 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 652103001073 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103001074 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103001075 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 652103001076 DNA binding residues [nucleotide binding] 652103001077 dimerization interface [polypeptide binding]; other site 652103001078 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103001079 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 652103001080 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 652103001081 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 652103001082 Walker A motif; other site 652103001083 ATP binding site [chemical binding]; other site 652103001084 Walker B motif; other site 652103001085 arginine finger; other site 652103001086 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 652103001087 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 652103001088 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 652103001089 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 652103001090 ATP binding site [chemical binding]; other site 652103001091 Mg2+ binding site [ion binding]; other site 652103001092 G-X-G motif; other site 652103001093 Response regulator receiver domain; Region: Response_reg; pfam00072 652103001094 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001095 active site 652103001096 phosphorylation site [posttranslational modification] 652103001097 intermolecular recognition site; other site 652103001098 dimerization interface [polypeptide binding]; other site 652103001099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103001100 pantothenate kinase; Provisional; Region: PRK05439 652103001101 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 in...; Region: PanK; cd02025 652103001102 ATP-binding site [chemical binding]; other site 652103001103 CoA-binding site [chemical binding]; other site 652103001104 Mg2+-binding site [ion binding]; other site 652103001105 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 652103001106 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 652103001107 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 652103001108 substrate binding site [chemical binding]; other site 652103001109 glutamase interaction surface [polypeptide binding]; other site 652103001110 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 652103001111 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 652103001112 catalytic residues [active] 652103001113 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 652103001114 GIY-YIG motif/motif A; other site 652103001115 putative active site [active] 652103001116 putative metal binding site [ion binding]; other site 652103001117 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 652103001118 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 652103001119 putative active site [active] 652103001120 oxyanion strand; other site 652103001121 catalytic triad [active] 652103001122 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 652103001123 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 652103001124 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 652103001125 putative active site pocket [active] 652103001126 4-fold oligomerization interface [polypeptide binding]; other site 652103001127 metal binding residues [ion binding]; metal-binding site 652103001128 3-fold/trimer interface [polypeptide binding]; other site 652103001129 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 652103001130 active site 652103001131 HslU subunit interaction site [polypeptide binding]; other site 652103001132 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 652103001133 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 652103001134 Walker A motif; other site 652103001135 ATP binding site [chemical binding]; other site 652103001136 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001137 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 652103001138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 652103001139 Smr domain; Region: Smr; cl02619 652103001140 MltA specific insert domain; Region: MltA; cl08398 652103001141 3D domain; Region: 3D; cl01439 652103001142 Tim44-like domain; Region: Tim44; cl09208 652103001143 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 652103001144 SecA binding site; other site 652103001145 Preprotein binding site; other site 652103001146 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 652103001147 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 652103001148 active site 652103001149 substrate binding site [chemical binding]; other site 652103001150 catalytic site [active] 652103001151 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 652103001152 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 652103001153 CoA-binding site [chemical binding]; other site 652103001154 ATP-binding [chemical binding]; other site 652103001155 Maf-like protein; Region: Maf; pfam02545 652103001156 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 652103001157 putative active site [active] 652103001158 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 652103001159 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 652103001160 transcription termination factor Rho; Provisional; Region: rho; PRK09376 652103001161 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 652103001162 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 652103001163 RNA binding site [nucleotide binding]; other site 652103001164 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 652103001165 multimer interface [polypeptide binding]; other site 652103001166 Walker A motif; other site 652103001167 ATP binding site [chemical binding]; other site 652103001168 Walker B motif; other site 652103001169 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 652103001170 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 652103001171 trmE is a tRNA modification GTPase; Region: trmE; cd04164 652103001172 G1 box; other site 652103001173 GTP/Mg2+ binding site [chemical binding]; other site 652103001174 Switch I region; other site 652103001175 G2 box; other site 652103001176 Switch II region; other site 652103001177 G3 box; other site 652103001178 G4 box; other site 652103001179 G5 box; other site 652103001180 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 652103001181 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 652103001182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001183 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 652103001184 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103001185 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 652103001186 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 652103001187 P-loop; other site 652103001188 Magnesium ion binding site [ion binding]; other site 652103001189 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 652103001190 Magnesium ion binding site [ion binding]; other site 652103001191 ParB-like partition proteins; Region: parB_part; TIGR00180 652103001192 ParB-like nuclease domain; Region: ParBc; cl02129 652103001193 KorB domain; Region: KorB; pfam08535 652103001194 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103001195 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103001196 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103001197 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 652103001198 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 652103001199 Lipopolysaccharide-assembly; Region: LptE; cl01125 652103001200 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 652103001201 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 652103001202 HIGH motif; other site 652103001203 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 652103001204 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103001205 active site 652103001206 KMSKS motif; other site 652103001207 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 652103001208 tRNA binding surface [nucleotide binding]; other site 652103001209 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 652103001210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103001211 metal binding site [ion binding]; metal-binding site 652103001212 active site 652103001213 I-site; other site 652103001214 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 652103001215 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103001216 catalytic residue [active] 652103001217 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103001218 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103001219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001220 active site 652103001221 phosphorylation site [posttranslational modification] 652103001222 intermolecular recognition site; other site 652103001223 dimerization interface [polypeptide binding]; other site 652103001224 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 652103001225 DNA binding site [nucleotide binding] 652103001226 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 652103001227 ligand binding site [chemical binding]; other site 652103001228 flexible hinge region; other site 652103001229 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 652103001230 putative phosphate binding site [ion binding]; other site 652103001231 putative catalytic site [active] 652103001232 active site 652103001233 metal binding site A [ion binding]; metal-binding site 652103001234 DNA binding site [nucleotide binding] 652103001235 putative AP binding site [nucleotide binding]; other site 652103001236 putative metal binding site B [ion binding]; other site 652103001237 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103001238 S-adenosylmethionine binding site [chemical binding]; other site 652103001239 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 652103001240 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 652103001241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001242 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 652103001243 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 652103001244 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 652103001245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103001246 homodimer interface [polypeptide binding]; other site 652103001247 catalytic residue [active] 652103001248 Protein of unknown function DUF86; Region: DUF86; cl01031 652103001249 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103001250 active site 652103001251 NTP binding site [chemical binding]; other site 652103001252 metal binding triad [ion binding]; metal-binding site 652103001253 antibiotic binding site [chemical binding]; other site 652103001254 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 652103001255 Nitrogen regulatory protein P-II; Region: P-II; cl00412 652103001256 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103001257 Nitrogen regulatory protein P-II; Region: P-II; cl00412 652103001258 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103001259 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 652103001260 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 652103001261 active site 652103001262 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 652103001263 catalytic triad [active] 652103001264 dimer interface [polypeptide binding]; other site 652103001265 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 652103001266 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001267 Trm112p-like protein; Region: Trm112p; cl01066 652103001268 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 652103001269 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 652103001270 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 652103001271 catalytic residues [active] 652103001272 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 652103001273 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103001274 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 652103001275 dimer interface [polypeptide binding]; other site 652103001276 conserved gate region; other site 652103001277 putative PBP binding loops; other site 652103001278 ABC-ATPase subunit interface; other site 652103001279 NMT1-like family; Region: NMT1_2; cl15260 652103001280 NMT1/THI5 like; Region: NMT1; pfam09084 652103001281 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103001282 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103001283 Walker A/P-loop; other site 652103001284 ATP binding site [chemical binding]; other site 652103001285 Q-loop/lid; other site 652103001286 ABC transporter signature motif; other site 652103001287 Walker B; other site 652103001288 D-loop; other site 652103001289 H-loop/switch region; other site 652103001290 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 652103001291 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 652103001292 active site residue [active] 652103001293 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 652103001294 active site residue [active] 652103001295 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103001296 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 652103001297 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103001298 OsmC-like protein; Region: OsmC; cl00767 652103001299 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103001300 Helix-turn-helix domains; Region: HTH; cl00088 652103001301 OpgC protein; Region: OpgC_C; cl00792 652103001302 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103001303 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 652103001304 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 652103001305 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 652103001306 dimer interface [polypeptide binding]; other site 652103001307 catalytic residue [active] 652103001308 metal binding site [ion binding]; metal-binding site 652103001309 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 652103001310 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 652103001311 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 652103001312 active site 652103001313 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 652103001314 UGMP family protein; Validated; Region: PRK09604 652103001315 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 652103001316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001317 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 652103001318 EVE domain; Region: EVE; cl00728 652103001319 Predicted methyltransferase [General function prediction only]; Region: COG3897 652103001320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001321 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103001322 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 652103001323 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 652103001324 FeS/SAM binding site; other site 652103001325 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 652103001326 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 652103001327 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 652103001328 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 652103001329 Protein of unknown function (DUF541); Region: SIMPL; cl01077 652103001330 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103001331 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103001332 putative active site [active] 652103001333 homotetrameric interface [polypeptide binding]; other site 652103001334 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 652103001335 signal recognition particle protein; Provisional; Region: PRK10867 652103001336 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 652103001337 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 652103001338 P loop; other site 652103001339 GTP binding site [chemical binding]; other site 652103001340 Signal peptide binding domain; Region: SRP_SPB; pfam02978 652103001341 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 652103001342 RimM N-terminal domain; Region: RimM; pfam01782 652103001343 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 652103001344 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 652103001345 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 652103001346 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 652103001347 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 652103001348 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 652103001349 substrate binding site [chemical binding]; other site 652103001350 ligand binding site [chemical binding]; other site 652103001351 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 652103001352 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 652103001353 substrate binding site [chemical binding]; other site 652103001354 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103001355 dimer interface [polypeptide binding]; other site 652103001356 putative CheW interface [polypeptide binding]; other site 652103001357 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103001358 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 652103001359 active site clefts [active] 652103001360 zinc binding site [ion binding]; other site 652103001361 dimer interface [polypeptide binding]; other site 652103001362 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 652103001363 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 652103001364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001365 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 652103001366 Transposase domain (DUF772); Region: DUF772; cl15789 652103001367 Transposase domain (DUF772); Region: DUF772; cl15789 652103001368 tartrate dehydrogenase; Provisional; Region: PRK08194 652103001369 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 652103001370 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 652103001371 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 652103001372 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 652103001373 Moco binding site; other site 652103001374 metal coordination site [ion binding]; other site 652103001375 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 652103001376 Fasciclin domain; Region: Fasciclin; cl02663 652103001377 malonyl-CoA synthase; Validated; Region: PRK07514 652103001378 AMP-binding enzyme; Region: AMP-binding; cl15778 652103001379 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103001380 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 652103001381 Cation efflux family; Region: Cation_efflux; cl00316 652103001382 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 652103001383 Iron-sulfur protein interface; other site 652103001384 proximal quinone binding site [chemical binding]; other site 652103001385 SdhD (CybS) interface [polypeptide binding]; other site 652103001386 proximal heme binding site [chemical binding]; other site 652103001387 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 652103001388 putative SdhC subunit interface [polypeptide binding]; other site 652103001389 putative proximal heme binding site [chemical binding]; other site 652103001390 putative Iron-sulfur protein interface [polypeptide binding]; other site 652103001391 putative proximal quinone binding site; other site 652103001392 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 652103001393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001394 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 652103001395 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 652103001396 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 652103001397 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103001398 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103001399 ligand binding site [chemical binding]; other site 652103001400 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103001401 acetyl-CoA synthetase; Provisional; Region: PRK00174 652103001402 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 652103001403 AMP-binding enzyme; Region: AMP-binding; cl15778 652103001404 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103001405 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 652103001406 active site 652103001407 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 652103001408 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 652103001409 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 652103001410 P loop; other site 652103001411 GTP binding site [chemical binding]; other site 652103001412 Intracellular septation protein A; Region: IspA; cl01098 652103001413 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 652103001414 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 652103001415 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 652103001416 catalytic residues [active] 652103001417 central insert; other site 652103001418 Heme exporter protein D (CcmD); Region: CcmD; cl11475 652103001419 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 652103001420 CcmB protein; Region: CcmB; cl01016 652103001421 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 652103001422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001423 Walker A/P-loop; other site 652103001424 ATP binding site [chemical binding]; other site 652103001425 Q-loop/lid; other site 652103001426 ABC transporter signature motif; other site 652103001427 Walker B; other site 652103001428 D-loop; other site 652103001429 H-loop/switch region; other site 652103001430 aconitate hydratase; Validated; Region: PRK09277 652103001431 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 652103001432 substrate binding site [chemical binding]; other site 652103001433 ligand binding site [chemical binding]; other site 652103001434 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 652103001435 substrate binding site [chemical binding]; other site 652103001436 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 652103001437 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 652103001438 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 652103001439 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103001440 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 652103001441 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 652103001442 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 652103001443 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103001444 Walker A/P-loop; other site 652103001445 ATP binding site [chemical binding]; other site 652103001446 Q-loop/lid; other site 652103001447 ABC transporter signature motif; other site 652103001448 Walker B; other site 652103001449 D-loop; other site 652103001450 H-loop/switch region; other site 652103001451 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 652103001452 active site 652103001453 catalytic triad [active] 652103001454 oxyanion hole [active] 652103001455 switch loop; other site 652103001456 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 652103001457 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 652103001458 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 652103001459 Predicted ATPase [General function prediction only]; Region: COG1485 652103001460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001461 malate dehydrogenase; Reviewed; Region: PRK06223 652103001462 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 652103001463 NAD(P) binding site [chemical binding]; other site 652103001464 dimer interface [polypeptide binding]; other site 652103001465 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103001466 substrate binding site [chemical binding]; other site 652103001467 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 652103001468 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103001469 CoA-ligase; Region: Ligase_CoA; cl02894 652103001470 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 652103001471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001472 CoA-ligase; Region: Ligase_CoA; cl02894 652103001473 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 652103001474 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 652103001475 TPP-binding site [chemical binding]; other site 652103001476 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 652103001477 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 652103001478 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 652103001479 E3 interaction surface; other site 652103001480 lipoyl attachment site [posttranslational modification]; other site 652103001481 e3 binding domain; Region: E3_binding; pfam02817 652103001482 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 652103001483 MAPEG family; Region: MAPEG; cl09190 652103001484 short chain dehydrogenase; Provisional; Region: PRK06123 652103001485 classical (c) SDRs; Region: SDR_c; cd05233 652103001486 NAD(P) binding site [chemical binding]; other site 652103001487 active site 652103001488 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 652103001489 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001490 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103001491 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103001492 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 652103001493 transmembrane helices; other site 652103001494 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 652103001495 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 652103001496 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 652103001497 DNA binding site [nucleotide binding] 652103001498 Int/Topo IB signature motif; other site 652103001499 active site 652103001500 primosome assembly protein PriA; Validated; Region: PRK05580 652103001501 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 652103001502 ATP binding site [chemical binding]; other site 652103001503 putative Mg++ binding site [ion binding]; other site 652103001504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001505 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 652103001506 Plant ATP synthase F0; Region: YMF19; cl07975 652103001507 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 652103001508 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 652103001509 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 652103001510 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 652103001511 beta subunit interaction interface [polypeptide binding]; other site 652103001512 Walker A motif; other site 652103001513 ATP binding site [chemical binding]; other site 652103001514 Walker B motif; other site 652103001515 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 652103001516 ATP synthase; Region: ATP-synt; cl00365 652103001517 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 652103001518 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 652103001519 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 652103001520 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 652103001521 alpha subunit interaction interface [polypeptide binding]; other site 652103001522 Walker A motif; other site 652103001523 ATP binding site [chemical binding]; other site 652103001524 Walker B motif; other site 652103001525 inhibitor binding site; inhibition site 652103001526 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 652103001527 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13448 652103001528 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 652103001529 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 652103001530 putative active site [active] 652103001531 Ap4A binding site [chemical binding]; other site 652103001532 nudix motif; other site 652103001533 putative metal binding site [ion binding]; other site 652103001534 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 652103001535 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103001536 NAD binding site [chemical binding]; other site 652103001537 putative substrate binding site 2 [chemical binding]; other site 652103001538 putative substrate binding site 1 [chemical binding]; other site 652103001539 active site 652103001540 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 652103001541 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 652103001542 putative active site [active] 652103001543 Ap4A binding site [chemical binding]; other site 652103001544 nudix motif; other site 652103001545 putative metal binding site [ion binding]; other site 652103001546 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 652103001547 NodB motif; other site 652103001548 putative active site [active] 652103001549 Zn binding site [ion binding]; other site 652103001550 putative catalytic site [active] 652103001551 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 652103001552 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 652103001553 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 652103001554 protein binding site [polypeptide binding]; other site 652103001555 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 652103001556 Catalytic dyad [active] 652103001557 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 652103001558 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 652103001559 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 652103001560 Oligomerisation domain; Region: Oligomerisation; cl00519 652103001561 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 652103001562 active site 652103001563 (T/H)XGH motif; other site 652103001564 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 652103001565 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 652103001566 putative catalytic cysteine [active] 652103001567 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 652103001568 gamma-glutamyl kinase; Provisional; Region: PRK05429 652103001569 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 652103001570 nucleotide binding site [chemical binding]; other site 652103001571 homotetrameric interface [polypeptide binding]; other site 652103001572 putative phosphate binding site [ion binding]; other site 652103001573 putative allosteric binding site; other site 652103001574 PUA domain; Region: PUA; cl00607 652103001575 GTPase CgtA; Reviewed; Region: obgE; PRK12299 652103001576 GTP1/OBG; Region: GTP1_OBG; pfam01018 652103001577 Obg GTPase; Region: Obg; cd01898 652103001578 G1 box; other site 652103001579 GTP/Mg2+ binding site [chemical binding]; other site 652103001580 Switch I region; other site 652103001581 G2 box; other site 652103001582 G3 box; other site 652103001583 Switch II region; other site 652103001584 G4 box; other site 652103001585 G5 box; other site 652103001586 Predicted permeases [General function prediction only]; Region: RarD; COG2962 652103001587 EamA-like transporter family; Region: EamA; cl01037 652103001588 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 652103001589 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103001590 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 652103001591 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 652103001592 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 652103001593 HipA N-terminal domain; Region: Couple_hipA; cl11853 652103001594 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 652103001595 HipA-like N-terminal domain; Region: HipA_N; pfam07805 652103001596 HipA-like C-terminal domain; Region: HipA_C; pfam07804 652103001597 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 652103001598 non-specific DNA binding site [nucleotide binding]; other site 652103001599 salt bridge; other site 652103001600 sequence-specific DNA binding site [nucleotide binding]; other site 652103001601 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 652103001602 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 652103001603 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 652103001604 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 652103001605 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 652103001606 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 652103001607 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 652103001608 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 652103001609 putative substrate-binding site; other site 652103001610 nickel binding site [ion binding]; other site 652103001611 HupE / UreJ protein; Region: HupE_UreJ; cl01011 652103001612 HupF/HypC family; Region: HupF_HypC; cl00394 652103001613 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 652103001614 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 652103001615 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 652103001616 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 652103001617 Rubredoxin; Region: Rubredoxin; pfam00301 652103001618 iron binding site [ion binding]; other site 652103001619 Protein of unknown function (DUF3457); Region: DUF3457; cl08122 652103001620 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 652103001621 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 652103001622 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 652103001623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001624 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 652103001625 Acylphosphatase; Region: Acylphosphatase; cl00551 652103001626 HypF finger; Region: zf-HYPF; pfam07503 652103001627 HypF finger; Region: zf-HYPF; pfam07503 652103001628 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 652103001629 HupF/HypC family; Region: HupF_HypC; cl00394 652103001630 Hydrogenase formation hypA family; Region: HypD; cl12072 652103001631 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 652103001632 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 652103001633 dimerization interface [polypeptide binding]; other site 652103001634 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 652103001635 ATP binding site [chemical binding]; other site 652103001636 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103001637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001638 active site 652103001639 phosphorylation site [posttranslational modification] 652103001640 intermolecular recognition site; other site 652103001641 dimerization interface [polypeptide binding]; other site 652103001642 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 652103001643 Walker A motif; other site 652103001644 ATP binding site [chemical binding]; other site 652103001645 Walker B motif; other site 652103001646 arginine finger; other site 652103001647 Helix-turn-helix domains; Region: HTH; cl00088 652103001648 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 652103001649 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103001650 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 652103001651 dimer interface [polypeptide binding]; other site 652103001652 phosphorylation site [posttranslational modification] 652103001653 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 652103001654 ATP binding site [chemical binding]; other site 652103001655 Mg2+ binding site [ion binding]; other site 652103001656 G-X-G motif; other site 652103001657 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103001658 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 652103001659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001660 active site 652103001661 phosphorylation site [posttranslational modification] 652103001662 intermolecular recognition site; other site 652103001663 dimerization interface [polypeptide binding]; other site 652103001664 CheB methylesterase; Region: CheB_methylest; pfam01339 652103001665 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 652103001666 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 652103001667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001668 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103001669 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103001670 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103001671 dimer interface [polypeptide binding]; other site 652103001672 putative CheW interface [polypeptide binding]; other site 652103001673 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 652103001674 putative CheA interaction surface; other site 652103001675 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 652103001676 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 652103001677 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 652103001678 putative binding surface; other site 652103001679 active site 652103001680 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 652103001681 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 652103001682 ATP binding site [chemical binding]; other site 652103001683 Mg2+ binding site [ion binding]; other site 652103001684 G-X-G motif; other site 652103001685 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 652103001686 Response regulator receiver domain; Region: Response_reg; pfam00072 652103001687 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001688 active site 652103001689 phosphorylation site [posttranslational modification] 652103001690 intermolecular recognition site; other site 652103001691 dimerization interface [polypeptide binding]; other site 652103001692 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 652103001693 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 652103001694 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103001695 active site 652103001696 phosphorylation site [posttranslational modification] 652103001697 intermolecular recognition site; other site 652103001698 dimerization interface [polypeptide binding]; other site 652103001699 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103001700 Zn2+ binding site [ion binding]; other site 652103001701 Mg2+ binding site [ion binding]; other site 652103001702 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 652103001703 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 652103001704 D-pathway; other site 652103001705 Putative ubiquinol binding site [chemical binding]; other site 652103001706 Low-spin heme (heme b) binding site [chemical binding]; other site 652103001707 Putative water exit pathway; other site 652103001708 Binuclear center (heme o3/CuB) [ion binding]; other site 652103001709 K-pathway; other site 652103001710 Putative proton exit pathway; other site 652103001711 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 652103001712 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103001713 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 652103001714 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 652103001715 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 652103001716 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 652103001717 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 652103001718 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 652103001719 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 652103001720 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 652103001721 metal ion-dependent adhesion site (MIDAS); other site 652103001722 Domain of unknown function DUF29; Region: DUF29; pfam01724 652103001723 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 652103001724 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 652103001725 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001726 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 652103001727 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 652103001728 HSP70 interaction site [polypeptide binding]; other site 652103001729 BolA-like protein; Region: BolA; cl00386 652103001730 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 652103001731 Domain of unknown function DUF21; Region: DUF21; pfam01595 652103001732 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 652103001733 Transporter associated domain; Region: CorC_HlyC; cl08393 652103001734 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 652103001735 active site 652103001736 dimer interface [polypeptide binding]; other site 652103001737 metal binding site [ion binding]; metal-binding site 652103001738 shikimate kinase; Provisional; Region: PRK13946 652103001739 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 652103001740 ADP binding site [chemical binding]; other site 652103001741 magnesium binding site [ion binding]; other site 652103001742 putative shikimate binding site; other site 652103001743 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 652103001744 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 652103001745 DNA binding site [nucleotide binding] 652103001746 Int/Topo IB signature motif; other site 652103001747 active site 652103001748 Helix-turn-helix domains; Region: HTH; cl00088 652103001749 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103001750 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 652103001751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 652103001752 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 652103001753 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 652103001754 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 652103001755 hypothetical protein; Provisional; Region: PRK10396 652103001756 SEC-C motif; Region: SEC-C; pfam02810 652103001757 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 652103001758 PPIC-type PPIASE domain; Region: Rotamase; cl08278 652103001759 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 652103001760 MutS domain I; Region: MutS_I; pfam01624 652103001761 MutS domain II; Region: MutS_II; pfam05188 652103001762 MutS family domain IV; Region: MutS_IV; pfam05190 652103001763 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 652103001764 Walker A/P-loop; other site 652103001765 ATP binding site [chemical binding]; other site 652103001766 Q-loop/lid; other site 652103001767 ABC transporter signature motif; other site 652103001768 Walker B; other site 652103001769 D-loop; other site 652103001770 H-loop/switch region; other site 652103001771 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 652103001772 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 652103001773 dimer interface [polypeptide binding]; other site 652103001774 active site 652103001775 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103001776 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 652103001777 putative substrate translocation pore; other site 652103001778 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 652103001779 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 652103001780 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103001781 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103001782 Helix-turn-helix domains; Region: HTH; cl00088 652103001783 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103001784 metal binding site 2 [ion binding]; metal-binding site 652103001785 putative DNA binding helix; other site 652103001786 metal binding site 1 [ion binding]; metal-binding site 652103001787 dimer interface [polypeptide binding]; other site 652103001788 structural Zn2+ binding site [ion binding]; other site 652103001789 EamA-like transporter family; Region: EamA; cl01037 652103001790 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103001791 EamA-like transporter family; Region: EamA; cl01037 652103001792 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 652103001793 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 652103001794 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 652103001795 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103001796 metal binding site [ion binding]; metal-binding site 652103001797 active site 652103001798 I-site; other site 652103001799 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 652103001800 Sensors of blue-light using FAD; Region: BLUF; cl04855 652103001801 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103001802 substrate binding pocket [chemical binding]; other site 652103001803 chain length determination region; other site 652103001804 substrate-Mg2+ binding site; other site 652103001805 catalytic residues [active] 652103001806 aspartate-rich region 1; other site 652103001807 active site lid residues [active] 652103001808 aspartate-rich region 2; other site 652103001809 Transglycosylase; Region: Transgly; cl07896 652103001810 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 652103001811 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 652103001812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 652103001813 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 652103001814 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 652103001815 putative acyltransferase; Provisional; Region: PRK05790 652103001816 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 652103001817 dimer interface [polypeptide binding]; other site 652103001818 active site 652103001819 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 652103001820 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 652103001821 NAD(P) binding site [chemical binding]; other site 652103001822 homotetramer interface [polypeptide binding]; other site 652103001823 homodimer interface [polypeptide binding]; other site 652103001824 active site 652103001825 aromatic amino acid exporter; Provisional; Region: PRK11689 652103001826 EamA-like transporter family; Region: EamA; cl01037 652103001827 aromatic amino acid exporter; Provisional; Region: PRK11689 652103001828 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 652103001829 catalytic motif [active] 652103001830 Catalytic residue [active] 652103001831 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 652103001832 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 652103001833 ATP binding site [chemical binding]; other site 652103001834 putative Mg++ binding site [ion binding]; other site 652103001835 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 652103001836 nucleotide binding region [chemical binding]; other site 652103001837 ATP-binding site [chemical binding]; other site 652103001838 Helicase associated domain (HA2); Region: HA2; cl04503 652103001839 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 652103001840 OpgC protein; Region: OpgC_C; cl00792 652103001841 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103001842 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103001843 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 652103001844 Walker A motif; other site 652103001845 ATP binding site [chemical binding]; other site 652103001846 Walker B motif; other site 652103001847 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 652103001848 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 652103001849 putative substrate translocation pore; other site 652103001850 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103001851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001852 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001853 Walker A motif; other site 652103001854 ATP binding site [chemical binding]; other site 652103001855 Walker B motif; other site 652103001856 TrbC/VIRB2 family; Region: TrbC; cl01583 652103001857 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103001858 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103001859 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103001860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103001861 Walker A/P-loop; other site 652103001862 ATP binding site [chemical binding]; other site 652103001863 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 652103001864 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 652103001865 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103001866 VirB8 protein; Region: VirB8; cl01500 652103001867 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103001868 VirB7 interaction site; other site 652103001869 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 652103001870 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 652103001871 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103001872 Helix-turn-helix domains; Region: HTH; cl00088 652103001873 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 652103001874 dimerization interface [polypeptide binding]; other site 652103001875 substrate binding pocket [chemical binding]; other site 652103001876 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103001877 transcriptional regulator TraR; Provisional; Region: PRK13870 652103001878 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103001879 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 652103001880 DNA binding residues [nucleotide binding] 652103001881 dimerization interface [polypeptide binding]; other site 652103001882 choline dehydrogenase; Validated; Region: PRK02106 652103001883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103001884 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103001885 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103001886 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103001887 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103001888 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 652103001889 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 652103001890 dimer interface [polypeptide binding]; other site 652103001891 conserved gate region; other site 652103001892 putative PBP binding loops; other site 652103001893 ABC-ATPase subunit interface; other site 652103001894 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103001895 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 652103001896 dimer interface [polypeptide binding]; other site 652103001897 conserved gate region; other site 652103001898 putative PBP binding loops; other site 652103001899 ABC-ATPase subunit interface; other site 652103001900 Transcriptional regulators [Transcription]; Region: FadR; COG2186 652103001901 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103001902 DNA-binding site [nucleotide binding]; DNA binding site 652103001903 FCD domain; Region: FCD; cl11656 652103001904 glutathione reductase; Validated; Region: PRK06116 652103001905 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103001906 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103001907 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103001908 AMP-binding enzyme; Region: AMP-binding; cl15778 652103001909 AMP-binding enzyme; Region: AMP-binding; cl15778 652103001910 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103001911 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103001912 tetramerization interface [polypeptide binding]; other site 652103001913 NAD(P) binding site [chemical binding]; other site 652103001914 catalytic residues [active] 652103001915 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 652103001916 active site 652103001917 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 652103001918 FAD binding domain; Region: FAD_binding_4; pfam01565 652103001919 FAD binding domain; Region: FAD_binding_4; pfam01565 652103001920 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 652103001921 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 652103001922 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 652103001923 Cysteine-rich domain; Region: CCG; pfam02754 652103001924 Cysteine-rich domain; Region: CCG; pfam02754 652103001925 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 652103001926 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103001927 Walker A/P-loop; other site 652103001928 ATP binding site [chemical binding]; other site 652103001929 Q-loop/lid; other site 652103001930 ABC transporter signature motif; other site 652103001931 Walker B; other site 652103001932 D-loop; other site 652103001933 H-loop/switch region; other site 652103001934 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103001935 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103001936 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103001937 Walker A/P-loop; other site 652103001938 ATP binding site [chemical binding]; other site 652103001939 Q-loop/lid; other site 652103001940 ABC transporter signature motif; other site 652103001941 Walker B; other site 652103001942 D-loop; other site 652103001943 H-loop/switch region; other site 652103001944 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103001945 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 652103001946 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103001947 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103001948 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 652103001949 dimer interface [polypeptide binding]; other site 652103001950 conserved gate region; other site 652103001951 putative PBP binding loops; other site 652103001952 ABC-ATPase subunit interface; other site 652103001953 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103001954 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 652103001955 dimer interface [polypeptide binding]; other site 652103001956 conserved gate region; other site 652103001957 putative PBP binding loops; other site 652103001958 ABC-ATPase subunit interface; other site 652103001959 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103001960 FAD binding domain; Region: FAD_binding_4; pfam01565 652103001961 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 652103001962 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 652103001963 C-terminal domain interface [polypeptide binding]; other site 652103001964 GSH binding site (G-site) [chemical binding]; other site 652103001965 dimer interface [polypeptide binding]; other site 652103001966 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103001967 N-terminal domain interface [polypeptide binding]; other site 652103001968 dimer interface [polypeptide binding]; other site 652103001969 substrate binding pocket (H-site) [chemical binding]; other site 652103001970 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 652103001971 [2Fe-2S] cluster binding site [ion binding]; other site 652103001972 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 652103001973 iron-sulfur cluster [ion binding]; other site 652103001974 [2Fe-2S] cluster binding site [ion binding]; other site 652103001975 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 652103001976 putative alpha subunit interface [polypeptide binding]; other site 652103001977 putative active site [active] 652103001978 putative substrate binding site [chemical binding]; other site 652103001979 Fe binding site [ion binding]; other site 652103001980 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 652103001981 inter-subunit interface; other site 652103001982 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 652103001983 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103001984 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 652103001985 active site 652103001986 NTP binding site [chemical binding]; other site 652103001987 metal binding triad [ion binding]; metal-binding site 652103001988 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 652103001989 active site 652103001990 nucleophile elbow; other site 652103001991 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 652103001992 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 652103001993 non-specific DNA binding site [nucleotide binding]; other site 652103001994 salt bridge; other site 652103001995 sequence-specific DNA binding site [nucleotide binding]; other site 652103001996 Domain of unknown function (DUF955); Region: DUF955; cl01076 652103001997 integrase; Provisional; Region: PRK09692 652103001998 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 652103001999 active site 652103002000 Int/Topo IB signature motif; other site 652103002001 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 652103002002 GAF domain; Region: GAF_2; pfam13185 652103002003 GAF domain; Region: GAF; cl15785 652103002004 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103002005 Histidine kinase; Region: HisKA_2; cl06527 652103002006 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 652103002007 ATP binding site [chemical binding]; other site 652103002008 Mg2+ binding site [ion binding]; other site 652103002009 G-X-G motif; other site 652103002010 Response regulator receiver domain; Region: Response_reg; pfam00072 652103002011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002012 active site 652103002013 phosphorylation site [posttranslational modification] 652103002014 intermolecular recognition site; other site 652103002015 dimerization interface [polypeptide binding]; other site 652103002016 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 652103002017 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 652103002018 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 652103002019 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 652103002020 LrgA family; Region: LrgA; cl00608 652103002021 LrgB-like family; Region: LrgB; cl00596 652103002022 Predicted esterase [General function prediction only]; Region: COG0400 652103002023 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103002024 Domain of unknown function DUF20; Region: UPF0118; pfam01594 652103002025 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 652103002026 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 652103002027 Putative zinc-finger; Region: zf-HC2; cl15806 652103002028 Cupin domain; Region: Cupin_2; cl09118 652103002029 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 652103002030 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103002031 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 652103002032 DNA binding residues [nucleotide binding] 652103002033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002034 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103002035 Helix-turn-helix domains; Region: HTH; cl00088 652103002036 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 652103002037 putative dimerization interface [polypeptide binding]; other site 652103002038 putative substrate binding pocket [chemical binding]; other site 652103002039 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 652103002040 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 652103002041 hypothetical protein; Provisional; Region: PRK11171 652103002042 Cupin domain; Region: Cupin_2; cl09118 652103002043 Cupin domain; Region: Cupin_2; cl09118 652103002044 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 652103002045 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 652103002046 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103002047 S-adenosylmethionine binding site [chemical binding]; other site 652103002048 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 652103002049 active site 652103002050 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103002051 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 652103002052 dimer interface [polypeptide binding]; other site 652103002053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002054 catalytic residue [active] 652103002055 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 652103002056 ATP binding site [chemical binding]; other site 652103002057 active site 652103002058 substrate binding site [chemical binding]; other site 652103002059 Pirin-related protein [General function prediction only]; Region: COG1741 652103002060 Cupin domain; Region: Cupin_2; cl09118 652103002061 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 652103002062 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 652103002063 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 652103002064 PAS domain; Region: PAS_9; pfam13426 652103002065 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 652103002066 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 652103002067 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 652103002068 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103002069 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 652103002070 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103002071 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103002072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002073 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 652103002074 metal ion-dependent adhesion site (MIDAS); other site 652103002075 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 652103002076 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 652103002077 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002078 active site 652103002079 phosphorylation site [posttranslational modification] 652103002080 intermolecular recognition site; other site 652103002081 dimerization interface [polypeptide binding]; other site 652103002082 Helix-turn-helix domains; Region: HTH; cl00088 652103002083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103002084 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 652103002085 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 652103002086 ATP binding site [chemical binding]; other site 652103002087 Mg2+ binding site [ion binding]; other site 652103002088 G-X-G motif; other site 652103002089 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 652103002090 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 652103002091 Walker A/P-loop; other site 652103002092 ATP binding site [chemical binding]; other site 652103002093 Q-loop/lid; other site 652103002094 ABC transporter signature motif; other site 652103002095 Walker B; other site 652103002096 D-loop; other site 652103002097 H-loop/switch region; other site 652103002098 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 652103002099 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 652103002100 Protein of unknown function DUF45; Region: DUF45; cl00636 652103002101 Transglycosylase; Region: Transgly; cl07896 652103002102 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 652103002103 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103002104 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 652103002105 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103002106 putative ligand binding site [chemical binding]; other site 652103002107 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 652103002108 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 652103002109 DNA polymerase, archaeal type II, large subunit; Region: polC; TIGR00354 652103002110 sensory histidine kinase AtoS; Provisional; Region: PRK11360 652103002111 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 652103002112 dimer interface [polypeptide binding]; other site 652103002113 phosphorylation site [posttranslational modification] 652103002114 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 652103002115 ATP binding site [chemical binding]; other site 652103002116 Mg2+ binding site [ion binding]; other site 652103002117 G-X-G motif; other site 652103002118 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103002119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103002120 active site 652103002121 phosphorylation site [posttranslational modification] 652103002122 intermolecular recognition site; other site 652103002123 dimerization interface [polypeptide binding]; other site 652103002124 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 652103002125 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 652103002126 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 652103002127 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 652103002128 RNA binding site [nucleotide binding]; other site 652103002129 Chromate transporter; Region: Chromate_transp; pfam02417 652103002130 Chromate transporter; Region: Chromate_transp; pfam02417 652103002131 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 652103002132 short chain dehydrogenase; Provisional; Region: PRK06197 652103002133 putative NAD(P) binding site [chemical binding]; other site 652103002134 active site 652103002135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002136 Helix-turn-helix domains; Region: HTH; cl00088 652103002137 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 652103002138 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103002139 active site 652103002140 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 652103002141 C-terminal peptidase (prc); Region: prc; TIGR00225 652103002142 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 652103002143 protein binding site [polypeptide binding]; other site 652103002144 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 652103002145 Catalytic dyad [active] 652103002146 PII uridylyl-transferase; Provisional; Region: PRK05092 652103002147 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103002148 metal binding triad; other site 652103002149 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103002150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 652103002151 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 652103002152 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 652103002153 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 652103002154 heterotetramer interface [polypeptide binding]; other site 652103002155 active site pocket [active] 652103002156 cleavage site 652103002157 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 652103002158 active site 652103002159 8-oxo-dGMP binding site [chemical binding]; other site 652103002160 nudix motif; other site 652103002161 metal binding site [ion binding]; metal-binding site 652103002162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002163 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103002164 active site 652103002165 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 652103002166 GSH binding site [chemical binding]; other site 652103002167 catalytic residues [active] 652103002168 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103002169 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 652103002170 putative active site [active] 652103002171 catalytic triad [active] 652103002172 dimer interface [polypeptide binding]; other site 652103002173 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 652103002174 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 652103002175 EamA-like transporter family; Region: EamA; cl01037 652103002176 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002177 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 652103002178 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103002179 S-adenosylmethionine binding site [chemical binding]; other site 652103002180 aspartate kinase; Reviewed; Region: PRK06635 652103002181 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 652103002182 putative nucleotide binding site [chemical binding]; other site 652103002183 putative catalytic residues [active] 652103002184 putative Mg ion binding site [ion binding]; other site 652103002185 putative aspartate binding site [chemical binding]; other site 652103002186 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 652103002187 putative allosteric regulatory site; other site 652103002188 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 652103002189 putative allosteric regulatory residue; other site 652103002190 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 652103002191 GAF domain; Region: GAF; cl15785 652103002192 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 652103002193 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 652103002194 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103002195 RF-1 domain; Region: RF-1; cl02875 652103002196 RF-1 domain; Region: RF-1; cl02875 652103002197 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 652103002198 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103002199 S-adenosylmethionine binding site [chemical binding]; other site 652103002200 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 652103002201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002202 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002203 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 652103002204 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103002205 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 652103002206 substrate binding site [chemical binding]; other site 652103002207 ATP binding site [chemical binding]; other site 652103002208 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 652103002209 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 652103002210 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 652103002211 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 652103002212 putative NADH binding site [chemical binding]; other site 652103002213 putative active site [active] 652103002214 nudix motif; other site 652103002215 putative metal binding site [ion binding]; other site 652103002216 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 652103002217 nucleotide binding site/active site [active] 652103002218 HIT family signature motif; other site 652103002219 catalytic residue [active] 652103002220 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 652103002221 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 652103002222 Walker A motif; other site 652103002223 ATP binding site [chemical binding]; other site 652103002224 Walker B motif; other site 652103002225 arginine finger; other site 652103002226 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 652103002227 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 652103002228 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 652103002229 recombination protein RecR; Reviewed; Region: recR; PRK00076 652103002230 RecR protein; Region: RecR; pfam02132 652103002231 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 652103002232 tetramer interface [polypeptide binding]; other site 652103002233 putative active site [active] 652103002234 putative metal-binding site [ion binding]; other site 652103002235 muropeptide transporter; Validated; Region: ampG; PRK11010 652103002236 muropeptide transporter; Reviewed; Region: ampG; PRK11902 652103002237 RmuC family; Region: RmuC; pfam02646 652103002238 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 652103002239 active site 652103002240 catalytic residues [active] 652103002241 metal binding site [ion binding]; metal-binding site 652103002242 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 652103002243 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 652103002244 putative active site [active] 652103002245 substrate binding site [chemical binding]; other site 652103002246 putative cosubstrate binding site; other site 652103002247 catalytic site [active] 652103002248 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 652103002249 substrate binding site [chemical binding]; other site 652103002250 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 652103002251 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 652103002252 dimerization interface 3.5A [polypeptide binding]; other site 652103002253 active site 652103002254 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 652103002255 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 652103002256 metal binding site [ion binding]; metal-binding site 652103002257 dimer interface [polypeptide binding]; other site 652103002258 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 652103002259 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 652103002260 trimer interface [polypeptide binding]; other site 652103002261 active site 652103002262 substrate binding site [chemical binding]; other site 652103002263 CoA binding site [chemical binding]; other site 652103002264 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 652103002265 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 652103002266 motif II; other site 652103002267 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103002268 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103002269 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103002270 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 652103002271 feedback inhibition sensing region; other site 652103002272 homohexameric interface [polypeptide binding]; other site 652103002273 nucleotide binding site [chemical binding]; other site 652103002274 N-acetyl-L-glutamate binding site [chemical binding]; other site 652103002275 Protein of unknown function (DUF423); Region: DUF423; cl01008 652103002276 Predicted GTPase [General function prediction only]; Region: COG0218 652103002277 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 652103002278 G1 box; other site 652103002279 GTP/Mg2+ binding site [chemical binding]; other site 652103002280 Switch I region; other site 652103002281 G2 box; other site 652103002282 G3 box; other site 652103002283 Switch II region; other site 652103002284 G4 box; other site 652103002285 G5 box; other site 652103002286 membrane protein insertase; Provisional; Region: PRK01318 652103002287 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 652103002288 Ribonuclease P; Region: Ribonuclease_P; cl00457 652103002289 sensory histidine kinase AtoS; Provisional; Region: PRK11360 652103002290 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 652103002291 ATP binding site [chemical binding]; other site 652103002292 Mg2+ binding site [ion binding]; other site 652103002293 G-X-G motif; other site 652103002294 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 652103002295 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 652103002296 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 652103002297 catalytic triad [active] 652103002298 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103002299 LysE type translocator; Region: LysE; cl00565 652103002300 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 652103002301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103002302 DNA-binding site [nucleotide binding]; DNA binding site 652103002303 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 652103002304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002305 homodimer interface [polypeptide binding]; other site 652103002306 catalytic residue [active] 652103002307 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 652103002308 Helix-turn-helix domains; Region: HTH; cl00088 652103002309 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 652103002310 dimerization interface [polypeptide binding]; other site 652103002311 Cupin domain; Region: Cupin_2; cl09118 652103002312 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 652103002313 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 652103002314 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 652103002315 CoenzymeA binding site [chemical binding]; other site 652103002316 subunit interaction site [polypeptide binding]; other site 652103002317 PHB binding site; other site 652103002318 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional; Region: PRK12775 652103002319 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 652103002320 FAD binding pocket [chemical binding]; other site 652103002321 FAD binding motif [chemical binding]; other site 652103002322 phosphate binding motif [ion binding]; other site 652103002323 beta-alpha-beta structure motif; other site 652103002324 NAD binding pocket [chemical binding]; other site 652103002325 Iron coordination center [ion binding]; other site 652103002326 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002327 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103002328 diiron binding motif [ion binding]; other site 652103002329 hypothetical protein; Provisional; Region: PRK01254 652103002330 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 652103002331 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 652103002332 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002333 Helix-turn-helix domains; Region: HTH; cl00088 652103002334 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 652103002335 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103002336 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103002337 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002338 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103002339 Walker A/P-loop; other site 652103002340 ATP binding site [chemical binding]; other site 652103002341 Q-loop/lid; other site 652103002342 ABC transporter signature motif; other site 652103002343 Walker B; other site 652103002344 D-loop; other site 652103002345 H-loop/switch region; other site 652103002346 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002347 Walker A/P-loop; other site 652103002348 ATP binding site [chemical binding]; other site 652103002349 Q-loop/lid; other site 652103002350 ABC transporter signature motif; other site 652103002351 Walker B; other site 652103002352 D-loop; other site 652103002353 H-loop/switch region; other site 652103002354 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103002355 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103002356 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103002357 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103002358 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103002359 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103002360 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103002361 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103002362 Helix-turn-helix domains; Region: HTH; cl00088 652103002363 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 652103002364 NMT1-like family; Region: NMT1_2; cl15260 652103002365 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103002366 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002367 active site 652103002368 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 652103002369 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 652103002370 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 652103002371 active site 652103002372 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103002373 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 652103002374 Walker A/P-loop; other site 652103002375 ATP binding site [chemical binding]; other site 652103002376 Q-loop/lid; other site 652103002377 ABC transporter signature motif; other site 652103002378 Walker B; other site 652103002379 D-loop; other site 652103002380 H-loop/switch region; other site 652103002381 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 652103002382 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103002383 Walker A/P-loop; other site 652103002384 ATP binding site [chemical binding]; other site 652103002385 Q-loop/lid; other site 652103002386 ABC transporter signature motif; other site 652103002387 Walker B; other site 652103002388 D-loop; other site 652103002389 H-loop/switch region; other site 652103002390 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002391 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 652103002392 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 652103002393 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 652103002394 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 652103002395 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 652103002396 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103002397 DNA-binding site [nucleotide binding]; DNA binding site 652103002398 UTRA domain; Region: UTRA; cl01230 652103002399 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 652103002400 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 652103002401 NMT1-like family; Region: NMT1_2; cl15260 652103002402 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 652103002403 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 652103002404 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 652103002405 Walker A/P-loop; other site 652103002406 ATP binding site [chemical binding]; other site 652103002407 Q-loop/lid; other site 652103002408 ABC transporter signature motif; other site 652103002409 Walker B; other site 652103002410 D-loop; other site 652103002411 H-loop/switch region; other site 652103002412 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 652103002413 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 652103002414 trimer interface [polypeptide binding]; other site 652103002415 active site 652103002416 substrate binding site [chemical binding]; other site 652103002417 CoA binding site [chemical binding]; other site 652103002418 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 652103002419 phosphonate metabolism protein PhnM; Region: phosphono_phnM; TIGR02318 652103002420 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 652103002421 active site 652103002422 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 652103002423 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 652103002424 GIY-YIG domain of hypothetical proteins from archaea and their bacterial homologs; Region: GIY-YIG_COG1833; cd10441 652103002425 putative active site [active] 652103002426 GIY-YIG motif/motif A; other site 652103002427 putative metal binding site [ion binding]; other site 652103002428 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 652103002429 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 652103002430 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 652103002431 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 652103002432 substrate binding site [chemical binding]; other site 652103002433 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 652103002434 putative FMN binding site [chemical binding]; other site 652103002435 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 652103002436 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 652103002437 putative dimer interface [polypeptide binding]; other site 652103002438 active site pocket [active] 652103002439 putative cataytic base [active] 652103002440 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103002441 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 652103002442 homotrimer interface [polypeptide binding]; other site 652103002443 Walker A motif; other site 652103002444 GTP binding site [chemical binding]; other site 652103002445 Walker B motif; other site 652103002446 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 652103002447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002448 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 652103002449 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 652103002450 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103002451 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103002452 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 652103002453 homodimer interface [polypeptide binding]; other site 652103002454 Walker A motif; other site 652103002455 ATP binding site [chemical binding]; other site 652103002456 hydroxycobalamin binding site [chemical binding]; other site 652103002457 Walker B motif; other site 652103002458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002459 cobyric acid synthase; Provisional; Region: PRK00784 652103002460 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 652103002461 catalytic triad [active] 652103002462 CobD/Cbib protein; Region: CobD_Cbib; cl00561 652103002463 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 652103002464 intersubunit interface [polypeptide binding]; other site 652103002465 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 652103002466 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 652103002467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002468 homodimer interface [polypeptide binding]; other site 652103002469 catalytic residue [active] 652103002470 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103002471 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103002472 Walker A/P-loop; other site 652103002473 ATP binding site [chemical binding]; other site 652103002474 Q-loop/lid; other site 652103002475 ABC transporter signature motif; other site 652103002476 Walker B; other site 652103002477 D-loop; other site 652103002478 H-loop/switch region; other site 652103002479 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 652103002480 ABC-ATPase subunit interface; other site 652103002481 dimer interface [polypeptide binding]; other site 652103002482 putative PBP binding regions; other site 652103002483 High-affinity nickel-transport protein; Region: NicO; cl00964 652103002484 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103002485 S-adenosylmethionine binding site [chemical binding]; other site 652103002486 Protein of unknown function (DUF3419); Region: DUF3419; cl15422 652103002487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103002488 Helix-turn-helix domains; Region: HTH; cl00088 652103002489 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 652103002490 dimerization interface [polypeptide binding]; other site 652103002491 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 652103002492 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 652103002493 putative dimer interface [polypeptide binding]; other site 652103002494 [2Fe-2S] cluster binding site [ion binding]; other site 652103002495 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 652103002496 putative dimer interface [polypeptide binding]; other site 652103002497 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 652103002498 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 652103002499 SLBB domain; Region: SLBB; pfam10531 652103002500 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 652103002501 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 652103002502 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 652103002503 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 652103002504 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 652103002505 [4Fe-4S] binding site [ion binding]; other site 652103002506 molybdopterin cofactor binding site; other site 652103002507 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 652103002508 molybdopterin cofactor binding site; other site 652103002509 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 652103002510 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 652103002511 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 652103002512 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 652103002513 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 652103002514 Cytochrome c; Region: Cytochrom_C; cl11414 652103002515 Cytochrome c; Region: Cytochrom_C; cl11414 652103002516 hydroperoxidase II; Provisional; Region: katE; PRK11249 652103002517 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 652103002518 heme binding pocket [chemical binding]; other site 652103002519 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 652103002520 domain interactions; other site 652103002521 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103002522 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 652103002523 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103002524 Walker A motif; other site 652103002525 ATP binding site [chemical binding]; other site 652103002526 Walker B motif; other site 652103002527 arginine finger; other site 652103002528 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 652103002529 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 652103002530 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103002531 AMP-binding enzyme; Region: AMP-binding; cl15778 652103002532 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103002533 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 652103002534 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 652103002535 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 652103002536 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 652103002537 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 652103002538 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 652103002539 Walker A/P-loop; other site 652103002540 ATP binding site [chemical binding]; other site 652103002541 Q-loop/lid; other site 652103002542 ABC transporter signature motif; other site 652103002543 Walker B; other site 652103002544 D-loop; other site 652103002545 H-loop/switch region; other site 652103002546 TOBE-like domain; Region: TOBE_3; pfam12857 652103002547 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 652103002548 dimer interface [polypeptide binding]; other site 652103002549 conserved gate region; other site 652103002550 putative PBP binding loops; other site 652103002551 ABC-ATPase subunit interface; other site 652103002552 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103002553 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 652103002554 dimer interface [polypeptide binding]; other site 652103002555 conserved gate region; other site 652103002556 putative PBP binding loops; other site 652103002557 ABC-ATPase subunit interface; other site 652103002558 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 652103002559 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103002560 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 652103002561 Active Sites [active] 652103002562 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 652103002563 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 652103002564 Active Sites [active] 652103002565 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 652103002566 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 652103002567 CysD dimerization site [polypeptide binding]; other site 652103002568 G1 box; other site 652103002569 putative GEF interaction site [polypeptide binding]; other site 652103002570 GTP/Mg2+ binding site [chemical binding]; other site 652103002571 Switch I region; other site 652103002572 G2 box; other site 652103002573 G3 box; other site 652103002574 Switch II region; other site 652103002575 G4 box; other site 652103002576 G5 box; other site 652103002577 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 652103002578 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 652103002579 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 652103002580 ligand-binding site [chemical binding]; other site 652103002581 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103002582 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103002583 Walker A/P-loop; other site 652103002584 ATP binding site [chemical binding]; other site 652103002585 Q-loop/lid; other site 652103002586 ABC transporter signature motif; other site 652103002587 Walker B; other site 652103002588 D-loop; other site 652103002589 H-loop/switch region; other site 652103002590 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002591 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103002592 Amidase; Region: Amidase; cl11426 652103002593 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 652103002594 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103002595 Walker A/P-loop; other site 652103002596 ATP binding site [chemical binding]; other site 652103002597 Q-loop/lid; other site 652103002598 ABC transporter signature motif; other site 652103002599 Walker B; other site 652103002600 D-loop; other site 652103002601 H-loop/switch region; other site 652103002602 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103002603 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103002604 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 652103002605 dimer interface [polypeptide binding]; other site 652103002606 conserved gate region; other site 652103002607 putative PBP binding loops; other site 652103002608 ABC-ATPase subunit interface; other site 652103002609 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103002610 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 652103002611 dimer interface [polypeptide binding]; other site 652103002612 conserved gate region; other site 652103002613 putative PBP binding loops; other site 652103002614 ABC-ATPase subunit interface; other site 652103002615 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103002616 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 652103002617 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 652103002618 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103002619 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103002620 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 652103002621 N-terminal plug; other site 652103002622 ligand-binding site [chemical binding]; other site 652103002623 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103002624 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 652103002625 ligand binding site [chemical binding]; other site 652103002626 flexible hinge region; other site 652103002627 Helix-turn-helix domains; Region: HTH; cl00088 652103002628 putative diguanylate cyclase; Provisional; Region: PRK09776 652103002629 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103002630 metal binding site [ion binding]; metal-binding site 652103002631 active site 652103002632 I-site; other site 652103002633 Restriction endonuclease; Region: Mrr_cat; cl00516 652103002634 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 652103002635 5' RNA guide strand anchoring site; other site 652103002636 active site 652103002637 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 652103002638 non-specific DNA binding site [nucleotide binding]; other site 652103002639 salt bridge; other site 652103002640 sequence-specific DNA binding site [nucleotide binding]; other site 652103002641 Protein of unknown function (DUF736); Region: DUF736; cl02303 652103002642 Protein of unknown function (DUF2743); Region: DUF2743; pfam10899 652103002643 Domain of unknown function (DUF932); Region: DUF932; cl12129 652103002644 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103002645 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103002646 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 652103002647 non-specific DNA binding site [nucleotide binding]; other site 652103002648 salt bridge; other site 652103002649 sequence-specific DNA binding site [nucleotide binding]; other site 652103002650 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 652103002651 Replication initiator protein A; Region: RPA; cl02339 652103002652 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103002653 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 652103002654 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103002655 Protein of unknown function (DUF736); Region: DUF736; cl02303 652103002656 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103002657 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103002658 catalytic residue [active] 652103002659 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 652103002660 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103002661 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 652103002662 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002663 Helix-turn-helix domains; Region: HTH; cl00088 652103002664 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103002665 Helix-turn-helix domains; Region: HTH; cl00088 652103002666 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 652103002667 dimerization interface [polypeptide binding]; other site 652103002668 substrate binding pocket [chemical binding]; other site 652103002669 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103002670 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 652103002671 Walker A motif; other site 652103002672 ATP binding site [chemical binding]; other site 652103002673 Walker B motif; other site 652103002674 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103002675 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002676 Walker A motif; other site 652103002677 ATP binding site [chemical binding]; other site 652103002678 Walker B motif; other site 652103002679 TrbC/VIRB2 family; Region: TrbC; cl01583 652103002680 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103002681 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103002682 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103002683 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 652103002684 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 652103002685 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103002686 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103002687 VirB8 protein; Region: VirB8; cl01500 652103002688 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103002689 VirB7 interaction site; other site 652103002690 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 652103002691 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 652103002692 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 652103002693 ATP binding site [chemical binding]; other site 652103002694 putative Mg++ binding site [ion binding]; other site 652103002695 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002696 Predicted transcriptional regulator [Transcription]; Region: COG4190 652103002697 Helix-turn-helix domains; Region: HTH; cl00088 652103002698 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 652103002699 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 652103002700 catalytic residues [active] 652103002701 catalytic nucleophile [active] 652103002702 Recombinase; Region: Recombinase; pfam07508 652103002703 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 652103002704 integrase; Provisional; Region: PRK09692 652103002705 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 652103002706 DNA binding site [nucleotide binding] 652103002707 Int/Topo IB signature motif; other site 652103002708 active site 652103002709 Superfamily II helicase [General function prediction only]; Region: COG1204 652103002710 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 652103002711 ATP binding site [chemical binding]; other site 652103002712 putative Mg++ binding site [ion binding]; other site 652103002713 Domain of unknown function (DUF1837); Region: DUF1837; pfam08878 652103002714 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 652103002715 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 652103002716 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 652103002717 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 652103002718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002719 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 652103002720 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 652103002721 ATP binding site [chemical binding]; other site 652103002722 putative Mg++ binding site [ion binding]; other site 652103002723 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 652103002724 nucleotide binding region [chemical binding]; other site 652103002725 ATP-binding site [chemical binding]; other site 652103002726 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 652103002727 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 652103002728 ATP binding site [chemical binding]; other site 652103002729 putative Mg++ binding site [ion binding]; other site 652103002730 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 652103002731 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 652103002732 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 652103002733 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103002734 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 652103002735 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 652103002736 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 652103002737 ParB-like nuclease domain; Region: ParBc; cl02129 652103002738 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103002739 hypothetical protein; Validated; Region: PRK07078 652103002740 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 652103002741 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 652103002742 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 652103002743 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 652103002744 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 652103002745 putative DNA binding site [nucleotide binding]; other site 652103002746 putative Zn2+ binding site [ion binding]; other site 652103002747 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 652103002748 putative hydrophobic ligand binding site [chemical binding]; other site 652103002749 CLM binding site; other site 652103002750 L1 loop; other site 652103002751 DNA binding site [nucleotide binding] 652103002752 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 652103002753 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002754 Helix-turn-helix domains; Region: HTH; cl00088 652103002755 Protein of unknown function (DUF736); Region: DUF736; cl02303 652103002756 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 652103002757 non-specific DNA binding site [nucleotide binding]; other site 652103002758 salt bridge; other site 652103002759 sequence-specific DNA binding site [nucleotide binding]; other site 652103002760 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103002761 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 652103002762 Replication initiator protein A; Region: RPA; cl02339 652103002763 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 652103002764 AAA domain; Region: AAA_31; pfam13614 652103002765 P-loop; other site 652103002766 Magnesium ion binding site [ion binding]; other site 652103002767 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103002768 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 652103002769 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103002770 Protein of unknown function (DUF736); Region: DUF736; cl02303 652103002771 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103002772 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103002773 catalytic residue [active] 652103002774 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 652103002775 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103002776 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 652103002777 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 652103002778 tetramer interface [polypeptide binding]; other site 652103002779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103002780 catalytic residue [active] 652103002781 Cupin domain; Region: Cupin_2; cl09118 652103002782 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 652103002783 dimerization interface [polypeptide binding]; other site 652103002784 putative DNA binding site [nucleotide binding]; other site 652103002785 putative Zn2+ binding site [ion binding]; other site 652103002786 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 652103002787 putative dimer interface [polypeptide binding]; other site 652103002788 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 652103002789 dimer interface [polypeptide binding]; other site 652103002790 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 652103002791 LysR family transcriptional regulator; Provisional; Region: PRK14997 652103002792 Helix-turn-helix domains; Region: HTH; cl00088 652103002793 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 652103002794 putative effector binding pocket; other site 652103002795 dimerization interface [polypeptide binding]; other site 652103002796 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103002797 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 652103002798 Walker A motif; other site 652103002799 ATP binding site [chemical binding]; other site 652103002800 Walker B motif; other site 652103002801 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103002802 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 652103002803 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103002804 catalytic residue [active] 652103002805 Epoxide hydrolase N terminus; Region: EHN; pfam06441 652103002806 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 652103002807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002808 NmrA-like family; Region: NmrA; pfam05368 652103002809 NAD(P) binding site [chemical binding]; other site 652103002810 active site 652103002811 Helix-turn-helix domains; Region: HTH; cl00088 652103002812 WYL domain; Region: WYL; cl14852 652103002813 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103002814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002816 Walker A motif; other site 652103002817 ATP binding site [chemical binding]; other site 652103002818 Walker B motif; other site 652103002819 TrbC/VIRB2 family; Region: TrbC; cl01583 652103002820 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103002821 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103002822 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103002823 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 652103002824 Walker A motif; other site 652103002825 ATP binding site [chemical binding]; other site 652103002826 Walker B motif; other site 652103002827 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 652103002828 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 652103002829 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103002830 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103002831 VirB8 protein; Region: VirB8; cl01500 652103002832 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103002833 VirB7 interaction site; other site 652103002834 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 652103002835 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 652103002836 Helix-turn-helix domains; Region: HTH; cl00088 652103002837 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 652103002838 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 652103002839 dimerization interface [polypeptide binding]; other site 652103002840 substrate binding pocket [chemical binding]; other site 652103002841 Helix-turn-helix domains; Region: HTH; cl00088 652103002842 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103002843 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103002844 S-adenosylmethionine binding site [chemical binding]; other site 652103002845 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 652103002846 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103002847 CrcB-like protein; Region: CRCB; cl09114 652103002848 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103002849 hypothetical protein; Provisional; Region: PRK11770 652103002850 Domain of unknown function (DUF307); Region: DUF307; pfam03733 652103002851 Domain of unknown function (DUF307); Region: DUF307; pfam03733 652103002852 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 652103002853 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103002854 PAS fold; Region: PAS_7; pfam12860 652103002855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103002856 metal binding site [ion binding]; metal-binding site 652103002857 active site 652103002858 I-site; other site 652103002859 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 652103002860 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 652103002861 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103002862 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103002863 active site 652103002864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103002865 metal binding site [ion binding]; metal-binding site 652103002866 active site 652103002867 I-site; other site 652103002868 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 652103002869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002870 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103002871 NAD(P) binding site [chemical binding]; other site 652103002872 active site 652103002873 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103002874 Cytochrome P450; Region: p450; pfam00067 652103002875 cyclase homology domain; Region: CHD; cd07302 652103002876 nucleotidyl binding site; other site 652103002877 metal binding site [ion binding]; metal-binding site 652103002878 dimer interface [polypeptide binding]; other site 652103002879 Peptidase family M48; Region: Peptidase_M48; cl12018 652103002880 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103002881 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 652103002882 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 652103002883 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 652103002884 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103002885 catalytic residue [active] 652103002886 LssY C-terminus; Region: LssY_C; pfam14067 652103002887 Staphylococcal nuclease homologues; Region: SNc; smart00318 652103002888 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103002889 Catalytic site; other site 652103002890 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103002891 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 652103002892 active site 652103002893 zinc binding site [ion binding]; other site 652103002894 Predicted transcriptional regulator [Transcription]; Region: COG2932 652103002895 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 652103002896 Catalytic site [active] 652103002897 Protein of unknown function (DUF952); Region: DUF952; cl01393 652103002898 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 652103002899 quinone interaction residues [chemical binding]; other site 652103002900 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 652103002901 active site 652103002902 catalytic residues [active] 652103002903 FMN binding site [chemical binding]; other site 652103002904 substrate binding site [chemical binding]; other site 652103002905 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002906 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 652103002907 active site clefts [active] 652103002908 zinc binding site [ion binding]; other site 652103002909 dimer interface [polypeptide binding]; other site 652103002910 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 652103002911 MatE; Region: MatE; cl10513 652103002912 MatE; Region: MatE; cl10513 652103002913 ATP-dependent DNA ligase; Validated; Region: PRK09247 652103002914 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 652103002915 active site 652103002916 DNA binding site [nucleotide binding] 652103002917 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 652103002918 DNA binding site [nucleotide binding] 652103002919 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 652103002920 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002921 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103002922 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103002923 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 652103002924 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103002925 putative ligand binding site [chemical binding]; other site 652103002926 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 652103002927 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103002929 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 652103002930 nucleotide binding region [chemical binding]; other site 652103002931 ATP-binding site [chemical binding]; other site 652103002932 DEAD/H associated; Region: DEAD_assoc; pfam08494 652103002933 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 652103002934 putative active site [active] 652103002935 putative metal binding site [ion binding]; other site 652103002936 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103002937 Helix-turn-helix domains; Region: HTH; cl00088 652103002938 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 652103002939 dimerization interface [polypeptide binding]; other site 652103002940 EamA-like transporter family; Region: EamA; cl01037 652103002941 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103002942 EamA-like transporter family; Region: EamA; cl01037 652103002943 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 652103002944 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 652103002945 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 652103002946 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103002947 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 652103002948 Sel1 repeat; Region: Sel1; cl02723 652103002949 Sel1 repeat; Region: Sel1; cl02723 652103002950 Sel1 repeat; Region: Sel1; cl02723 652103002951 Sel1 repeat; Region: Sel1; cl02723 652103002952 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103002953 Helix-turn-helix domains; Region: HTH; cl00088 652103002954 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 652103002955 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 652103002956 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 652103002957 FAD binding site [chemical binding]; other site 652103002958 substrate binding site [chemical binding]; other site 652103002959 catalytic residues [active] 652103002960 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 652103002961 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 652103002962 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 652103002963 dimer interface [polypeptide binding]; other site 652103002964 active site 652103002965 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 652103002966 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 652103002967 substrate binding site [chemical binding]; other site 652103002968 oxyanion hole (OAH) forming residues; other site 652103002969 trimer interface [polypeptide binding]; other site 652103002970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103002971 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103002972 glutathionine S-transferase; Provisional; Region: PRK10542 652103002973 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 652103002974 C-terminal domain interface [polypeptide binding]; other site 652103002975 GSH binding site (G-site) [chemical binding]; other site 652103002976 dimer interface [polypeptide binding]; other site 652103002977 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 652103002978 N-terminal domain interface [polypeptide binding]; other site 652103002979 dimer interface [polypeptide binding]; other site 652103002980 substrate binding pocket (H-site) [chemical binding]; other site 652103002981 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 652103002982 Helix-turn-helix domains; Region: HTH; cl00088 652103002983 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 652103002984 dimerization interface [polypeptide binding]; other site 652103002985 putative peroxiredoxin; Provisional; Region: PRK13599 652103002986 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 652103002987 catalytic triad [active] 652103002988 dimer interface [polypeptide binding]; other site 652103002989 decamer (pentamer of dimers) interface [polypeptide binding]; other site 652103002990 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103002991 Ferritin-like domain; Region: Ferritin; pfam00210 652103002992 dimerization interface [polypeptide binding]; other site 652103002993 DPS ferroxidase diiron center [ion binding]; other site 652103002994 ion pore; other site 652103002995 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103002996 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 652103002997 PAN/APPLE-like domain; present in N-terminal (N) domains of plasminogen/ hepatocyte growth factor proteins, plasma prekallikrein/coagulation factor XI and microneme antigen proteins, plant receptor-like protein kinases, and various nematode and leech...; Region: PAN_APPLE; cl00112 652103002998 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 652103002999 putative binding site; other site 652103003000 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 652103003001 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 652103003002 Catalytic site [active] 652103003003 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 652103003004 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 652103003005 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 652103003006 Protein of unknown function (DUF433); Region: DUF433; cl01030 652103003007 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003008 Helix-turn-helix domains; Region: HTH; cl00088 652103003009 OsmC-like protein; Region: OsmC; cl00767 652103003010 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 652103003011 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 652103003012 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 652103003013 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103003014 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 652103003015 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 652103003016 Subunit I/III interface [polypeptide binding]; other site 652103003017 D-pathway; other site 652103003018 Subunit I/VIIc interface [polypeptide binding]; other site 652103003019 Subunit I/IV interface [polypeptide binding]; other site 652103003020 Subunit I/II interface [polypeptide binding]; other site 652103003021 Low-spin heme (heme a) binding site [chemical binding]; other site 652103003022 Subunit I/VIIa interface [polypeptide binding]; other site 652103003023 Subunit I/VIa interface [polypeptide binding]; other site 652103003024 Dimer interface; other site 652103003025 Putative water exit pathway; other site 652103003026 Binuclear center (heme a3/CuB) [ion binding]; other site 652103003027 K-pathway; other site 652103003028 Subunit I/Vb interface [polypeptide binding]; other site 652103003029 Putative proton exit pathway; other site 652103003030 Subunit I/VIb interface; other site 652103003031 Subunit I/VIc interface [polypeptide binding]; other site 652103003032 Electron transfer pathway; other site 652103003033 Subunit I/VIIIb interface [polypeptide binding]; other site 652103003034 Subunit I/VIIb interface [polypeptide binding]; other site 652103003035 UbiA prenyltransferase family; Region: UbiA; cl00337 652103003036 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 652103003037 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 652103003038 Subunit III/VIIa interface [polypeptide binding]; other site 652103003039 Phospholipid binding site [chemical binding]; other site 652103003040 Subunit I/III interface [polypeptide binding]; other site 652103003041 Subunit III/VIb interface [polypeptide binding]; other site 652103003042 Subunit III/VIa interface; other site 652103003043 Subunit III/Vb interface [polypeptide binding]; other site 652103003044 Protein of unknown function (DUF983); Region: DUF983; cl02211 652103003045 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 652103003046 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 652103003047 YcfA-like protein; Region: YcfA; cl00752 652103003048 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 652103003049 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 652103003050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003051 catalytic residue [active] 652103003052 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103003053 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103003054 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103003055 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103003056 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103003057 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 652103003058 Plant ATP synthase F0; Region: YMF19; cl07975 652103003059 Plant ATP synthase F0; Region: YMF19; cl07975 652103003060 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 652103003061 ATP synthase subunit C; Region: ATP-synt_C; cl00466 652103003062 ATP synthase A chain; Region: ATP-synt_A; cl00413 652103003063 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 652103003064 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103003065 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 652103003066 putative catalytic residue [active] 652103003067 endonuclease subunit; Provisional; Region: 46; PHA02562 652103003068 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 652103003069 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 652103003070 putative substrate translocation pore; other site 652103003071 metabolite-proton symporter; Region: 2A0106; TIGR00883 652103003072 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103003073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003074 active site 652103003075 phosphorylation site [posttranslational modification] 652103003076 intermolecular recognition site; other site 652103003077 dimerization interface [polypeptide binding]; other site 652103003078 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 652103003079 DNA binding residues [nucleotide binding] 652103003080 dimerization interface [polypeptide binding]; other site 652103003081 Sodium:solute symporter family; Region: SSF; cl00456 652103003082 PAS fold; Region: PAS_7; pfam12860 652103003083 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 652103003084 dimer interface [polypeptide binding]; other site 652103003085 phosphorylation site [posttranslational modification] 652103003086 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 652103003087 ATP binding site [chemical binding]; other site 652103003088 Mg2+ binding site [ion binding]; other site 652103003089 G-X-G motif; other site 652103003090 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003092 active site 652103003093 phosphorylation site [posttranslational modification] 652103003094 intermolecular recognition site; other site 652103003095 dimerization interface [polypeptide binding]; other site 652103003096 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 652103003097 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 652103003098 substrate-cofactor binding pocket; other site 652103003099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003100 catalytic residue [active] 652103003101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103003102 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 652103003103 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 652103003104 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103003105 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103003106 dimer interface [polypeptide binding]; other site 652103003107 putative CheW interface [polypeptide binding]; other site 652103003108 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103003109 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 652103003110 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 652103003111 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 652103003112 ABC-ATPase subunit interface; other site 652103003113 dimer interface [polypeptide binding]; other site 652103003114 putative PBP binding regions; other site 652103003115 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 652103003116 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 652103003117 intersubunit interface [polypeptide binding]; other site 652103003118 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103003119 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 652103003120 P-loop, Walker A motif; other site 652103003121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103003122 Base recognition motif; other site 652103003123 G4 box; other site 652103003124 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 652103003125 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 652103003126 structural tetrad; other site 652103003127 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 652103003128 MgtC family; Region: MgtC; pfam02308 652103003129 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 652103003130 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 652103003131 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 652103003132 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103003133 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 652103003134 homotrimer interaction site [polypeptide binding]; other site 652103003135 putative active site [active] 652103003136 Predicted acetyltransferase [General function prediction only]; Region: COG3153 652103003137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 652103003138 dimer interface [polypeptide binding]; other site 652103003139 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 652103003140 active site 652103003141 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103003142 catalytic residues [active] 652103003143 substrate binding site [chemical binding]; other site 652103003144 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 652103003145 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 652103003146 active site 652103003147 Zn binding site [ion binding]; other site 652103003148 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 652103003149 High-affinity nickel-transport protein; Region: NicO; cl00964 652103003150 High-affinity nickel-transport protein; Region: NicO; cl00964 652103003151 ferrochelatase; Reviewed; Region: hemH; PRK00035 652103003152 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 652103003153 C-terminal domain interface [polypeptide binding]; other site 652103003154 active site 652103003155 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 652103003156 active site 652103003157 N-terminal domain interface [polypeptide binding]; other site 652103003158 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 652103003159 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 652103003160 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 652103003161 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103003162 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003163 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 652103003164 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 652103003165 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 652103003166 putative active site [active] 652103003167 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 652103003168 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; cl12051 652103003169 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003170 metal binding site [ion binding]; metal-binding site 652103003171 active site 652103003172 I-site; other site 652103003173 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 652103003174 active site 652103003175 tetramer interface; other site 652103003176 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 652103003177 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103003178 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 652103003179 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 652103003180 putative dimer interface [polypeptide binding]; other site 652103003181 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103003182 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 652103003183 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 652103003184 active site 652103003185 dimer interface [polypeptide binding]; other site 652103003186 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 652103003187 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 652103003188 active site 652103003189 FMN binding site [chemical binding]; other site 652103003190 substrate binding site [chemical binding]; other site 652103003191 3Fe-4S cluster binding site [ion binding]; other site 652103003192 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 652103003193 domain interface; other site 652103003194 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 652103003195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003196 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103003197 classical (c) SDRs; Region: SDR_c; cd05233 652103003198 NAD(P) binding site [chemical binding]; other site 652103003199 active site 652103003200 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103003201 classical (c) SDRs; Region: SDR_c; cd05233 652103003202 NAD(P) binding site [chemical binding]; other site 652103003203 active site 652103003204 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 652103003205 active site 652103003206 catalytic triad [active] 652103003207 oxyanion hole [active] 652103003208 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 652103003209 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103003210 dimer interface [polypeptide binding]; other site 652103003211 active site 652103003212 catalytic residue [active] 652103003213 Transglycosylase SLT domain; Region: SLT_2; pfam13406 652103003214 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 652103003215 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103003216 LysE type translocator; Region: LysE; cl00565 652103003217 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 652103003218 putative dimer interface [polypeptide binding]; other site 652103003219 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103003220 Helix-turn-helix domains; Region: HTH; cl00088 652103003221 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 652103003222 active site 652103003223 N-formylglutamate amidohydrolase; Region: FGase; cl01522 652103003224 Response regulator receiver domain; Region: Response_reg; pfam00072 652103003225 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003226 active site 652103003227 phosphorylation site [posttranslational modification] 652103003228 intermolecular recognition site; other site 652103003229 dimerization interface [polypeptide binding]; other site 652103003230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003231 Helix-turn-helix domains; Region: HTH; cl00088 652103003232 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103003233 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 652103003234 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103003235 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 652103003236 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 652103003237 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103003238 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103003239 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103003240 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103003241 Cupin domain; Region: Cupin_2; cl09118 652103003242 Helix-turn-helix domains; Region: HTH; cl00088 652103003243 transcriptional regulator; Provisional; Region: PRK10632 652103003244 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 652103003245 putative effector binding pocket; other site 652103003246 dimerization interface [polypeptide binding]; other site 652103003247 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 652103003248 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 652103003249 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 652103003250 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 652103003251 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 652103003252 PAS fold; Region: PAS_3; pfam08447 652103003253 putative active site [active] 652103003254 heme pocket [chemical binding]; other site 652103003255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003256 metal binding site [ion binding]; metal-binding site 652103003257 active site 652103003258 I-site; other site 652103003259 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 652103003260 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 652103003261 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 652103003262 NAD(P) binding site [chemical binding]; other site 652103003263 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 652103003264 Protein of unknown function (DUF1465); Region: DUF1465; cl11562 652103003265 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 652103003266 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 652103003267 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103003268 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103003269 Walker A/P-loop; other site 652103003270 ATP binding site [chemical binding]; other site 652103003271 Q-loop/lid; other site 652103003272 ABC transporter signature motif; other site 652103003273 Walker B; other site 652103003274 D-loop; other site 652103003275 H-loop/switch region; other site 652103003276 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 652103003277 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103003278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 652103003279 hypothetical protein; Validated; Region: PRK09039 652103003280 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103003281 ligand binding site [chemical binding]; other site 652103003282 Phospholipid methyltransferase; Region: PEMT; cl00763 652103003283 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103003284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003285 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103003286 S-adenosylmethionine binding site [chemical binding]; other site 652103003287 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103003288 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 652103003289 Flavoprotein; Region: Flavoprotein; cl08021 652103003290 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 652103003291 SCP-2 sterol transfer family; Region: SCP2; cl01225 652103003292 Peptidase family U32; Region: Peptidase_U32; cl03113 652103003293 Peptidase family U32; Region: Peptidase_U32; cl03113 652103003294 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 652103003295 active site 652103003296 dimerization interface [polypeptide binding]; other site 652103003297 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103003298 Sel1 repeat; Region: Sel1; cl02723 652103003299 Sel1 repeat; Region: Sel1; cl02723 652103003300 Sel1 repeat; Region: Sel1; cl02723 652103003301 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 652103003302 thiamine phosphate binding site [chemical binding]; other site 652103003303 pyrophosphate binding site [ion binding]; other site 652103003304 active site 652103003305 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 652103003306 active site 652103003307 intersubunit interface [polypeptide binding]; other site 652103003308 catalytic residue [active] 652103003309 Phosphoglycerate kinase; Region: PGK; pfam00162 652103003310 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 652103003311 substrate binding site [chemical binding]; other site 652103003312 hinge regions; other site 652103003313 ADP binding site [chemical binding]; other site 652103003314 catalytic site [active] 652103003315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003316 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 652103003317 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 652103003318 transketolase; Reviewed; Region: PRK05899 652103003319 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 652103003320 TPP-binding site [chemical binding]; other site 652103003321 dimer interface [polypeptide binding]; other site 652103003322 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 652103003323 PYR/PP interface [polypeptide binding]; other site 652103003324 dimer interface [polypeptide binding]; other site 652103003325 TPP binding site [chemical binding]; other site 652103003326 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103003327 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 652103003328 Cell division protein ZapA; Region: ZapA; cl01146 652103003329 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 652103003330 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103003331 multidrug efflux protein; Reviewed; Region: PRK01766 652103003332 MatE; Region: MatE; cl10513 652103003333 MatE; Region: MatE; cl10513 652103003334 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 652103003335 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 652103003336 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103003337 TIR domain; Region: TIR_2; cl15770 652103003338 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 652103003339 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 652103003340 TPP-binding site; other site 652103003341 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 652103003342 PYR/PP interface [polypeptide binding]; other site 652103003343 dimer interface [polypeptide binding]; other site 652103003344 TPP binding site [chemical binding]; other site 652103003345 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103003346 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 652103003347 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 652103003348 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 652103003349 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 652103003350 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 652103003351 putative active site [active] 652103003352 putative metal binding site [ion binding]; other site 652103003353 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103003354 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 652103003355 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 652103003356 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103003357 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103003358 K+-transporting ATPase, c chain; Region: KdpC; cl00944 652103003359 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 652103003360 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 652103003361 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 652103003362 Ligand Binding Site [chemical binding]; other site 652103003363 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 652103003364 GAF domain; Region: GAF; cl15785 652103003365 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 652103003366 dimer interface [polypeptide binding]; other site 652103003367 phosphorylation site [posttranslational modification] 652103003368 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 652103003369 ATP binding site [chemical binding]; other site 652103003370 Mg2+ binding site [ion binding]; other site 652103003371 G-X-G motif; other site 652103003372 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 652103003373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003374 active site 652103003375 phosphorylation site [posttranslational modification] 652103003376 intermolecular recognition site; other site 652103003377 dimerization interface [polypeptide binding]; other site 652103003378 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 652103003379 DNA binding site [nucleotide binding] 652103003380 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103003381 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 652103003382 substrate binding site [chemical binding]; other site 652103003383 oxyanion hole (OAH) forming residues; other site 652103003384 trimer interface [polypeptide binding]; other site 652103003385 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003386 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103003387 active site 652103003388 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 652103003389 urea carboxylase; Region: urea_carbox; TIGR02712 652103003390 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103003391 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103003392 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103003393 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 652103003394 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 652103003395 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 652103003396 carboxyltransferase (CT) interaction site; other site 652103003397 biotinylation site [posttranslational modification]; other site 652103003398 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 652103003399 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 652103003400 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 652103003401 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 652103003402 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 652103003403 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103003404 Walker A/P-loop; other site 652103003405 ATP binding site [chemical binding]; other site 652103003406 Q-loop/lid; other site 652103003407 ABC transporter signature motif; other site 652103003408 Walker B; other site 652103003409 D-loop; other site 652103003410 H-loop/switch region; other site 652103003411 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103003412 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 652103003413 dimer interface [polypeptide binding]; other site 652103003414 conserved gate region; other site 652103003415 putative PBP binding loops; other site 652103003416 ABC-ATPase subunit interface; other site 652103003417 NMT1-like family; Region: NMT1_2; cl15260 652103003418 PAS fold; Region: PAS_3; pfam08447 652103003419 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 652103003420 PAS domain S-box; Region: sensory_box; TIGR00229 652103003421 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 652103003422 putative active site [active] 652103003423 heme pocket [chemical binding]; other site 652103003424 PAS fold; Region: PAS_4; pfam08448 652103003425 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 652103003426 dimer interface [polypeptide binding]; other site 652103003427 phosphorylation site [posttranslational modification] 652103003428 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 652103003429 ATP binding site [chemical binding]; other site 652103003430 Mg2+ binding site [ion binding]; other site 652103003431 G-X-G motif; other site 652103003432 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003433 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003434 active site 652103003435 phosphorylation site [posttranslational modification] 652103003436 intermolecular recognition site; other site 652103003437 dimerization interface [polypeptide binding]; other site 652103003438 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 652103003439 Helix-turn-helix domains; Region: HTH; cl00088 652103003440 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103003441 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 652103003442 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 652103003443 alpha subunit interface [polypeptide binding]; other site 652103003444 active site 652103003445 substrate binding site [chemical binding]; other site 652103003446 Fe binding site [ion binding]; other site 652103003447 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 652103003448 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103003449 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103003450 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003451 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 652103003452 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 652103003453 TM-ABC transporter signature motif; other site 652103003454 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 652103003455 TM-ABC transporter signature motif; other site 652103003456 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103003457 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103003458 Walker A/P-loop; other site 652103003459 ATP binding site [chemical binding]; other site 652103003460 Q-loop/lid; other site 652103003461 ABC transporter signature motif; other site 652103003462 Walker B; other site 652103003463 D-loop; other site 652103003464 H-loop/switch region; other site 652103003465 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103003466 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103003467 Walker A/P-loop; other site 652103003468 ATP binding site [chemical binding]; other site 652103003469 Q-loop/lid; other site 652103003470 ABC transporter signature motif; other site 652103003471 Walker B; other site 652103003472 D-loop; other site 652103003473 H-loop/switch region; other site 652103003474 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 652103003475 GAF domain; Region: GAF; cl15785 652103003476 Phytochrome region; Region: PHY; pfam00360 652103003477 Histidine kinase; Region: HisKA_2; cl06527 652103003478 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103003479 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003480 active site 652103003481 phosphorylation site [posttranslational modification] 652103003482 intermolecular recognition site; other site 652103003483 dimerization interface [polypeptide binding]; other site 652103003484 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003485 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 652103003486 ligand binding site [chemical binding]; other site 652103003487 flexible hinge region; other site 652103003488 Helix-turn-helix domains; Region: HTH; cl00088 652103003489 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 652103003490 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003491 ligand binding site [chemical binding]; other site 652103003492 flexible hinge region; other site 652103003493 Helix-turn-helix domains; Region: HTH; cl00088 652103003494 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 652103003495 catalytic core [active] 652103003496 Cysteine-rich small domain; Region: zf-like; cl00946 652103003497 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003498 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103003499 active site 652103003500 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103003501 Helix-turn-helix domains; Region: HTH; cl00088 652103003502 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003503 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 652103003504 putative ligand binding site [chemical binding]; other site 652103003505 Amidase; Region: Amidase; cl11426 652103003506 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 652103003507 TM-ABC transporter signature motif; other site 652103003508 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103003509 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 652103003510 ligand binding site [chemical binding]; other site 652103003511 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 652103003512 TM-ABC transporter signature motif; other site 652103003513 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103003514 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103003515 Walker A/P-loop; other site 652103003516 ATP binding site [chemical binding]; other site 652103003517 Q-loop/lid; other site 652103003518 ABC transporter signature motif; other site 652103003519 Walker B; other site 652103003520 D-loop; other site 652103003521 H-loop/switch region; other site 652103003522 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103003523 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103003524 Walker A/P-loop; other site 652103003525 ATP binding site [chemical binding]; other site 652103003526 Q-loop/lid; other site 652103003527 ABC transporter signature motif; other site 652103003528 Walker B; other site 652103003529 D-loop; other site 652103003530 H-loop/switch region; other site 652103003531 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103003532 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103003533 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103003534 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 652103003535 dimerization interface [polypeptide binding]; other site 652103003536 putative DNA binding site [nucleotide binding]; other site 652103003537 putative Zn2+ binding site [ion binding]; other site 652103003538 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 652103003539 active site residue [active] 652103003540 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103003541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003542 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103003543 S-adenosylmethionine binding site [chemical binding]; other site 652103003544 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 652103003545 putative catalytic residues [active] 652103003546 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103003547 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 652103003548 molybdenum transport protein ModD; Provisional; Region: PRK06096 652103003549 dimerization interface [polypeptide binding]; other site 652103003550 active site 652103003551 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103003552 AMP-binding enzyme; Region: AMP-binding; cl15778 652103003553 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103003554 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 652103003555 active site 652103003556 Ap6A binding site [chemical binding]; other site 652103003557 nudix motif; other site 652103003558 metal binding site [ion binding]; metal-binding site 652103003559 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 652103003560 dimer interface [polypeptide binding]; other site 652103003561 tetramer interface [polypeptide binding]; other site 652103003562 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase; Region: PCA_45_Doxase_B_like_1; cd07949 652103003563 putative active site [active] 652103003564 Fe(II) binding site [ion binding]; other site 652103003565 putative dimer interface [polypeptide binding]; other site 652103003566 putative tetramer interface [polypeptide binding]; other site 652103003567 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103003568 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 652103003569 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 652103003570 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103003571 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 652103003572 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 652103003573 Helix-turn-helix domains; Region: HTH; cl00088 652103003574 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 652103003575 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 652103003576 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 652103003577 [2Fe-2S] cluster binding site [ion binding]; other site 652103003578 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 652103003579 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 652103003580 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 652103003581 dimerization interface [polypeptide binding]; other site 652103003582 putative DNA binding site [nucleotide binding]; other site 652103003583 putative Zn2+ binding site [ion binding]; other site 652103003584 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103003585 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103003586 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103003587 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103003588 Protein export membrane protein; Region: SecD_SecF; cl14618 652103003589 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 652103003590 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103003591 catalytic residues [active] 652103003592 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 652103003593 FAD binding pocket [chemical binding]; other site 652103003594 FAD binding motif [chemical binding]; other site 652103003595 phosphate binding motif [ion binding]; other site 652103003596 beta-alpha-beta structure motif; other site 652103003597 NAD binding pocket [chemical binding]; other site 652103003598 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 652103003599 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 652103003600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003601 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 652103003602 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 652103003603 MPT binding site; other site 652103003604 trimer interface [polypeptide binding]; other site 652103003605 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103003606 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103003607 L-type amino acid transporter; Region: 2A0308; TIGR00911 652103003608 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103003609 S-adenosylmethionine binding site [chemical binding]; other site 652103003610 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103003611 Helix-turn-helix domains; Region: HTH; cl00088 652103003612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103003613 Coenzyme A binding pocket [chemical binding]; other site 652103003614 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 652103003615 active site 652103003616 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 652103003617 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 652103003618 FeS/SAM binding site; other site 652103003619 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 652103003620 RNA/DNA hybrid binding site [nucleotide binding]; other site 652103003621 active site 652103003622 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103003623 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103003624 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 652103003625 N-terminal plug; other site 652103003626 ligand-binding site [chemical binding]; other site 652103003627 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 652103003628 Fe-S cluster binding site [ion binding]; other site 652103003629 active site 652103003630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003631 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 652103003632 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 652103003633 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 652103003634 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 652103003635 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 652103003636 binding surface 652103003637 TPR motif; other site 652103003638 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 652103003639 binding surface 652103003640 TPR motif; other site 652103003641 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 652103003642 binding surface 652103003643 TPR motif; other site 652103003644 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 652103003645 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 652103003646 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103003647 substrate binding pocket [chemical binding]; other site 652103003648 chain length determination region; other site 652103003649 substrate-Mg2+ binding site; other site 652103003650 catalytic residues [active] 652103003651 aspartate-rich region 1; other site 652103003652 active site lid residues [active] 652103003653 aspartate-rich region 2; other site 652103003654 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 652103003655 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 652103003656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003657 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 652103003658 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 652103003659 tandem repeat interface [polypeptide binding]; other site 652103003660 oligomer interface [polypeptide binding]; other site 652103003661 active site residues [active] 652103003662 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 652103003663 dimer interface [polypeptide binding]; other site 652103003664 motif 1; other site 652103003665 active site 652103003666 motif 2; other site 652103003667 motif 3; other site 652103003668 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103003669 putative active site [active] 652103003670 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 652103003671 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 652103003672 Predicted membrane protein [Function unknown]; Region: COG3174 652103003673 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 652103003674 Protein of unknown function (DUF3096); Region: DUF3096; pfam11295 652103003675 pyruvate phosphate dikinase; Provisional; Region: PRK09279 652103003676 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 652103003677 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 652103003678 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103003679 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 652103003680 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 652103003681 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 652103003682 dimerization interface [polypeptide binding]; other site 652103003683 active site 652103003684 L-aspartate oxidase; Provisional; Region: PRK07512 652103003685 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103003686 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 652103003687 Quinolinate synthetase A protein; Region: NadA; cl00420 652103003688 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 652103003689 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 652103003690 NADP binding site [chemical binding]; other site 652103003691 dimer interface [polypeptide binding]; other site 652103003692 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 652103003693 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103003694 DNA-binding site [nucleotide binding]; DNA binding site 652103003695 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 652103003696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003697 homodimer interface [polypeptide binding]; other site 652103003698 catalytic residue [active] 652103003699 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 652103003700 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 652103003701 Predicted membrane protein [Function unknown]; Region: COG5373 652103003702 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 652103003703 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 652103003704 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 652103003705 ATP binding site [chemical binding]; other site 652103003706 putative Mg++ binding site [ion binding]; other site 652103003707 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 652103003708 nucleotide binding region [chemical binding]; other site 652103003709 ATP-binding site [chemical binding]; other site 652103003710 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 652103003711 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 652103003712 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 652103003713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103003714 Helix-turn-helix domains; Region: HTH; cl00088 652103003715 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 652103003716 dimerization interface [polypeptide binding]; other site 652103003717 Domain of unknown function (DUF897); Region: DUF897; cl01312 652103003718 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 652103003719 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 652103003720 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 652103003721 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 652103003722 dihydroorotase; Validated; Region: PRK09060 652103003723 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 652103003724 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 652103003725 active site 652103003726 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 652103003727 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 652103003728 nudix motif; other site 652103003729 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 652103003730 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103003731 FAD binding domain; Region: FAD_binding_4; pfam01565 652103003732 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 652103003733 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 652103003734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003735 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103003736 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103003737 benzoate transport; Region: 2A0115; TIGR00895 652103003738 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 652103003739 putative substrate translocation pore; other site 652103003740 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 652103003741 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 652103003742 active site 652103003743 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 652103003744 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 652103003745 TolB amino-terminal domain; Region: TolB_N; cl00639 652103003746 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103003747 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103003748 catalytic residue [active] 652103003749 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103003750 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 652103003751 ligand binding site [chemical binding]; other site 652103003752 flexible hinge region; other site 652103003753 Helix-turn-helix domains; Region: HTH; cl00088 652103003754 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 652103003755 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103003756 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 652103003757 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 652103003758 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 652103003759 dimerization interface [polypeptide binding]; other site 652103003760 active site 652103003761 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 652103003762 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103003763 FAD binding site [chemical binding]; other site 652103003764 substrate binding pocket [chemical binding]; other site 652103003765 catalytic base [active] 652103003766 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103003767 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103003768 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103003769 dimer interface [polypeptide binding]; other site 652103003770 putative CheW interface [polypeptide binding]; other site 652103003771 Transcriptional regulator; Region: Transcrip_reg; cl00361 652103003772 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 652103003773 active site 652103003774 putative DNA-binding cleft [nucleotide binding]; other site 652103003775 dimer interface [polypeptide binding]; other site 652103003776 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 652103003777 RuvA N terminal domain; Region: RuvA_N; pfam01330 652103003778 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 652103003779 active site 652103003780 catalytic motif [active] 652103003781 Zn binding site [ion binding]; other site 652103003782 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 652103003783 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 652103003784 Walker A motif; other site 652103003785 ATP binding site [chemical binding]; other site 652103003786 Walker B motif; other site 652103003787 arginine finger; other site 652103003788 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 652103003789 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 652103003790 active site 652103003791 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103003792 OpgC protein; Region: OpgC_C; cl00792 652103003793 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103003794 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 652103003795 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 652103003796 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003797 Helix-turn-helix domains; Region: HTH; cl00088 652103003798 YCII-related domain; Region: YCII; cl00999 652103003799 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 652103003800 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103003801 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103003802 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103003803 classical (c) SDRs; Region: SDR_c; cd05233 652103003804 NAD(P) binding site [chemical binding]; other site 652103003805 active site 652103003806 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 652103003807 YCII-related domain; Region: YCII; cl00999 652103003808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103003809 Helix-turn-helix domains; Region: HTH; cl00088 652103003810 WHG domain; Region: WHG; pfam13305 652103003811 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 652103003812 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103003813 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 652103003814 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103003815 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103003816 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103003817 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 652103003818 translocation protein TolB; Provisional; Region: tolB; PRK05137 652103003819 TolB amino-terminal domain; Region: TolB_N; cl00639 652103003820 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103003821 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103003822 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103003823 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 652103003824 PAS fold; Region: PAS_7; pfam12860 652103003825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103003826 metal binding site [ion binding]; metal-binding site 652103003827 active site 652103003828 I-site; other site 652103003829 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 652103003830 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103003831 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103003832 ligand binding site [chemical binding]; other site 652103003833 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 652103003834 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 652103003835 Ligand Binding Site [chemical binding]; other site 652103003836 FtsH Extracellular; Region: FtsH_ext; pfam06480 652103003837 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 652103003838 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 652103003839 Walker A motif; other site 652103003840 ATP binding site [chemical binding]; other site 652103003841 Walker B motif; other site 652103003842 arginine finger; other site 652103003843 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103003844 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 652103003845 FMN binding site [chemical binding]; other site 652103003846 hypothetical protein; Provisional; Region: PRK14851 652103003847 dimer interface [polypeptide binding]; other site 652103003848 AzlC protein; Region: AzlC; cl00570 652103003849 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 652103003850 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 652103003851 FAD binding domain; Region: FAD_binding_4; pfam01565 652103003852 FAD binding domain; Region: FAD_binding_4; pfam01565 652103003853 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 652103003854 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 652103003855 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 652103003856 Cysteine-rich domain; Region: CCG; pfam02754 652103003857 Cysteine-rich domain; Region: CCG; pfam02754 652103003858 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 652103003859 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103003860 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 652103003861 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 652103003862 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103003863 chaperonin GroEL; Reviewed; Region: groEL; PRK12852 652103003864 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 652103003865 ring oligomerisation interface [polypeptide binding]; other site 652103003866 ATP/Mg binding site [chemical binding]; other site 652103003867 stacking interactions; other site 652103003868 hinge regions; other site 652103003869 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 652103003870 oligomerisation interface [polypeptide binding]; other site 652103003871 mobile loop; other site 652103003872 roof hairpin; other site 652103003873 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 652103003874 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 652103003875 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103003876 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 652103003877 YdjC-like protein; Region: YdjC; cl01344 652103003878 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 652103003879 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 652103003880 Ligand binding site; other site 652103003881 Putative Catalytic site; other site 652103003882 DXD motif; other site 652103003883 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 652103003884 ATP phosphoribosyltransferase; Region: HisG; cl15266 652103003885 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 652103003886 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103003887 motif 1; other site 652103003888 dimer interface [polypeptide binding]; other site 652103003889 active site 652103003890 motif 2; other site 652103003891 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103003892 motif 3; other site 652103003893 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 652103003894 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 652103003895 UbiA prenyltransferase family; Region: UbiA; cl00337 652103003896 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 652103003897 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 652103003898 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 cysteine...; Region: CysQ; cd01638 652103003899 active site 652103003900 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 652103003901 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 652103003902 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 652103003903 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 652103003904 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 652103003905 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 652103003906 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 652103003907 generic binding surface II; other site 652103003908 generic binding surface I; other site 652103003909 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 652103003910 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 652103003911 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103003912 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 652103003913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103003914 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 652103003915 nucleoside/Zn binding site; other site 652103003916 dimer interface [polypeptide binding]; other site 652103003917 catalytic motif [active] 652103003918 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 652103003919 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 652103003920 RNA binding surface [nucleotide binding]; other site 652103003921 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 652103003922 active site 652103003923 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103003924 S-adenosylmethionine binding site [chemical binding]; other site 652103003925 HemK family putative methylases; Region: hemK_fam; TIGR00536 652103003926 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103003927 S-adenosylmethionine binding site [chemical binding]; other site 652103003928 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 652103003929 MoaE homodimer interface [polypeptide binding]; other site 652103003930 MoaD interaction [polypeptide binding]; other site 652103003931 active site residues [active] 652103003932 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 652103003933 MoaE interaction surface [polypeptide binding]; other site 652103003934 MoeB interaction surface [polypeptide binding]; other site 652103003935 thiocarboxylated glycine; other site 652103003936 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 652103003937 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 652103003938 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 652103003939 GIY-YIG motif/motif A; other site 652103003940 active site 652103003941 catalytic site [active] 652103003942 putative DNA binding site [nucleotide binding]; other site 652103003943 metal binding site [ion binding]; metal-binding site 652103003944 UvrB/uvrC motif; Region: UVR; pfam02151 652103003945 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 652103003946 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103003947 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103003948 DNA-binding site [nucleotide binding]; DNA binding site 652103003949 RNA-binding motif; other site 652103003950 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 652103003951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103003952 Response regulator receiver domain; Region: Response_reg; pfam00072 652103003953 active site 652103003954 phosphorylation site [posttranslational modification] 652103003955 intermolecular recognition site; other site 652103003956 dimerization interface [polypeptide binding]; other site 652103003957 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 652103003958 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 652103003959 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 652103003960 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 652103003961 dimer interface [polypeptide binding]; other site 652103003962 motif 1; other site 652103003963 motif 2; other site 652103003964 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103003965 active site 652103003966 motif 3; other site 652103003967 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 652103003968 anticodon binding site; other site 652103003969 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 652103003970 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 652103003971 inhibitor-cofactor binding pocket; inhibition site 652103003972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103003973 catalytic residue [active] 652103003974 membrane glycoprotein; Provisional; Region: PHA03332 652103003975 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 652103003976 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 652103003977 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 652103003978 active site 652103003979 motif I; other site 652103003980 motif II; other site 652103003981 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103003982 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 652103003983 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 652103003984 Aerotolerance regulator N-terminal; Region: BatA; cl06567 652103003985 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 652103003986 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 652103003987 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 652103003988 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 652103003989 MoxR-like ATPases [General function prediction only]; Region: COG0714 652103003990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103003991 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 652103003992 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 652103003993 putative active site [active] 652103003994 putative CoA binding site [chemical binding]; other site 652103003995 nudix motif; other site 652103003996 metal binding site [ion binding]; metal-binding site 652103003997 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 652103003998 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 652103003999 active site 652103004000 NTP binding site [chemical binding]; other site 652103004001 metal binding triad [ion binding]; metal-binding site 652103004002 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 652103004003 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 652103004004 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 652103004005 FeS/SAM binding site; other site 652103004006 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 652103004007 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 652103004008 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 652103004009 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 652103004010 [2Fe-2S] cluster binding site [ion binding]; other site 652103004011 cytochrome b; Provisional; Region: CYTB; MTH00191 652103004012 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 652103004013 Qi binding site; other site 652103004014 intrachain domain interface; other site 652103004015 interchain domain interface [polypeptide binding]; other site 652103004016 heme bH binding site [chemical binding]; other site 652103004017 heme bL binding site [chemical binding]; other site 652103004018 Qo binding site; other site 652103004019 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 652103004020 interchain domain interface [polypeptide binding]; other site 652103004021 intrachain domain interface; other site 652103004022 Qi binding site; other site 652103004023 Qo binding site; other site 652103004024 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 652103004025 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103004026 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103004027 classical (c) SDRs; Region: SDR_c; cd05233 652103004028 NAD(P) binding site [chemical binding]; other site 652103004029 active site 652103004030 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 652103004031 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103004032 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 652103004033 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 652103004034 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 652103004035 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 652103004036 HSP70 interaction site [polypeptide binding]; other site 652103004037 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 652103004038 substrate binding site [polypeptide binding]; other site 652103004039 dimer interface [polypeptide binding]; other site 652103004040 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 652103004041 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103004042 NAD binding site [chemical binding]; other site 652103004043 homotetramer interface [polypeptide binding]; other site 652103004044 homodimer interface [polypeptide binding]; other site 652103004045 substrate binding site [chemical binding]; other site 652103004046 active site 652103004047 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 652103004048 catalytic core [active] 652103004049 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 652103004050 Tetramer interface [polypeptide binding]; other site 652103004051 active site 652103004052 FMN-binding site [chemical binding]; other site 652103004053 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103004054 cyclase homology domain; Region: CHD; cd07302 652103004055 nucleotidyl binding site; other site 652103004056 metal binding site [ion binding]; metal-binding site 652103004057 dimer interface [polypeptide binding]; other site 652103004058 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 652103004059 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 652103004060 metal ion-dependent adhesion site (MIDAS); other site 652103004061 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 652103004062 Retinal pigment epithelial membrane protein; Region: RPE65; cl10080 652103004063 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 652103004064 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 652103004065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103004066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103004067 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 652103004068 Uncharacterized conserved protein [Function unknown]; Region: COG5476 652103004069 MlrC C-terminus; Region: MlrC_C; pfam07171 652103004070 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103004071 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103004072 Walker A/P-loop; other site 652103004073 ATP binding site [chemical binding]; other site 652103004074 Q-loop/lid; other site 652103004075 ABC transporter signature motif; other site 652103004076 Walker B; other site 652103004077 D-loop; other site 652103004078 H-loop/switch region; other site 652103004079 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004080 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103004081 Walker A/P-loop; other site 652103004082 ATP binding site [chemical binding]; other site 652103004083 Q-loop/lid; other site 652103004084 ABC transporter signature motif; other site 652103004085 Walker B; other site 652103004086 D-loop; other site 652103004087 H-loop/switch region; other site 652103004088 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004089 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103004090 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 652103004091 dimer interface [polypeptide binding]; other site 652103004092 conserved gate region; other site 652103004093 putative PBP binding loops; other site 652103004094 ABC-ATPase subunit interface; other site 652103004095 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103004096 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 652103004097 dimer interface [polypeptide binding]; other site 652103004098 conserved gate region; other site 652103004099 putative PBP binding loops; other site 652103004100 ABC-ATPase subunit interface; other site 652103004101 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 652103004102 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 652103004103 metal binding site [ion binding]; metal-binding site 652103004104 dimer interface [polypeptide binding]; other site 652103004105 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 652103004106 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103004107 FOG: CBS domain [General function prediction only]; Region: COG0517 652103004108 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 652103004109 CHAD domain; Region: CHAD; cl10506 652103004110 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 652103004111 dimer interface [polypeptide binding]; other site 652103004112 PYR/PP interface [polypeptide binding]; other site 652103004113 TPP binding site [chemical binding]; other site 652103004114 substrate binding site [chemical binding]; other site 652103004115 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 652103004116 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 652103004117 TPP-binding site; other site 652103004118 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 652103004119 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 652103004120 active site 652103004121 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 652103004122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103004123 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 652103004124 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 652103004125 putative ion selectivity filter; other site 652103004126 putative pore gating glutamate residue; other site 652103004127 putative H+/Cl- coupling transport residue; other site 652103004128 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103004129 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 652103004130 active site 652103004131 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 652103004132 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 652103004133 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 652103004134 oxyanion hole [active] 652103004135 Predicted integral membrane protein [Function unknown]; Region: COG0392 652103004136 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 652103004137 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103004138 dimerization interface [polypeptide binding]; other site 652103004139 metal binding site [ion binding]; metal-binding site 652103004140 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 652103004141 Ligand Binding Site [chemical binding]; other site 652103004142 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 652103004143 catalytic core [active] 652103004144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004145 FAD dependent oxidoreductase; Region: DAO; pfam01266 652103004146 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 652103004147 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 652103004148 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103004149 fagellar hook-basal body proteins; Region: FlgEFG_subfam; TIGR03506 652103004150 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 652103004151 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103004152 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 652103004153 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 652103004154 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103004155 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004156 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 652103004157 flagellin; Provisional; Region: PRK14708 652103004158 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004159 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004160 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004161 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004162 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 652103004163 dimer interface [polypeptide binding]; other site 652103004164 active site 652103004165 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 652103004166 extended (e) SDRs; Region: SDR_e; cd08946 652103004167 NAD(P) binding site [chemical binding]; other site 652103004168 active site 652103004169 substrate binding site [chemical binding]; other site 652103004170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004171 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 652103004172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004173 NAD(P) binding site [chemical binding]; other site 652103004174 active site 652103004175 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103004176 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103004177 S-adenosylmethionine binding site [chemical binding]; other site 652103004178 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 652103004179 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 652103004180 tetramer interface [polypeptide binding]; other site 652103004181 TPP-binding site [chemical binding]; other site 652103004182 heterodimer interface [polypeptide binding]; other site 652103004183 phosphorylation loop region [posttranslational modification] 652103004184 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 652103004185 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 652103004186 alpha subunit interface [polypeptide binding]; other site 652103004187 TPP binding site [chemical binding]; other site 652103004188 heterodimer interface [polypeptide binding]; other site 652103004189 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103004190 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 652103004191 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 652103004192 NAD binding site [chemical binding]; other site 652103004193 catalytic Zn binding site [ion binding]; other site 652103004194 substrate binding site [chemical binding]; other site 652103004195 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103004196 active site 652103004197 nucleotide binding site [chemical binding]; other site 652103004198 HIGH motif; other site 652103004199 KMSKS motif; other site 652103004200 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 652103004201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103004202 putative ribose interaction site [chemical binding]; other site 652103004203 putative ADP binding site [chemical binding]; other site 652103004204 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 652103004205 active site 652103004206 Substrate binding site; other site 652103004207 Mg++ binding site; other site 652103004208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004209 NAD(P) binding site [chemical binding]; other site 652103004210 active site 652103004211 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 652103004212 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103004213 PYR/PP interface [polypeptide binding]; other site 652103004214 dimer interface [polypeptide binding]; other site 652103004215 TPP binding site [chemical binding]; other site 652103004216 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103004217 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 652103004218 TPP-binding site [chemical binding]; other site 652103004219 TPR repeat; Region: TPR_11; pfam13414 652103004220 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 652103004221 binding surface 652103004222 TPR motif; other site 652103004223 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 652103004224 binding surface 652103004225 TPR motif; other site 652103004226 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 652103004227 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 652103004228 binding surface 652103004229 TPR motif; other site 652103004230 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 652103004231 binding surface 652103004232 TPR motif; other site 652103004233 flagellin; Provisional; Region: PRK14708 652103004234 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103004235 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004236 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103004237 Flagellar protein FlbT; Region: FlbT; cl11455 652103004238 Flagellar protein FlaF; Region: FlaF; cl11454 652103004239 Rod binding protein; Region: Rod-binding; cl01626 652103004240 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 652103004241 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 652103004242 Class II flagellar assembly regulator; Region: FliX; cl11677 652103004243 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 652103004244 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103004245 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 652103004246 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103004247 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103004248 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103004249 Protein export membrane protein; Region: SecD_SecF; cl14618 652103004250 Flagellar L-ring protein; Region: FlgH; cl00905 652103004251 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK12786 652103004252 SAF domain; Region: SAF; cl00555 652103004253 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 652103004254 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 652103004255 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103004256 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12689 652103004257 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 652103004258 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103004259 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 652103004260 flagellar motor switch protein FliM; Reviewed; Region: fliM; PRK12795 652103004261 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 652103004262 MgtE intracellular N domain; Region: MgtE_N; cl15244 652103004263 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 652103004264 FliP family; Region: FliP; cl00593 652103004265 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 652103004266 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06004 652103004267 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 652103004268 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 652103004269 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 652103004270 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 652103004271 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 652103004272 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 652103004273 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 652103004274 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 652103004275 PAS domain; Region: PAS_9; pfam13426 652103004276 putative active site [active] 652103004277 heme pocket [chemical binding]; other site 652103004278 PAS fold; Region: PAS_4; pfam08448 652103004279 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 652103004280 dimer interface [polypeptide binding]; other site 652103004281 phosphorylation site [posttranslational modification] 652103004282 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 652103004283 ATP binding site [chemical binding]; other site 652103004284 Mg2+ binding site [ion binding]; other site 652103004285 G-X-G motif; other site 652103004286 Response regulator receiver domain; Region: Response_reg; pfam00072 652103004287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103004288 active site 652103004289 phosphorylation site [posttranslational modification] 652103004290 intermolecular recognition site; other site 652103004291 dimerization interface [polypeptide binding]; other site 652103004292 FRG domain; Region: FRG; cl07460 652103004293 Tim44-like domain; Region: Tim44; cl09208 652103004294 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 652103004295 glutathione s-transferase; Provisional; Region: PTZ00057 652103004296 GSH binding site (G-site) [chemical binding]; other site 652103004297 C-terminal domain interface [polypeptide binding]; other site 652103004298 dimer interface [polypeptide binding]; other site 652103004299 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 652103004300 dimer interface [polypeptide binding]; other site 652103004301 N-terminal domain interface [polypeptide binding]; other site 652103004302 substrate binding pocket (H-site) [chemical binding]; other site 652103004303 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 652103004304 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 652103004305 fumarate hydratase; Provisional; Region: PRK15389 652103004306 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 652103004307 Fumarase C-terminus; Region: Fumerase_C; cl00795 652103004308 Intracellular septation protein A; Region: IspA; cl01098 652103004309 SET domain; Region: SET; cl02566 652103004310 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103004311 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 652103004312 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 652103004313 catalytic residues [active] 652103004314 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103004315 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103004316 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 652103004317 CoenzymeA binding site [chemical binding]; other site 652103004318 subunit interaction site [polypeptide binding]; other site 652103004319 PHB binding site; other site 652103004320 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103004321 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 652103004322 ligand binding site [chemical binding]; other site 652103004323 flexible hinge region; other site 652103004324 Helix-turn-helix domains; Region: HTH; cl00088 652103004325 exosome complex RNA-binding protein Csl4; Provisional; Region: PRK09521 652103004326 recombinase A; Provisional; Region: recA; PRK09354 652103004327 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 652103004328 hexamer interface [polypeptide binding]; other site 652103004329 Walker A motif; other site 652103004330 ATP binding site [chemical binding]; other site 652103004331 Walker B motif; other site 652103004332 glycine dehydrogenase; Provisional; Region: PRK05367 652103004333 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 652103004334 tetramer interface [polypeptide binding]; other site 652103004335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004336 catalytic residue [active] 652103004337 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 652103004338 tetramer interface [polypeptide binding]; other site 652103004339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004340 catalytic residue [active] 652103004341 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 652103004342 lipoyl attachment site [posttranslational modification]; other site 652103004343 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 652103004344 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 652103004345 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 652103004346 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 652103004347 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 652103004348 motif 1; other site 652103004349 active site 652103004350 motif 2; other site 652103004351 motif 3; other site 652103004352 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 652103004353 DHHA1 domain; Region: DHHA1; pfam02272 652103004354 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 652103004355 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103004356 Coenzyme A binding pocket [chemical binding]; other site 652103004357 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 652103004358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004359 putative cation:proton antiport protein; Provisional; Region: PRK10669 652103004360 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 652103004361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004362 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103004363 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103004364 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103004365 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 652103004366 N-terminal plug; other site 652103004367 ligand-binding site [chemical binding]; other site 652103004368 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103004369 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103004370 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 652103004371 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 652103004372 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 652103004373 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 652103004374 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103004375 putative active site [active] 652103004376 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 652103004377 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 652103004378 active site 652103004379 SUMO-1 interface [polypeptide binding]; other site 652103004380 transcription elongation factor regulatory protein; Validated; Region: PRK06342 652103004381 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103004382 LysE type translocator; Region: LysE; cl00565 652103004383 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 652103004384 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 652103004385 tetramer interface [polypeptide binding]; other site 652103004386 active site 652103004387 Mg2+/Mn2+ binding site [ion binding]; other site 652103004388 Virulence protein [General function prediction only]; Region: COG3943 652103004389 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 652103004390 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 652103004391 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 652103004392 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 652103004393 ATP binding site [chemical binding]; other site 652103004394 active site 652103004395 substrate binding site [chemical binding]; other site 652103004396 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 652103004397 ORF6C domain; Region: ORF6C; pfam10552 652103004398 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 652103004399 putative active site [active] 652103004400 catalytic triad [active] 652103004401 adenylosuccinate lyase; Provisional; Region: PRK07492 652103004402 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 652103004403 tetramer interface [polypeptide binding]; other site 652103004404 active site 652103004405 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 652103004406 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 652103004407 substrate binding site [chemical binding]; other site 652103004408 hexamer interface [polypeptide binding]; other site 652103004409 metal binding site [ion binding]; metal-binding site 652103004410 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 652103004411 EF-hand domain pair; Region: EF_hand_5; pfam13499 652103004412 Ca2+ binding site [ion binding]; other site 652103004413 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 652103004414 putative active site pocket [active] 652103004415 cleavage site 652103004416 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 652103004417 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103004418 GIY-YIG motif/motif A; other site 652103004419 putative active site [active] 652103004420 putative metal binding site [ion binding]; other site 652103004421 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 652103004422 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 652103004423 dimerization interface [polypeptide binding]; other site 652103004424 ligand binding site [chemical binding]; other site 652103004425 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103004426 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103004427 Walker A/P-loop; other site 652103004428 ATP binding site [chemical binding]; other site 652103004429 Q-loop/lid; other site 652103004430 ABC transporter signature motif; other site 652103004431 Walker B; other site 652103004432 D-loop; other site 652103004433 H-loop/switch region; other site 652103004434 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 652103004435 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103004436 Walker A/P-loop; other site 652103004437 ATP binding site [chemical binding]; other site 652103004438 Q-loop/lid; other site 652103004439 ABC transporter signature motif; other site 652103004440 Walker B; other site 652103004441 D-loop; other site 652103004442 H-loop/switch region; other site 652103004443 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 652103004444 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 652103004445 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 652103004446 TM-ABC transporter signature motif; other site 652103004447 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 652103004448 TM-ABC transporter signature motif; other site 652103004449 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 652103004450 putative hydrophobic ligand binding site [chemical binding]; other site 652103004451 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103004452 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 652103004453 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103004454 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 652103004455 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 652103004456 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 652103004457 Walker A motif; other site 652103004458 ATP binding site [chemical binding]; other site 652103004459 Walker B motif; other site 652103004460 arginine finger; other site 652103004461 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 652103004462 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 652103004463 metal ion-dependent adhesion site (MIDAS); other site 652103004464 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 652103004465 XdhC Rossmann domain; Region: XdhC_C; pfam13478 652103004466 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 652103004467 putative MPT binding site; other site 652103004468 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 652103004469 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 652103004470 Ligand binding site; other site 652103004471 metal-binding site 652103004472 Helix-turn-helix domains; Region: HTH; cl00088 652103004473 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 652103004474 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 652103004475 dimerization interface [polypeptide binding]; other site 652103004476 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103004477 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 652103004478 substrate binding site [chemical binding]; other site 652103004479 oxyanion hole (OAH) forming residues; other site 652103004480 trimer interface [polypeptide binding]; other site 652103004481 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 652103004482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103004483 metal binding site [ion binding]; metal-binding site 652103004484 active site 652103004485 I-site; other site 652103004486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103004487 Helix-turn-helix domains; Region: HTH; cl00088 652103004488 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103004489 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103004490 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103004491 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 652103004492 Walker A/P-loop; other site 652103004493 ATP binding site [chemical binding]; other site 652103004494 Q-loop/lid; other site 652103004495 ABC transporter signature motif; other site 652103004496 Walker B; other site 652103004497 D-loop; other site 652103004498 H-loop/switch region; other site 652103004499 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 652103004500 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103004501 Protein of unknown function DUF72; Region: DUF72; cl00777 652103004502 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 652103004503 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 652103004504 Ligand binding site; other site 652103004505 Putative Catalytic site; other site 652103004506 DXD motif; other site 652103004507 GtrA-like protein; Region: GtrA; cl00971 652103004508 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103004509 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 652103004510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103004511 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 652103004512 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 652103004513 substrate binding site [chemical binding]; other site 652103004514 ATP binding site [chemical binding]; other site 652103004515 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 652103004516 active site 652103004517 metal binding site [ion binding]; metal-binding site 652103004518 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 652103004519 active site 652103004520 metal binding site [ion binding]; metal-binding site 652103004521 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103004522 hypothetical protein; Provisional; Region: PRK12472 652103004523 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103004524 Helix-turn-helix domains; Region: HTH; cl00088 652103004525 Protein of unknown function (DUF808); Region: DUF808; cl01002 652103004526 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103004527 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103004528 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103004529 multidrug efflux protein; Reviewed; Region: PRK09579 652103004530 Protein export membrane protein; Region: SecD_SecF; cl14618 652103004531 FAD dependent oxidoreductase; Region: DAO; pfam01266 652103004532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004533 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 652103004534 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103004535 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103004536 Phasin protein; Region: Phasin_2; cl11491 652103004537 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103004538 Helix-turn-helix domains; Region: HTH; cl00088 652103004539 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 652103004540 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 652103004541 Phenylacetic acid degradation B; Region: PaaB; cl01371 652103004542 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 652103004543 Domain of unknown function DUF59; Region: DUF59; cl00941 652103004544 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 652103004545 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 652103004546 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 652103004547 FAD binding pocket [chemical binding]; other site 652103004548 FAD binding motif [chemical binding]; other site 652103004549 phosphate binding motif [ion binding]; other site 652103004550 beta-alpha-beta structure motif; other site 652103004551 NAD(p) ribose binding residues [chemical binding]; other site 652103004552 NAD binding pocket [chemical binding]; other site 652103004553 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 652103004554 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 652103004555 catalytic loop [active] 652103004556 iron binding site [ion binding]; other site 652103004557 hypothetical protein; Provisional; Region: PRK08266 652103004558 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103004559 PYR/PP interface [polypeptide binding]; other site 652103004560 dimer interface [polypeptide binding]; other site 652103004561 TPP binding site [chemical binding]; other site 652103004562 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103004563 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 652103004564 TPP-binding site [chemical binding]; other site 652103004565 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 652103004566 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 652103004567 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 652103004568 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 652103004569 active site 652103004570 metal binding site [ion binding]; metal-binding site 652103004571 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 652103004572 tetramer interface [polypeptide binding]; other site 652103004573 active site 652103004574 metal binding site [ion binding]; metal-binding site 652103004575 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103004576 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 652103004577 NAD binding site [chemical binding]; other site 652103004578 catalytic residues [active] 652103004579 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 652103004580 putative substrate binding pocket [chemical binding]; other site 652103004581 trimer interface [polypeptide binding]; other site 652103004582 Helix-turn-helix domains; Region: HTH; cl00088 652103004583 Transcriptional regulators [Transcription]; Region: MarR; COG1846 652103004584 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 652103004585 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 652103004586 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103004587 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103004588 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103004589 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 652103004590 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 652103004591 Uncharacterized conserved protein [Function unknown]; Region: COG2308 652103004592 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 652103004593 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 652103004594 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103004595 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103004596 Cache domain; Region: Cache_2; cl07034 652103004597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 652103004598 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 652103004599 dimerization interface [polypeptide binding]; other site 652103004600 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103004601 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103004602 dimer interface [polypeptide binding]; other site 652103004603 putative CheW interface [polypeptide binding]; other site 652103004604 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 652103004605 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 652103004606 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 652103004607 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 652103004608 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 652103004609 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 652103004610 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 652103004611 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103004612 active site lid residues [active] 652103004613 substrate binding pocket [chemical binding]; other site 652103004614 catalytic residues [active] 652103004615 substrate-Mg2+ binding site; other site 652103004616 aspartate-rich region 1; other site 652103004617 aspartate-rich region 2; other site 652103004618 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103004619 active site lid residues [active] 652103004620 substrate binding pocket [chemical binding]; other site 652103004621 catalytic residues [active] 652103004622 substrate-Mg2+ binding site; other site 652103004623 aspartate-rich region 1; other site 652103004624 aspartate-rich region 2; other site 652103004625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004626 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 652103004627 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 652103004628 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 652103004629 Active site cavity [active] 652103004630 catalytic acid [active] 652103004631 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 652103004632 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 652103004633 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 652103004634 FeS/SAM binding site; other site 652103004635 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 652103004636 LytB protein; Region: LYTB; cl00507 652103004637 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 652103004638 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 652103004639 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 652103004640 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 652103004641 inhibitor-cofactor binding pocket; inhibition site 652103004642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103004643 catalytic residue [active] 652103004644 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 652103004645 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 652103004646 Ligand Binding Site [chemical binding]; other site 652103004647 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103004648 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 652103004649 oligomeric interface; other site 652103004650 putative active site [active] 652103004651 homodimer interface [polypeptide binding]; other site 652103004652 HsdM N-terminal domain; Region: HsdM_N; pfam12161 652103004653 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 652103004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004655 choline dehydrogenase; Validated; Region: PRK02106 652103004656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004657 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103004658 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103004659 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103004660 metal binding site [ion binding]; metal-binding site 652103004661 putative dimer interface [polypeptide binding]; other site 652103004662 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103004663 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 652103004664 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 652103004665 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 652103004666 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 652103004667 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103004668 dimerization interface [polypeptide binding]; other site 652103004669 metal binding site [ion binding]; metal-binding site 652103004670 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 652103004671 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004672 putative ligand binding site [chemical binding]; other site 652103004673 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 652103004674 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004675 putative ligand binding site [chemical binding]; other site 652103004676 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 652103004677 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004678 putative ligand binding site [chemical binding]; other site 652103004679 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 652103004680 TM-ABC transporter signature motif; other site 652103004681 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 652103004682 TM-ABC transporter signature motif; other site 652103004683 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103004684 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103004685 Walker A/P-loop; other site 652103004686 ATP binding site [chemical binding]; other site 652103004687 Q-loop/lid; other site 652103004688 ABC transporter signature motif; other site 652103004689 Walker B; other site 652103004690 D-loop; other site 652103004691 H-loop/switch region; other site 652103004692 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103004693 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103004694 Walker A/P-loop; other site 652103004695 ATP binding site [chemical binding]; other site 652103004696 Q-loop/lid; other site 652103004697 ABC transporter signature motif; other site 652103004698 Walker B; other site 652103004699 D-loop; other site 652103004700 H-loop/switch region; other site 652103004701 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103004702 Helix-turn-helix domains; Region: HTH; cl00088 652103004703 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103004704 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 652103004705 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 652103004706 substrate binding site [chemical binding]; other site 652103004707 oxyanion hole (OAH) forming residues; other site 652103004708 trimer interface [polypeptide binding]; other site 652103004709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103004710 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103004711 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103004712 dicarboxylate--CoA ligase PimA; Region: pimA; TIGR03205 652103004713 AMP-binding enzyme; Region: AMP-binding; cl15778 652103004714 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103004715 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 652103004716 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 652103004717 dimer interface [polypeptide binding]; other site 652103004718 active site 652103004719 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103004720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103004721 active site 652103004722 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103004723 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103004724 active site 652103004725 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103004726 classical (c) SDRs; Region: SDR_c; cd05233 652103004727 NAD(P) binding site [chemical binding]; other site 652103004728 active site 652103004729 sulfite reductase; Provisional; Region: PRK06214 652103004730 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 652103004731 FAD binding pocket [chemical binding]; other site 652103004732 FAD binding motif [chemical binding]; other site 652103004733 catalytic residues [active] 652103004734 NAD binding pocket [chemical binding]; other site 652103004735 phosphate binding motif [ion binding]; other site 652103004736 beta-alpha-beta structure motif; other site 652103004737 ferredoxin-nitrite reductase; Reviewed; Region: nirA; PRK09567 652103004738 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103004739 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103004740 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 652103004741 heme-binding site [chemical binding]; other site 652103004742 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 652103004743 heme-binding site [chemical binding]; other site 652103004744 NMT1-like family; Region: NMT1_2; cl15260 652103004745 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103004746 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 652103004747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103004748 active site 652103004749 phosphorylation site [posttranslational modification] 652103004750 intermolecular recognition site; other site 652103004751 dimerization interface [polypeptide binding]; other site 652103004752 ANTAR domain; Region: ANTAR; cl04297 652103004753 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 652103004754 glycerol kinase; Provisional; Region: glpK; PRK00047 652103004755 N- and C-terminal domain interface [polypeptide binding]; other site 652103004756 active site 652103004757 MgATP binding site [chemical binding]; other site 652103004758 catalytic site [active] 652103004759 metal binding site [ion binding]; metal-binding site 652103004760 glycerol binding site [chemical binding]; other site 652103004761 homotetramer interface [polypeptide binding]; other site 652103004762 homodimer interface [polypeptide binding]; other site 652103004763 FBP binding site [chemical binding]; other site 652103004764 protein IIAGlc interface [polypeptide binding]; other site 652103004765 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 652103004766 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 652103004767 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103004768 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103004769 N-terminal domain interface [polypeptide binding]; other site 652103004770 dimer interface [polypeptide binding]; other site 652103004771 substrate binding pocket (H-site) [chemical binding]; other site 652103004772 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 652103004773 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 652103004774 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 652103004775 substrate binding pocket [chemical binding]; other site 652103004776 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 652103004777 B12 binding site [chemical binding]; other site 652103004778 cobalt ligand [ion binding]; other site 652103004779 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 652103004780 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 652103004781 putative active site [active] 652103004782 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 652103004783 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 652103004784 FAD binding site [chemical binding]; other site 652103004785 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 652103004786 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 652103004787 prephenate dehydratase; Provisional; Region: PRK11899 652103004788 Prephenate dehydratase; Region: PDT; pfam00800 652103004789 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 652103004790 putative L-Phe binding site [chemical binding]; other site 652103004791 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 652103004792 Ligand binding site; other site 652103004793 oligomer interface; other site 652103004794 Cytochrome c; Region: Cytochrom_C; cl11414 652103004795 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103004796 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 652103004797 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103004798 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 652103004799 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 652103004800 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 652103004801 dimer interface [polypeptide binding]; other site 652103004802 conserved gate region; other site 652103004803 putative PBP binding loops; other site 652103004804 ABC-ATPase subunit interface; other site 652103004805 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 652103004806 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 652103004807 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 652103004808 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103004809 Walker A/P-loop; other site 652103004810 ATP binding site [chemical binding]; other site 652103004811 Q-loop/lid; other site 652103004812 ABC transporter signature motif; other site 652103004813 Walker B; other site 652103004814 D-loop; other site 652103004815 H-loop/switch region; other site 652103004816 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004817 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103004818 Walker A/P-loop; other site 652103004819 ATP binding site [chemical binding]; other site 652103004820 Q-loop/lid; other site 652103004821 ABC transporter signature motif; other site 652103004822 Walker B; other site 652103004823 D-loop; other site 652103004824 H-loop/switch region; other site 652103004825 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103004826 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 652103004827 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 652103004828 dimer interface [polypeptide binding]; other site 652103004829 active site 652103004830 ADP-ribose binding site [chemical binding]; other site 652103004831 nudix motif; other site 652103004832 metal binding site [ion binding]; metal-binding site 652103004833 NlpC/P60 family; Region: NLPC_P60; cl11438 652103004834 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 652103004835 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 652103004836 interface (dimer of trimers) [polypeptide binding]; other site 652103004837 Substrate-binding/catalytic site; other site 652103004838 Zn-binding sites [ion binding]; other site 652103004839 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 652103004840 binding surface 652103004841 TPR motif; other site 652103004842 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 652103004843 TPR motif; other site 652103004844 binding surface 652103004845 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 652103004846 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 652103004847 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 652103004848 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 652103004849 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 652103004850 ATP binding site [chemical binding]; other site 652103004851 Walker A motif; other site 652103004852 hexamer interface [polypeptide binding]; other site 652103004853 Walker B motif; other site 652103004854 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 652103004855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103004856 Type IV pili component [Cell motility and secretion]; Region: COG5461; cl02279 652103004857 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 652103004858 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 652103004859 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 652103004860 BON domain; Region: BON; cl02771 652103004861 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 652103004862 SAF domain; Region: SAF; cl00555 652103004863 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 652103004864 Flp/Fap pilin component; Region: Flp_Fap; cl01585 652103004865 Flp/Fap pilin component; Region: Flp_Fap; cl01585 652103004866 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 652103004867 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103004868 TadE-like protein; Region: TadE; cl10688 652103004869 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 652103004870 TadE-like protein; Region: TadE; cl10688 652103004871 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103004872 DNA-binding site [nucleotide binding]; DNA binding site 652103004873 RNA-binding motif; other site 652103004874 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 652103004875 rRNA binding site [nucleotide binding]; other site 652103004876 predicted 30S ribosome binding site; other site 652103004877 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 652103004878 DEAD-like helicases superfamily; Region: DEXDc; smart00487 652103004879 ATP binding site [chemical binding]; other site 652103004880 Mg++ binding site [ion binding]; other site 652103004881 motif III; other site 652103004882 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 652103004883 nucleotide binding region [chemical binding]; other site 652103004884 ATP-binding site [chemical binding]; other site 652103004885 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103004886 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 652103004887 putative ligand binding site [chemical binding]; other site 652103004888 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 652103004889 TM-ABC transporter signature motif; other site 652103004890 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 652103004891 TM-ABC transporter signature motif; other site 652103004892 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103004893 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103004894 Walker A/P-loop; other site 652103004895 ATP binding site [chemical binding]; other site 652103004896 Q-loop/lid; other site 652103004897 ABC transporter signature motif; other site 652103004898 Walker B; other site 652103004899 D-loop; other site 652103004900 H-loop/switch region; other site 652103004901 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 652103004902 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103004903 Walker A/P-loop; other site 652103004904 ATP binding site [chemical binding]; other site 652103004905 Q-loop/lid; other site 652103004906 ABC transporter signature motif; other site 652103004907 Walker B; other site 652103004908 D-loop; other site 652103004909 H-loop/switch region; other site 652103004910 UreD urease accessory protein; Region: UreD; cl00530 652103004911 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 652103004912 alpha-gamma subunit interface [polypeptide binding]; other site 652103004913 beta-gamma subunit interface [polypeptide binding]; other site 652103004914 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 652103004915 gamma-beta subunit interface [polypeptide binding]; other site 652103004916 alpha-beta subunit interface [polypeptide binding]; other site 652103004917 urease subunit alpha; Reviewed; Region: ureC; PRK13207 652103004918 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 652103004919 subunit interactions [polypeptide binding]; other site 652103004920 active site 652103004921 flap region; other site 652103004922 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 652103004923 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 652103004924 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 652103004925 dimer interface [polypeptide binding]; other site 652103004926 catalytic residues [active] 652103004927 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 652103004928 UreF; Region: UreF; pfam01730 652103004929 acyl-CoA synthetase; Validated; Region: PRK06188 652103004930 AMP-binding enzyme; Region: AMP-binding; cl15778 652103004931 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103004932 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 652103004933 FMN binding site [chemical binding]; other site 652103004934 substrate binding site [chemical binding]; other site 652103004935 putative catalytic residue [active] 652103004936 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 652103004937 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 652103004938 putative NAD(P) binding site [chemical binding]; other site 652103004939 catalytic Zn binding site [ion binding]; other site 652103004940 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 652103004941 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 652103004942 GTP binding site; other site 652103004943 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 652103004944 CPxP motif; other site 652103004945 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103004946 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103004947 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 652103004948 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 652103004949 putative DNA binding site [nucleotide binding]; other site 652103004950 putative homodimer interface [polypeptide binding]; other site 652103004951 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 652103004952 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 652103004953 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 652103004954 active site 652103004955 DNA binding site [nucleotide binding] 652103004956 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 652103004957 DNA binding site [nucleotide binding] 652103004958 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 652103004959 nucleotide binding site [chemical binding]; other site 652103004960 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; cl09865 652103004961 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 652103004962 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 652103004963 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 652103004964 active site 652103004965 catalytic site [active] 652103004966 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 652103004967 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 652103004968 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 652103004969 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 652103004970 catalytic site [active] 652103004971 active site 652103004972 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 652103004973 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 652103004974 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 652103004975 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 652103004976 active site 652103004977 catalytic site [active] 652103004978 glycogen branching enzyme; Provisional; Region: PRK05402 652103004979 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 652103004980 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 652103004981 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 652103004982 active site 652103004983 catalytic site [active] 652103004984 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 652103004985 trehalose synthase; Region: treS_nterm; TIGR02456 652103004986 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 652103004987 active site 652103004988 catalytic site [active] 652103004989 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 652103004990 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 652103004991 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 652103004992 active site 652103004993 homodimer interface [polypeptide binding]; other site 652103004994 catalytic site [active] 652103004995 acceptor binding site [chemical binding]; other site 652103004996 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 652103004997 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 652103004998 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 652103004999 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 652103005000 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103005001 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 652103005002 active site 652103005003 motif I; other site 652103005004 motif II; other site 652103005005 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103005006 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 652103005007 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 652103005008 ATP-binding site [chemical binding]; other site 652103005009 Gluconate-6-phosphate binding site [chemical binding]; other site 652103005010 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 652103005011 putative active site [active] 652103005012 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 652103005013 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 652103005014 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 652103005015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005016 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 652103005017 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 652103005018 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 652103005019 putative active site [active] 652103005020 catalytic residue [active] 652103005021 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 652103005022 active site 652103005023 dimer interface [polypeptide binding]; other site 652103005024 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 652103005025 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 652103005026 amidase; Provisional; Region: PRK07487 652103005027 Amidase; Region: Amidase; cl11426 652103005028 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 652103005029 catalytic residues [active] 652103005030 dimer interface [polypeptide binding]; other site 652103005031 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 652103005032 Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs; Region: GIY-YIG_SLX1_like; cd10449 652103005033 GIY-YIG motif/motif A; other site 652103005034 putative active site [active] 652103005035 putative metal binding site [ion binding]; other site 652103005036 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 652103005037 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103005038 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103005039 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 652103005040 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 652103005041 FMN-binding pocket [chemical binding]; other site 652103005042 flavin binding motif; other site 652103005043 phosphate binding motif [ion binding]; other site 652103005044 beta-alpha-beta structure motif; other site 652103005045 NAD binding pocket [chemical binding]; other site 652103005046 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 652103005047 catalytic loop [active] 652103005048 iron binding site [ion binding]; other site 652103005049 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 652103005050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103005051 DNA-binding site [nucleotide binding]; DNA binding site 652103005052 FCD domain; Region: FCD; cl11656 652103005053 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 652103005054 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 652103005055 iron-sulfur cluster [ion binding]; other site 652103005056 [2Fe-2S] cluster binding site [ion binding]; other site 652103005057 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 652103005058 alpha subunit interface [polypeptide binding]; other site 652103005059 active site 652103005060 substrate binding site [chemical binding]; other site 652103005061 Fe binding site [ion binding]; other site 652103005062 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 652103005063 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 652103005064 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 652103005065 Walker A motif; other site 652103005066 ATP binding site [chemical binding]; other site 652103005067 Walker B motif; other site 652103005068 arginine finger; other site 652103005069 PAS domain S-box; Region: sensory_box; TIGR00229 652103005070 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 652103005071 putative active site [active] 652103005072 heme pocket [chemical binding]; other site 652103005073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103005074 metal binding site [ion binding]; metal-binding site 652103005075 active site 652103005076 I-site; other site 652103005077 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 652103005078 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 652103005079 active site 652103005080 catalytic residue [active] 652103005081 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 652103005082 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 652103005083 active site residue [active] 652103005084 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 652103005085 active site residue [active] 652103005086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 652103005087 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103005088 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 652103005089 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 652103005090 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 652103005091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005092 Walker A/P-loop; other site 652103005093 ATP binding site [chemical binding]; other site 652103005094 Q-loop/lid; other site 652103005095 ABC transporter signature motif; other site 652103005096 Walker B; other site 652103005097 D-loop; other site 652103005098 H-loop/switch region; other site 652103005099 ABC transporter; Region: ABC_tran_2; pfam12848 652103005100 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103005101 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 652103005102 putative active site [active] 652103005103 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 652103005104 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103005105 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 652103005106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103005107 S-adenosylmethionine binding site [chemical binding]; other site 652103005108 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 652103005109 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103005110 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 652103005111 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103005112 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 652103005113 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 652103005114 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 652103005115 heme binding site [chemical binding]; other site 652103005116 ferroxidase pore; other site 652103005117 ferroxidase diiron center [ion binding]; other site 652103005118 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103005119 dimer interface [polypeptide binding]; other site 652103005120 putative CheW interface [polypeptide binding]; other site 652103005121 SOUL heme-binding protein; Region: SOUL; pfam04832 652103005122 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 652103005123 hypothetical protein; Provisional; Region: PRK07538 652103005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005126 Transposase IS200 like; Region: Y1_Tnp; cl00848 652103005127 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 652103005128 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103005129 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 652103005130 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 652103005131 ThiC-associated domain; Region: ThiC-associated; pfam13667 652103005132 ThiC family; Region: ThiC; cl08031 652103005133 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 652103005134 active site 652103005135 thiamine phosphate binding site [chemical binding]; other site 652103005136 pyrophosphate binding site [ion binding]; other site 652103005137 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 652103005138 ThiS interaction site; other site 652103005139 putative active site [active] 652103005140 tetramer interface [polypeptide binding]; other site 652103005141 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 652103005142 thiS-thiF/thiG interaction site; other site 652103005143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005144 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 652103005145 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 652103005146 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 652103005147 dimer interface [polypeptide binding]; other site 652103005148 phosphorylation site [posttranslational modification] 652103005149 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 652103005150 ATP binding site [chemical binding]; other site 652103005151 Mg2+ binding site [ion binding]; other site 652103005152 G-X-G motif; other site 652103005153 osmolarity response regulator; Provisional; Region: ompR; PRK09468 652103005154 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103005155 active site 652103005156 phosphorylation site [posttranslational modification] 652103005157 intermolecular recognition site; other site 652103005158 dimerization interface [polypeptide binding]; other site 652103005159 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 652103005160 DNA binding site [nucleotide binding] 652103005161 Domain of unknown function (DUF4403); Region: DUF4403; pfam14356 652103005162 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103005163 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 652103005164 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 652103005165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103005166 catalytic residue [active] 652103005167 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005168 Methyltransferase domain; Region: Methyltransf_31; pfam13847 652103005169 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103005170 S-adenosylmethionine binding site [chemical binding]; other site 652103005171 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 652103005172 dimerization interface [polypeptide binding]; other site 652103005173 putative DNA binding site [nucleotide binding]; other site 652103005174 putative Zn2+ binding site [ion binding]; other site 652103005175 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 652103005176 dimerization interface [polypeptide binding]; other site 652103005177 putative DNA binding site [nucleotide binding]; other site 652103005178 putative Zn2+ binding site [ion binding]; other site 652103005179 Predicted permease; Region: DUF318; pfam03773 652103005180 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103005181 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 652103005182 dimerization interface [polypeptide binding]; other site 652103005183 putative DNA binding site [nucleotide binding]; other site 652103005184 putative Zn2+ binding site [ion binding]; other site 652103005185 Low molecular weight phosphatase family; Region: LMWPc; cd00115 652103005186 active site 652103005187 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 652103005188 ArsC family; Region: ArsC; pfam03960 652103005189 catalytic residues [active] 652103005190 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 652103005191 Membrane transport protein; Region: Mem_trans; cl09117 652103005192 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103005193 classical (c) SDRs; Region: SDR_c; cd05233 652103005194 NAD(P) binding site [chemical binding]; other site 652103005195 active site 652103005196 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 652103005197 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 652103005198 putative NAD(P) binding site [chemical binding]; other site 652103005199 homodimer interface [polypeptide binding]; other site 652103005200 active site 652103005201 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 652103005202 B12 binding site [chemical binding]; other site 652103005203 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 652103005204 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 652103005205 FeS/SAM binding site; other site 652103005206 epoxide hydrolase N-terminal domain-like phosphatase; Region: HAD-1A3-hyp; TIGR02247 652103005207 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103005208 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 652103005209 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 652103005210 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 652103005211 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 652103005212 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103005213 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 652103005214 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 652103005215 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103005216 dimer interface [polypeptide binding]; other site 652103005217 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103005218 putative CheW interface [polypeptide binding]; other site 652103005219 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 652103005220 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005221 Helix-turn-helix domains; Region: HTH; cl00088 652103005222 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103005223 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 652103005224 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005225 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005226 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103005227 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 652103005228 putative substrate translocation pore; other site 652103005229 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 652103005230 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 652103005231 amidase catalytic site [active] 652103005232 Zn binding residues [ion binding]; other site 652103005233 substrate binding site [chemical binding]; other site 652103005234 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103005235 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 652103005236 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005237 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 652103005238 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 652103005239 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 652103005240 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103005241 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 652103005242 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005243 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005244 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005245 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 652103005246 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005247 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005248 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005249 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 652103005250 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 652103005251 Mg++ binding site [ion binding]; other site 652103005252 putative catalytic motif [active] 652103005253 putative substrate binding site [chemical binding]; other site 652103005254 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 652103005255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005256 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005257 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 652103005258 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 652103005259 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 652103005260 active site 652103005261 homodimer interface [polypeptide binding]; other site 652103005262 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 652103005263 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 652103005264 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 652103005265 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 652103005266 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 652103005267 FAD binding domain; Region: FAD_binding_4; pfam01565 652103005268 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 652103005269 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 652103005270 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 652103005271 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 652103005272 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 652103005273 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103005274 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 652103005275 Cell division protein FtsQ; Region: FtsQ; pfam03799 652103005276 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 652103005277 Cell division protein FtsA; Region: FtsA; cl11496 652103005278 Cell division protein FtsA; Region: FtsA; cl11496 652103005279 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 652103005280 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 652103005281 nucleotide binding site [chemical binding]; other site 652103005282 SulA interaction site; other site 652103005283 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 652103005284 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 652103005285 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 652103005286 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 652103005287 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 652103005288 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 652103005289 Walker A/P-loop; other site 652103005290 ATP binding site [chemical binding]; other site 652103005291 Q-loop/lid; other site 652103005292 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 652103005293 ABC transporter signature motif; other site 652103005294 Walker B; other site 652103005295 D-loop; other site 652103005296 H-loop/switch region; other site 652103005297 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103005298 GIY-YIG motif/motif A; other site 652103005299 putative active site [active] 652103005300 putative metal binding site [ion binding]; other site 652103005301 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 652103005302 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 652103005303 nucleotide binding pocket [chemical binding]; other site 652103005304 K-X-D-G motif; other site 652103005305 catalytic site [active] 652103005306 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 652103005307 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 652103005308 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 652103005309 Dimer interface [polypeptide binding]; other site 652103005310 BRCT sequence motif; other site 652103005311 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 652103005312 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 652103005313 putative substrate translocation pore; other site 652103005314 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 652103005315 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 652103005316 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 652103005317 active site 652103005318 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 652103005319 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103005320 S-adenosylmethionine binding site [chemical binding]; other site 652103005321 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 652103005322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103005324 S-adenosylmethionine binding site [chemical binding]; other site 652103005325 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103005326 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103005327 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103005328 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005329 Walker A/P-loop; other site 652103005330 ATP binding site [chemical binding]; other site 652103005331 Q-loop/lid; other site 652103005332 ABC transporter signature motif; other site 652103005333 Walker B; other site 652103005334 D-loop; other site 652103005335 H-loop/switch region; other site 652103005336 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 652103005337 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 652103005338 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005339 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 652103005340 Family description; Region: UvrD_C_2; cl15862 652103005341 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 652103005342 active site 652103005343 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 652103005344 FAD binding domain; Region: FAD_binding_4; pfam01565 652103005345 AsmA family; Region: AsmA; pfam05170 652103005346 AsmA-like C-terminal region; Region: AsmA_2; cl15864 652103005347 Ribbon-helix-helix domain; Region: RHH_4; cl01775 652103005348 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 652103005349 fumarate hydratase; Reviewed; Region: fumC; PRK00485 652103005350 Class II fumarases; Region: Fumarase_classII; cd01362 652103005351 active site 652103005352 tetramer interface [polypeptide binding]; other site 652103005353 Stringent starvation protein B; Region: SspB; cl01120 652103005354 Chromate transporter; Region: Chromate_transp; pfam02417 652103005355 Chromate transporter; Region: Chromate_transp; pfam02417 652103005356 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 652103005357 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 652103005358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 652103005359 NMT1-like family; Region: NMT1_2; cl15260 652103005360 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 652103005361 dimerization interface [polypeptide binding]; other site 652103005362 active site 652103005363 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 652103005364 folate binding site [chemical binding]; other site 652103005365 NADP+ binding site [chemical binding]; other site 652103005366 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 652103005367 HflK protein; Region: hflK; TIGR01933 652103005368 FtsH protease regulator HflC; Provisional; Region: PRK11029 652103005369 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 652103005370 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 652103005371 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103005372 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 652103005373 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 652103005374 protein binding site [polypeptide binding]; other site 652103005375 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 652103005376 protein binding site [polypeptide binding]; other site 652103005377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005378 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103005379 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103005380 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103005381 DctM-like transporters; Region: DctM; pfam06808 652103005382 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103005383 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103005384 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103005385 active site 652103005386 NTP binding site [chemical binding]; other site 652103005387 metal binding triad [ion binding]; metal-binding site 652103005388 antibiotic binding site [chemical binding]; other site 652103005389 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl08495 652103005390 Helix-turn-helix domains; Region: HTH; cl00088 652103005391 Winged helix-turn helix; Region: HTH_29; pfam13551 652103005392 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103005393 Helix-turn-helix domains; Region: HTH; cl00088 652103005394 Integrase core domain; Region: rve; cl01316 652103005395 Integrase core domain; Region: rve_3; cl15866 652103005396 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 652103005397 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 652103005398 DNA binding site [nucleotide binding] 652103005399 Int/Topo IB signature motif; other site 652103005400 active site 652103005401 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 652103005402 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 652103005403 catalytic residues [active] 652103005404 catalytic nucleophile [active] 652103005405 Presynaptic Site I dimer interface [polypeptide binding]; other site 652103005406 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 652103005407 Synaptic Flat tetramer interface [polypeptide binding]; other site 652103005408 Synaptic Site I dimer interface [polypeptide binding]; other site 652103005409 DNA binding site [nucleotide binding] 652103005410 Recombinase; Region: Recombinase; pfam07508 652103005411 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103005412 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 652103005413 putative active site [active] 652103005414 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 652103005415 Protein export membrane protein; Region: SecD_SecF; cl14618 652103005416 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 652103005417 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005418 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005419 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 652103005420 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 652103005421 N-terminal plug; other site 652103005422 ligand-binding site [chemical binding]; other site 652103005423 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 652103005424 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 652103005425 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103005426 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 652103005427 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 652103005428 Gram-negative bacterial tonB protein; Region: TonB; cl10048 652103005429 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103005430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005431 NAD(P) binding site [chemical binding]; other site 652103005432 active site 652103005433 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103005434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005435 NAD(P) binding site [chemical binding]; other site 652103005436 active site 652103005437 Dehydratase family; Region: ILVD_EDD; cl00340 652103005438 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 652103005439 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 652103005440 Walker A/P-loop; other site 652103005441 ATP binding site [chemical binding]; other site 652103005442 Q-loop/lid; other site 652103005443 ABC transporter signature motif; other site 652103005444 Walker B; other site 652103005445 D-loop; other site 652103005446 H-loop/switch region; other site 652103005447 TOBE domain; Region: TOBE_2; cl01440 652103005448 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 652103005449 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103005450 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 652103005451 dimer interface [polypeptide binding]; other site 652103005452 conserved gate region; other site 652103005453 putative PBP binding loops; other site 652103005454 ABC-ATPase subunit interface; other site 652103005455 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 652103005456 dimer interface [polypeptide binding]; other site 652103005457 conserved gate region; other site 652103005458 putative PBP binding loops; other site 652103005459 ABC-ATPase subunit interface; other site 652103005460 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103005461 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 652103005462 putative NAD(P) binding site [chemical binding]; other site 652103005463 active site 652103005464 putative substrate binding site [chemical binding]; other site 652103005465 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 652103005466 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 652103005467 active site 652103005468 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005469 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 652103005470 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103005471 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103005472 thiolase; Provisional; Region: PRK06158 652103005473 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 652103005474 active site 652103005475 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103005476 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103005477 Potato inhibitor I family; Region: potato_inhibit; cl15459 652103005478 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103005479 DctM-like transporters; Region: DctM; pfam06808 652103005480 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103005481 NMT1-like family; Region: NMT1_2; cl15260 652103005482 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 652103005483 carboxyltransferase (CT) interaction site; other site 652103005484 biotinylation site [posttranslational modification]; other site 652103005485 Transcriptional regulator [Transcription]; Region: IclR; COG1414 652103005486 Helix-turn-helix domains; Region: HTH; cl00088 652103005487 Bacterial transcriptional regulator; Region: IclR; pfam01614 652103005488 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103005489 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103005490 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103005491 monocarboxylate transporter 1; Region: 2A0113; TIGR00892 652103005492 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103005493 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 652103005494 substrate binding site [chemical binding]; other site 652103005495 oxyanion hole (OAH) forming residues; other site 652103005496 trimer interface [polypeptide binding]; other site 652103005497 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 652103005498 CoenzymeA binding site [chemical binding]; other site 652103005499 subunit interaction site [polypeptide binding]; other site 652103005500 PHB binding site; other site 652103005501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005502 Helix-turn-helix domains; Region: HTH; cl00088 652103005503 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 652103005504 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103005505 tetrameric interface [polypeptide binding]; other site 652103005506 NAD binding site [chemical binding]; other site 652103005507 catalytic residues [active] 652103005508 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103005509 putative active site [active] 652103005510 homotetrameric interface [polypeptide binding]; other site 652103005511 metal binding site [ion binding]; metal-binding site 652103005512 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103005513 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 652103005514 substrate binding pocket [chemical binding]; other site 652103005515 FAD binding site [chemical binding]; other site 652103005516 catalytic base [active] 652103005517 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 652103005518 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 652103005519 substrate binding site [chemical binding]; other site 652103005520 oxyanion hole (OAH) forming residues; other site 652103005521 trimer interface [polypeptide binding]; other site 652103005522 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 652103005523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005524 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 652103005525 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 652103005526 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005527 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103005528 enoyl-CoA hydratase; Provisional; Region: PRK08260 652103005529 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 652103005530 substrate binding site [chemical binding]; other site 652103005531 oxyanion hole (OAH) forming residues; other site 652103005532 trimer interface [polypeptide binding]; other site 652103005533 amidase; Provisional; Region: PRK07042 652103005534 Amidase; Region: Amidase; cl11426 652103005535 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103005536 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103005537 metal binding site [ion binding]; metal-binding site 652103005538 putative dimer interface [polypeptide binding]; other site 652103005539 Fic family protein [Function unknown]; Region: COG3177 652103005540 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 652103005541 Fic/DOC family; Region: Fic; cl00960 652103005542 Fic family protein [Function unknown]; Region: COG3177 652103005543 Fic/DOC family; Region: Fic; cl00960 652103005544 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103005545 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 652103005546 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 652103005547 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 652103005548 Ligand Binding Site [chemical binding]; other site 652103005549 salicylate hydroxylase; Provisional; Region: PRK08163 652103005550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005551 Zinc-finger domain; Region: zf-CHCC; cl01821 652103005552 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103005553 serine acetyltransferase; Provisional; Region: cysE; PRK11132 652103005554 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 652103005555 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 652103005556 trimer interface [polypeptide binding]; other site 652103005557 active site 652103005558 substrate binding site [chemical binding]; other site 652103005559 CoA binding site [chemical binding]; other site 652103005560 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 652103005561 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 652103005562 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 652103005563 trimer interface [polypeptide binding]; other site 652103005564 putative metal binding site [ion binding]; other site 652103005565 Porin subfamily; Region: Porin_2; pfam02530 652103005566 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103005567 Helix-turn-helix domains; Region: HTH; cl00088 652103005568 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 652103005569 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103005570 PilZ domain; Region: PilZ; cl01260 652103005571 PilZ domain; Region: PilZ; cl01260 652103005572 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103005573 Helix-turn-helix domains; Region: HTH; cl00088 652103005574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 652103005575 PAS domain; Region: PAS_5; pfam07310 652103005576 Rhomboid family; Region: Rhomboid; cl11446 652103005577 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 652103005578 FOG: CBS domain [General function prediction only]; Region: COG0517 652103005579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005580 Helix-turn-helix domains; Region: HTH; cl00088 652103005581 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103005582 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103005583 hypothetical protein; Provisional; Region: PRK10279 652103005584 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 652103005585 nucleophile elbow; other site 652103005586 PAS domain S-box; Region: sensory_box; TIGR00229 652103005587 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 652103005588 putative active site [active] 652103005589 heme pocket [chemical binding]; other site 652103005590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103005591 metal binding site [ion binding]; metal-binding site 652103005592 active site 652103005593 I-site; other site 652103005594 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 652103005595 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 652103005596 putative FMN binding site [chemical binding]; other site 652103005597 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 652103005598 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 652103005599 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 652103005600 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 652103005601 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 652103005602 active site 652103005603 dimer interface [polypeptide binding]; other site 652103005604 motif 1; other site 652103005605 motif 2; other site 652103005606 motif 3; other site 652103005607 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 652103005608 anticodon binding site; other site 652103005609 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 652103005610 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 652103005611 putative substrate translocation pore; other site 652103005612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005613 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005614 Helix-turn-helix domains; Region: HTH; cl00088 652103005615 Protein of unknown function (DUF3574); Region: DUF3574; pfam12098 652103005616 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103005617 DNA-binding site [nucleotide binding]; DNA binding site 652103005618 RNA-binding motif; other site 652103005619 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 652103005620 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 652103005621 transmembrane helices; other site 652103005622 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 652103005623 Haemolytic domain; Region: Haemolytic; cl00506 652103005624 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 652103005625 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 652103005626 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 652103005627 trimerization site [polypeptide binding]; other site 652103005628 active site 652103005629 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 652103005630 GTP cyclohydrolase I; Provisional; Region: PLN03044 652103005631 active site 652103005632 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 652103005633 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103005634 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103005635 catalytic residue [active] 652103005636 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103005637 Helix-turn-helix domains; Region: HTH; cl00088 652103005638 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 652103005639 dimerization interface [polypeptide binding]; other site 652103005640 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103005641 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 652103005642 active site 652103005643 catalytic triad [active] 652103005644 dimer interface [polypeptide binding]; other site 652103005645 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 652103005646 active site 652103005647 catalytic triad [active] 652103005648 dimer interface [polypeptide binding]; other site 652103005649 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103005650 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 652103005651 Walker A/P-loop; other site 652103005652 ATP binding site [chemical binding]; other site 652103005653 Q-loop/lid; other site 652103005654 ABC transporter signature motif; other site 652103005655 Walker B; other site 652103005656 D-loop; other site 652103005657 H-loop/switch region; other site 652103005658 NMT1-like family; Region: NMT1_2; cl15260 652103005659 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103005660 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 652103005661 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 652103005662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103005663 Response regulator receiver domain; Region: Response_reg; pfam00072 652103005664 active site 652103005665 phosphorylation site [posttranslational modification] 652103005666 intermolecular recognition site; other site 652103005667 dimerization interface [polypeptide binding]; other site 652103005668 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 652103005669 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103005670 Sensors of blue-light using FAD; Region: BLUF; cl04855 652103005671 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103005672 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 652103005673 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 652103005674 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 652103005675 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 652103005676 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 652103005677 SLBB domain; Region: SLBB; pfam10531 652103005678 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 652103005679 O-Antigen ligase; Region: Wzy_C; cl04850 652103005680 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103005681 Bacterial sugar transferase; Region: Bac_transf; cl00939 652103005682 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 652103005683 Chain length determinant protein; Region: Wzz; cl15801 652103005684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005685 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103005686 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 652103005687 active site 652103005688 metal binding site [ion binding]; metal-binding site 652103005689 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 652103005690 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 652103005691 putative ADP-binding pocket [chemical binding]; other site 652103005692 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 652103005693 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 652103005694 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 652103005695 inhibitor-cofactor binding pocket; inhibition site 652103005696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103005697 catalytic residue [active] 652103005698 OpgC protein; Region: OpgC_C; cl00792 652103005699 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 652103005700 MatE; Region: MatE; cl10513 652103005701 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103005702 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 652103005703 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 652103005704 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 652103005705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005706 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103005707 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 652103005708 OpgC protein; Region: OpgC_C; cl00792 652103005709 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103005710 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103005711 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005712 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005713 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103005714 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 652103005715 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 652103005716 active site 652103005717 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 652103005718 Acyl transferase domain; Region: Acyl_transf_1; cl08282 652103005719 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103005720 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 652103005721 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 652103005722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103005723 catalytic residue [active] 652103005724 peptide synthase; Provisional; Region: PRK12467 652103005725 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 652103005726 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005727 Condensation domain; Region: Condensation; pfam00668 652103005728 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 652103005729 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 652103005730 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 652103005731 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103005732 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 652103005733 Curlin associated repeat; Region: Curlin_rpt; pfam07012 652103005734 TolB amino-terminal domain; Region: TolB_N; cl00639 652103005735 major curlin subunit; Provisional; Region: csgA; PRK10051 652103005736 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 652103005737 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 652103005738 non-specific DNA binding site [nucleotide binding]; other site 652103005739 salt bridge; other site 652103005740 sequence-specific DNA binding site [nucleotide binding]; other site 652103005741 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 652103005742 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 652103005743 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 652103005744 Substrate binding site; other site 652103005745 Cupin domain; Region: Cupin_2; cl09118 652103005746 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 652103005747 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 652103005748 active site 652103005749 substrate binding site [chemical binding]; other site 652103005750 metal binding site [ion binding]; metal-binding site 652103005751 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 652103005752 active site 652103005753 putative substrate binding region [chemical binding]; other site 652103005754 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 652103005755 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 652103005756 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 652103005757 protein binding site [polypeptide binding]; other site 652103005758 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103005759 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103005760 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 652103005761 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 652103005762 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 652103005763 active site 652103005764 catalytic site [active] 652103005765 Domain of unknown function (DUF305); Region: DUF305; cl15795 652103005766 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 652103005767 dimerization interface [polypeptide binding]; other site 652103005768 metal binding site [ion binding]; metal-binding site 652103005769 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 652103005770 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 652103005771 Walker A motif; other site 652103005772 ATP binding site [chemical binding]; other site 652103005773 Walker B motif; other site 652103005774 arginine finger; other site 652103005775 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103005776 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 652103005777 non-specific DNA binding site [nucleotide binding]; other site 652103005778 salt bridge; other site 652103005779 sequence-specific DNA binding site [nucleotide binding]; other site 652103005780 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 652103005781 binding surface 652103005782 TPR motif; other site 652103005783 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005784 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005785 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005786 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005787 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005788 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005789 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005790 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005791 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005792 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005793 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005794 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005795 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005796 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005797 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005798 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005799 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 652103005800 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103005801 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 652103005802 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 652103005803 Walker A/P-loop; other site 652103005804 ATP binding site [chemical binding]; other site 652103005805 Q-loop/lid; other site 652103005806 ABC transporter signature motif; other site 652103005807 Walker B; other site 652103005808 D-loop; other site 652103005809 H-loop/switch region; other site 652103005810 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005811 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 652103005812 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103005813 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 652103005814 Autoinducer binding domain; Region: Autoind_bind; pfam03472 652103005815 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 652103005816 DNA binding residues [nucleotide binding] 652103005817 dimerization interface [polypeptide binding]; other site 652103005818 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103005819 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103005820 Catalytic site; other site 652103005821 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103005822 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103005823 phosphorylation site [posttranslational modification] 652103005824 intermolecular recognition site; other site 652103005825 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 652103005826 Helix-turn-helix domains; Region: HTH; cl00088 652103005827 putative transposase OrfB; Reviewed; Region: PHA02517 652103005828 HTH-like domain; Region: HTH_21; pfam13276 652103005829 Integrase core domain; Region: rve; cl01316 652103005830 Integrase core domain; Region: rve_3; cl15866 652103005831 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 652103005832 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 652103005833 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 652103005834 Helix-turn-helix domains; Region: HTH; cl00088 652103005835 DNA binding residues [nucleotide binding] 652103005836 Domain of unknown function (DUF955); Region: DUF955; cl01076 652103005837 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 652103005838 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005839 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 652103005840 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 652103005841 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103005842 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103005843 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 652103005844 hypothetical protein; Provisional; Region: PRK06153 652103005845 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 652103005846 ATP binding site [chemical binding]; other site 652103005847 substrate interface [chemical binding]; other site 652103005848 Uncharacterized small protein (DUF2158); Region: DUF2158; cl02293 652103005849 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103005850 Superfamily II helicase [General function prediction only]; Region: COG1204 652103005851 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 652103005852 ATP binding site [chemical binding]; other site 652103005853 putative Mg++ binding site [ion binding]; other site 652103005854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103005855 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 652103005856 active site 2 [active] 652103005857 active site 1 [active] 652103005858 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 652103005859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005860 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 652103005861 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103005862 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 652103005863 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 652103005864 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 652103005865 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 652103005866 active site 652103005867 TDP-binding site; other site 652103005868 acceptor substrate-binding pocket; other site 652103005869 FkbH-like domain; Region: FkbH; TIGR01686 652103005870 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103005871 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103005872 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 652103005873 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 652103005874 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 652103005875 Family description; Region: VCBS; pfam13517 652103005876 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 652103005877 RHS Repeat; Region: RHS_repeat; cl11982 652103005878 RHS Repeat; Region: RHS_repeat; cl11982 652103005879 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 652103005880 integrase; Provisional; Region: PRK09692 652103005881 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 652103005882 DNA binding site [nucleotide binding] 652103005883 Int/Topo IB signature motif; other site 652103005884 active site 652103005885 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 652103005886 putative phosphate binding site [ion binding]; other site 652103005887 putative catalytic site [active] 652103005888 active site 652103005889 metal binding site A [ion binding]; metal-binding site 652103005890 DNA binding site [nucleotide binding] 652103005891 putative AP binding site [nucleotide binding]; other site 652103005892 putative metal binding site B [ion binding]; other site 652103005893 enoyl-CoA hydratase; Provisional; Region: PRK08140 652103005894 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 652103005895 substrate binding site [chemical binding]; other site 652103005896 oxyanion hole (OAH) forming residues; other site 652103005897 trimer interface [polypeptide binding]; other site 652103005898 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 652103005899 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103005900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005901 NAD(P) binding site [chemical binding]; other site 652103005902 active site 652103005903 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 652103005904 active site 652103005905 catalytic site [active] 652103005906 (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 652103005907 active site 652103005908 catalytic site [active] 652103005909 lipid-transfer protein; Provisional; Region: PRK08256 652103005910 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 652103005911 active site 652103005912 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103005913 Helix-turn-helix domains; Region: HTH; cl00088 652103005914 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103005915 AMP-binding enzyme; Region: AMP-binding; cl15778 652103005916 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103005917 Secretory lipase; Region: LIP; pfam03583 652103005918 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103005919 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 652103005920 putative ligand binding site [chemical binding]; other site 652103005921 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 652103005922 TM-ABC transporter signature motif; other site 652103005923 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 652103005924 TM-ABC transporter signature motif; other site 652103005925 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103005926 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103005927 Walker A/P-loop; other site 652103005928 ATP binding site [chemical binding]; other site 652103005929 Q-loop/lid; other site 652103005930 ABC transporter signature motif; other site 652103005931 Walker B; other site 652103005932 D-loop; other site 652103005933 H-loop/switch region; other site 652103005934 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103005935 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103005936 Walker A/P-loop; other site 652103005937 ATP binding site [chemical binding]; other site 652103005938 Q-loop/lid; other site 652103005939 ABC transporter signature motif; other site 652103005940 Walker B; other site 652103005941 D-loop; other site 652103005942 H-loop/switch region; other site 652103005943 Helix-turn-helix domains; Region: HTH; cl00088 652103005944 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103005945 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103005946 active site 652103005947 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 652103005948 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 652103005949 putative active site [active] 652103005950 putative substrate binding site [chemical binding]; other site 652103005951 ATP binding site [chemical binding]; other site 652103005952 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103005953 classical (c) SDRs; Region: SDR_c; cd05233 652103005954 NAD(P) binding site [chemical binding]; other site 652103005955 active site 652103005956 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 652103005957 catalytic core [active] 652103005958 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103005959 classical (c) SDRs; Region: SDR_c; cd05233 652103005960 NAD(P) binding site [chemical binding]; other site 652103005961 active site 652103005962 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103005963 elongation factor Tu; Reviewed; Region: PRK00049 652103005964 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 652103005965 G1 box; other site 652103005966 GEF interaction site [polypeptide binding]; other site 652103005967 GTP/Mg2+ binding site [chemical binding]; other site 652103005968 Switch I region; other site 652103005969 G2 box; other site 652103005970 G3 box; other site 652103005971 Switch II region; other site 652103005972 G4 box; other site 652103005973 G5 box; other site 652103005974 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 652103005975 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 652103005976 Antibiotic Binding Site [chemical binding]; other site 652103005977 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103005978 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103005979 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103005980 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103005981 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 652103005982 N-terminal plug; other site 652103005983 ligand-binding site [chemical binding]; other site 652103005984 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 652103005985 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 652103005986 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 652103005987 putative homodimer interface [polypeptide binding]; other site 652103005988 KOW motif; Region: KOW; cl00354 652103005989 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 652103005990 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 652103005991 23S rRNA interface [nucleotide binding]; other site 652103005992 L7/L12 interface [polypeptide binding]; other site 652103005993 putative thiostrepton binding site; other site 652103005994 L25 interface [polypeptide binding]; other site 652103005995 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 652103005996 mRNA/rRNA interface [nucleotide binding]; other site 652103005997 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 652103005998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103005999 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 652103006000 23S rRNA interface [nucleotide binding]; other site 652103006001 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 652103006002 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 652103006003 L11 interface [polypeptide binding]; other site 652103006004 putative EF-Tu interaction site [polypeptide binding]; other site 652103006005 putative EF-G interaction site [polypeptide binding]; other site 652103006006 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 652103006007 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 652103006008 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 652103006009 RPB11 interaction site [polypeptide binding]; other site 652103006010 RPB12 interaction site [polypeptide binding]; other site 652103006011 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 652103006012 RPB3 interaction site [polypeptide binding]; other site 652103006013 RPB1 interaction site [polypeptide binding]; other site 652103006014 RPB11 interaction site [polypeptide binding]; other site 652103006015 RPB10 interaction site [polypeptide binding]; other site 652103006016 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 652103006017 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 652103006018 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 652103006019 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 652103006020 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 652103006021 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 652103006022 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 652103006023 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 652103006024 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 652103006025 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 652103006026 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 652103006027 DNA binding site [nucleotide binding] 652103006028 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 652103006029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006030 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103006031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006032 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 652103006033 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103006034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006035 Walker A/P-loop; other site 652103006036 ATP binding site [chemical binding]; other site 652103006037 Q-loop/lid; other site 652103006038 ABC transporter signature motif; other site 652103006039 Walker B; other site 652103006040 D-loop; other site 652103006041 H-loop/switch region; other site 652103006042 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103006043 Helix-turn-helix domains; Region: HTH; cl00088 652103006044 Helix-turn-helix domains; Region: HTH; cl00088 652103006045 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 652103006046 dimer interface [polypeptide binding]; other site 652103006047 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103006048 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 652103006049 putative substrate translocation pore; other site 652103006050 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 652103006051 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103006052 S-adenosylmethionine binding site [chemical binding]; other site 652103006053 Cupin domain; Region: Cupin_2; cl09118 652103006054 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103006055 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 652103006056 S17 interaction site [polypeptide binding]; other site 652103006057 S8 interaction site; other site 652103006058 16S rRNA interaction site [nucleotide binding]; other site 652103006059 streptomycin interaction site [chemical binding]; other site 652103006060 23S rRNA interaction site [nucleotide binding]; other site 652103006061 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 652103006062 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 652103006063 elongation factor G; Reviewed; Region: PRK00007 652103006064 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 652103006065 G1 box; other site 652103006066 putative GEF interaction site [polypeptide binding]; other site 652103006067 GTP/Mg2+ binding site [chemical binding]; other site 652103006068 Switch I region; other site 652103006069 G2 box; other site 652103006070 G3 box; other site 652103006071 Switch II region; other site 652103006072 G4 box; other site 652103006073 G5 box; other site 652103006074 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 652103006075 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 652103006076 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 652103006077 elongation factor Tu; Reviewed; Region: PRK00049 652103006078 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 652103006079 G1 box; other site 652103006080 GEF interaction site [polypeptide binding]; other site 652103006081 GTP/Mg2+ binding site [chemical binding]; other site 652103006082 Switch I region; other site 652103006083 G2 box; other site 652103006084 G3 box; other site 652103006085 Switch II region; other site 652103006086 G4 box; other site 652103006087 G5 box; other site 652103006088 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 652103006089 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 652103006090 Antibiotic Binding Site [chemical binding]; other site 652103006091 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 652103006092 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 652103006093 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 652103006094 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 652103006095 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 652103006096 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 652103006097 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 652103006098 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 652103006099 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 652103006100 putative translocon binding site; other site 652103006101 protein-rRNA interface [nucleotide binding]; other site 652103006102 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 652103006103 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 652103006104 G-X-X-G motif; other site 652103006105 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 652103006106 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 652103006107 23S rRNA interface [nucleotide binding]; other site 652103006108 5S rRNA interface [nucleotide binding]; other site 652103006109 putative antibiotic binding site [chemical binding]; other site 652103006110 L25 interface [polypeptide binding]; other site 652103006111 L27 interface [polypeptide binding]; other site 652103006112 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 652103006113 23S rRNA interface [nucleotide binding]; other site 652103006114 putative translocon interaction site; other site 652103006115 signal recognition particle (SRP54) interaction site; other site 652103006116 L23 interface [polypeptide binding]; other site 652103006117 trigger factor interaction site; other site 652103006118 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 652103006119 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 652103006120 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 652103006121 KOW motif; Region: KOW; cl00354 652103006122 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 652103006123 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 652103006124 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 652103006125 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 652103006126 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 652103006127 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 652103006128 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 652103006129 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 652103006130 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 652103006131 5S rRNA interface [nucleotide binding]; other site 652103006132 23S rRNA interface [nucleotide binding]; other site 652103006133 L5 interface [polypeptide binding]; other site 652103006134 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 652103006135 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 652103006136 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 652103006137 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 652103006138 23S rRNA binding site [nucleotide binding]; other site 652103006139 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 652103006140 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 652103006141 SecY translocase; Region: SecY; pfam00344 652103006142 adenylate kinase; Reviewed; Region: adk; PRK00279 652103006143 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 652103006144 AMP-binding site [chemical binding]; other site 652103006145 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 652103006146 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 652103006147 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 652103006148 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 652103006149 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 652103006150 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 652103006151 alphaNTD - beta interaction site [polypeptide binding]; other site 652103006152 alphaNTD homodimer interface [polypeptide binding]; other site 652103006153 alphaNTD - beta' interaction site [polypeptide binding]; other site 652103006154 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 652103006155 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 652103006156 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103006157 classical (c) SDRs; Region: SDR_c; cd05233 652103006158 NAD(P) binding site [chemical binding]; other site 652103006159 active site 652103006160 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 652103006161 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 652103006162 putative NAD(P) binding site [chemical binding]; other site 652103006163 dimer interface [polypeptide binding]; other site 652103006164 Helix-turn-helix domains; Region: HTH; cl00088 652103006165 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103006166 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 652103006167 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 652103006168 protein binding site [polypeptide binding]; other site 652103006169 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 652103006170 protein binding site [polypeptide binding]; other site 652103006171 recombination factor protein RarA; Reviewed; Region: PRK13342 652103006172 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 652103006173 Walker A motif; other site 652103006174 ATP binding site [chemical binding]; other site 652103006175 Walker B motif; other site 652103006176 arginine finger; other site 652103006177 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 652103006178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006179 metal binding site [ion binding]; metal-binding site 652103006180 active site 652103006181 I-site; other site 652103006182 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 652103006183 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 652103006184 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 652103006185 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103006186 putative ligand binding site [chemical binding]; other site 652103006187 PAS domain S-box; Region: sensory_box; TIGR00229 652103006188 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 652103006189 PAS fold; Region: PAS_3; pfam08447 652103006190 putative active site [active] 652103006191 heme pocket [chemical binding]; other site 652103006192 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 652103006193 dimer interface [polypeptide binding]; other site 652103006194 phosphorylation site [posttranslational modification] 652103006195 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 652103006196 ATP binding site [chemical binding]; other site 652103006197 Mg2+ binding site [ion binding]; other site 652103006198 G-X-G motif; other site 652103006199 Response regulator receiver domain; Region: Response_reg; pfam00072 652103006200 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006201 active site 652103006202 phosphorylation site [posttranslational modification] 652103006203 intermolecular recognition site; other site 652103006204 dimerization interface [polypeptide binding]; other site 652103006205 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 652103006206 putative FMN binding site [chemical binding]; other site 652103006207 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 652103006208 TPR repeat; Region: TPR_11; pfam13414 652103006209 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 652103006210 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 652103006211 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 652103006212 active site 652103006213 ATP12 chaperone protein; Region: ATP12; cl02228 652103006214 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 652103006215 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 652103006216 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 652103006217 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 652103006218 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103006219 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103006220 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103006221 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 652103006222 putative NAD(P) binding site [chemical binding]; other site 652103006223 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation,' the process of...; Region: Lipase_3; cd00519 652103006224 active site flap/lid [active] 652103006225 nucleophilic elbow; other site 652103006226 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 652103006227 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 652103006228 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 652103006229 active site 652103006230 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 652103006231 Catalytic domain of Protein Kinases; Region: PKc; cd00180 652103006232 active site 652103006233 ATP binding site [chemical binding]; other site 652103006234 substrate binding site [chemical binding]; other site 652103006235 activation loop (A-loop); other site 652103006236 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103006237 Phospholipid methyltransferase; Region: PEMT; cl00763 652103006238 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 652103006239 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 652103006240 dimer interface [polypeptide binding]; other site 652103006241 PYR/PP interface [polypeptide binding]; other site 652103006242 TPP binding site [chemical binding]; other site 652103006243 substrate binding site [chemical binding]; other site 652103006244 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 652103006245 TPP-binding site [chemical binding]; other site 652103006246 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 652103006247 acetyl-CoA acetyltransferase; Provisional; Region: PRK08142 652103006248 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 652103006249 active site 652103006250 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103006251 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103006252 enoyl-CoA hydratase; Region: PLN02864 652103006253 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 652103006254 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 652103006255 dimer interaction site [polypeptide binding]; other site 652103006256 substrate-binding tunnel; other site 652103006257 active site 652103006258 catalytic site [active] 652103006259 substrate binding site [chemical binding]; other site 652103006260 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103006261 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 652103006262 inhibitor site; inhibition site 652103006263 active site 652103006264 dimer interface [polypeptide binding]; other site 652103006265 catalytic residue [active] 652103006266 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 652103006267 nudix motif; other site 652103006268 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 652103006269 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 652103006270 Trp docking motif [polypeptide binding]; other site 652103006271 cytochrome domain interface [polypeptide binding]; other site 652103006272 active site 652103006273 Cytochrome c; Region: Cytochrom_C; cl11414 652103006274 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 652103006275 PAS domain S-box; Region: sensory_box; TIGR00229 652103006276 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 652103006277 putative active site [active] 652103006278 heme pocket [chemical binding]; other site 652103006279 PAS fold; Region: PAS_4; pfam08448 652103006280 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 652103006281 putative active site [active] 652103006282 heme pocket [chemical binding]; other site 652103006283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103006284 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 652103006285 ATP binding site [chemical binding]; other site 652103006286 Mg2+ binding site [ion binding]; other site 652103006287 G-X-G motif; other site 652103006288 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 652103006289 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103006290 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103006291 dimer interface [polypeptide binding]; other site 652103006292 putative CheW interface [polypeptide binding]; other site 652103006293 EamA-like transporter family; Region: EamA; cl01037 652103006294 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 652103006295 DNA photolyase; Region: DNA_photolyase; pfam00875 652103006296 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 652103006297 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 652103006298 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103006299 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103006300 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103006301 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103006302 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 652103006303 carboxyltransferase (CT) interaction site; other site 652103006304 biotinylation site [posttranslational modification]; other site 652103006305 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 652103006306 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 652103006307 tetramer interface [polypeptide binding]; other site 652103006308 active site 652103006309 Mg2+/Mn2+ binding site [ion binding]; other site 652103006310 Acylphosphatase; Region: Acylphosphatase; cl00551 652103006311 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 652103006312 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 652103006313 putative active site [active] 652103006314 heme pocket [chemical binding]; other site 652103006315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006316 metal binding site [ion binding]; metal-binding site 652103006317 active site 652103006318 I-site; other site 652103006319 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 652103006320 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 652103006321 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 652103006322 RES domain; Region: RES; cl02411 652103006323 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 652103006324 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 652103006325 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103006326 NodB motif; other site 652103006327 active site 652103006328 catalytic site [active] 652103006329 metal binding site [ion binding]; metal-binding site 652103006330 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103006331 NodB motif; other site 652103006332 active site 652103006333 catalytic site [active] 652103006334 metal binding site [ion binding]; metal-binding site 652103006335 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 652103006336 MgtE intracellular N domain; Region: MgtE_N; cl15244 652103006337 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 652103006338 Divalent cation transporter; Region: MgtE; cl00786 652103006339 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 652103006340 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103006341 active site 652103006342 catalytic tetrad [active] 652103006343 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 652103006344 putative active site [active] 652103006345 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 652103006346 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 652103006347 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103006348 putative C-terminal domain interface [polypeptide binding]; other site 652103006349 putative GSH binding site (G-site) [chemical binding]; other site 652103006350 putative dimer interface [polypeptide binding]; other site 652103006351 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 652103006352 putative substrate binding pocket (H-site) [chemical binding]; other site 652103006353 putative N-terminal domain interface [polypeptide binding]; other site 652103006354 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 652103006355 Pantoate-beta-alanine ligase; Region: PanC; cd00560 652103006356 pantoate--beta-alanine ligase; Region: panC; TIGR00018 652103006357 active site 652103006358 ATP-binding site [chemical binding]; other site 652103006359 pantoate-binding site; other site 652103006360 HXXH motif; other site 652103006361 ATPase MipZ; Region: MipZ; pfam09140 652103006362 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 652103006363 P-loop; other site 652103006364 Magnesium ion binding site [ion binding]; other site 652103006365 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 652103006366 Magnesium ion binding site [ion binding]; other site 652103006367 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103006368 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 652103006369 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 652103006370 HSP70 interaction site [polypeptide binding]; other site 652103006371 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 652103006372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103006373 Sporulation related domain; Region: SPOR; cl10051 652103006374 TadE-like protein; Region: TadE; cl10688 652103006375 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 652103006376 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 652103006377 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 652103006378 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 652103006379 Walker A motif; other site 652103006380 ATP binding site [chemical binding]; other site 652103006381 Walker B motif; other site 652103006382 arginine finger; other site 652103006383 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 652103006384 Walker A motif; other site 652103006385 ATP binding site [chemical binding]; other site 652103006386 Walker B motif; other site 652103006387 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 652103006388 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103006389 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 652103006390 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103006391 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103006392 catalytic residue [active] 652103006393 Sporulation related domain; Region: SPOR; cl10051 652103006394 AzlC protein; Region: AzlC; cl00570 652103006395 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 652103006396 homodimer interaction site [polypeptide binding]; other site 652103006397 cofactor binding site; other site 652103006398 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 652103006399 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 652103006400 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 652103006401 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 652103006402 HIT family signature motif; other site 652103006403 catalytic residue [active] 652103006404 Protein of unknown function, DUF482; Region: DUF482; pfam04339 652103006405 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103006406 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 652103006407 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 652103006408 putative active site [active] 652103006409 catalytic site [active] 652103006410 putative metal binding site [ion binding]; other site 652103006411 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 652103006412 homotrimer interaction site [polypeptide binding]; other site 652103006413 putative active site [active] 652103006414 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 652103006415 DNA polymerase IV; Provisional; Region: PRK02794 652103006416 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 652103006417 active site 652103006418 DNA binding site [nucleotide binding] 652103006419 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 652103006420 Response regulator receiver domain; Region: Response_reg; pfam00072 652103006421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006422 active site 652103006423 phosphorylation site [posttranslational modification] 652103006424 intermolecular recognition site; other site 652103006425 dimerization interface [polypeptide binding]; other site 652103006426 response regulator PleD; Reviewed; Region: pleD; PRK09581 652103006427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006428 active site 652103006429 phosphorylation site [posttranslational modification] 652103006430 intermolecular recognition site; other site 652103006431 dimerization interface [polypeptide binding]; other site 652103006432 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103006433 active site 652103006434 phosphorylation site [posttranslational modification] 652103006435 intermolecular recognition site; other site 652103006436 dimerization interface [polypeptide binding]; other site 652103006437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006438 metal binding site [ion binding]; metal-binding site 652103006439 active site 652103006440 I-site; other site 652103006441 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 652103006442 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 652103006443 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103006444 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 652103006445 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 652103006446 putative substrate translocation pore; other site 652103006447 Protein of unknown function (DUF983); Region: DUF983; cl02211 652103006448 ribonuclease R; Region: RNase_R; TIGR02063 652103006449 RNB domain; Region: RNB; pfam00773 652103006450 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 652103006451 RNA binding site [nucleotide binding]; other site 652103006452 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 652103006453 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 652103006454 active site 652103006455 interdomain interaction site; other site 652103006456 putative metal-binding site [ion binding]; other site 652103006457 nucleotide binding site [chemical binding]; other site 652103006458 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 652103006459 domain I; other site 652103006460 DNA binding groove [nucleotide binding] 652103006461 phosphate binding site [ion binding]; other site 652103006462 domain II; other site 652103006463 domain III; other site 652103006464 nucleotide binding site [chemical binding]; other site 652103006465 catalytic site [active] 652103006466 domain IV; other site 652103006467 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 652103006468 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006469 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006470 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 652103006471 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 652103006472 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 652103006473 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 652103006474 dihydroorotase; Validated; Region: PRK09059 652103006475 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 652103006476 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 652103006477 active site 652103006478 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 652103006479 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 652103006480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006481 indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family; Region: indol_phenyl_DC; TIGR03394 652103006482 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 652103006483 dimer interface [polypeptide binding]; other site 652103006484 PYR/PP interface [polypeptide binding]; other site 652103006485 TPP binding site [chemical binding]; other site 652103006486 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103006487 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 652103006488 TPP-binding site [chemical binding]; other site 652103006489 dimer interface [polypeptide binding]; other site 652103006490 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103006491 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103006492 active site 652103006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 652103006494 SEC-C motif; Region: SEC-C; pfam02810 652103006495 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 652103006496 Putative cyclase; Region: Cyclase; cl00814 652103006497 Nitronate monooxygenase; Region: NMO; pfam03060 652103006498 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 652103006499 FMN binding site [chemical binding]; other site 652103006500 substrate binding site [chemical binding]; other site 652103006501 putative catalytic residue [active] 652103006502 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 652103006503 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 652103006504 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103006505 Amidase; Region: Amidase; cl11426 652103006506 PAS domain; Region: PAS_9; pfam13426 652103006507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103006508 Histidine kinase; Region: HisKA_2; cl06527 652103006509 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 652103006510 ATP binding site [chemical binding]; other site 652103006511 Mg2+ binding site [ion binding]; other site 652103006512 G-X-G motif; other site 652103006513 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 652103006514 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 652103006515 GatB domain; Region: GatB_Yqey; cl11497 652103006516 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103006517 Sel1 repeat; Region: Sel1; cl02723 652103006518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 652103006519 NMT1-like family; Region: NMT1_2; cl15260 652103006520 Phospholipid methyltransferase; Region: PEMT; cl00763 652103006521 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 652103006522 oligomerization interface [polypeptide binding]; other site 652103006523 active site 652103006524 metal binding site [ion binding]; metal-binding site 652103006525 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 652103006526 GTP-binding protein Der; Reviewed; Region: PRK00093 652103006527 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 652103006528 G1 box; other site 652103006529 GTP/Mg2+ binding site [chemical binding]; other site 652103006530 Switch I region; other site 652103006531 G2 box; other site 652103006532 Switch II region; other site 652103006533 G3 box; other site 652103006534 G4 box; other site 652103006535 G5 box; other site 652103006536 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 652103006537 G1 box; other site 652103006538 GTP/Mg2+ binding site [chemical binding]; other site 652103006539 Switch I region; other site 652103006540 G2 box; other site 652103006541 G3 box; other site 652103006542 Switch II region; other site 652103006543 G4 box; other site 652103006544 G5 box; other site 652103006545 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 652103006546 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103006547 putative substrate translocation pore; other site 652103006548 IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the...; Region: IPT_PCSR; cd00603 652103006549 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 652103006550 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 652103006551 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103006552 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 652103006553 Phage Tail Collar Domain; Region: Collar; pfam07484 652103006554 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 652103006555 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103006556 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103006557 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 652103006558 putative ligand binding site [chemical binding]; other site 652103006559 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006560 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 652103006561 NAD(P) binding site [chemical binding]; other site 652103006562 active site 652103006563 amidophosphoribosyltransferase; Provisional; Region: PRK09123 652103006564 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 652103006565 active site 652103006566 tetramer interface [polypeptide binding]; other site 652103006567 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103006568 active site 652103006569 Colicin V production protein; Region: Colicin_V; cl00567 652103006570 DNA repair protein RadA; Provisional; Region: PRK11823 652103006571 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 652103006572 Walker A motif/ATP binding site; other site 652103006573 ATP binding site [chemical binding]; other site 652103006574 Walker B motif; other site 652103006575 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 652103006576 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 652103006577 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 652103006578 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 652103006579 active site 652103006580 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103006581 dimer interface [polypeptide binding]; other site 652103006582 substrate binding site [chemical binding]; other site 652103006583 catalytic residues [active] 652103006584 replicative DNA helicase; Provisional; Region: PRK09165 652103006585 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 652103006586 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 652103006587 Walker A motif; other site 652103006588 ATP binding site [chemical binding]; other site 652103006589 Walker B motif; other site 652103006590 DNA binding loops [nucleotide binding] 652103006591 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103006592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103006593 S-adenosylmethionine binding site [chemical binding]; other site 652103006594 Helix-turn-helix domains; Region: HTH; cl00088 652103006595 Xylella fastidiosa protein of unknown function (DUF769); Region: DUF769; pfam05590 652103006596 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 652103006597 CoenzymeA binding site [chemical binding]; other site 652103006598 subunit interaction site [polypeptide binding]; other site 652103006599 PHB binding site; other site 652103006600 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 652103006601 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 652103006602 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 652103006603 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 652103006604 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 652103006605 Acyl transferase domain; Region: Acyl_transf_1; cl08282 652103006606 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 652103006607 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 652103006608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006609 NAD(P) binding site [chemical binding]; other site 652103006610 active site 652103006611 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103006612 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 652103006613 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 652103006614 dimer interface [polypeptide binding]; other site 652103006615 active site 652103006616 YceG-like family; Region: YceG; pfam02618 652103006617 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 652103006618 dimerization interface [polypeptide binding]; other site 652103006619 hypothetical protein; Provisional; Region: PRK11820 652103006620 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 652103006621 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 652103006622 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 652103006623 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 652103006624 catalytic site [active] 652103006625 G-X2-G-X-G-K; other site 652103006626 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 652103006627 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 652103006628 putative NAD(P) binding site [chemical binding]; other site 652103006629 catalytic Zn binding site [ion binding]; other site 652103006630 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103006631 S-adenosylmethionine binding site [chemical binding]; other site 652103006632 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 652103006633 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 652103006634 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 652103006635 SurA N-terminal domain; Region: SurA_N_3; cl07813 652103006636 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 652103006637 Organic solvent tolerance protein; Region: OstA_C; pfam04453 652103006638 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 652103006639 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 652103006640 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 652103006641 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 652103006642 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 652103006643 interface (dimer of trimers) [polypeptide binding]; other site 652103006644 multifunctional aminopeptidase A; Provisional; Region: PRK00913 652103006645 Substrate-binding/catalytic site; other site 652103006646 Zn-binding sites [ion binding]; other site 652103006647 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 652103006648 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 652103006649 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 652103006650 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103006651 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103006652 ABC transporter; Region: ABC_tran_2; pfam12848 652103006653 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103006654 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 652103006655 active site 652103006656 multimer interface [polypeptide binding]; other site 652103006657 Integral membrane protein TerC family; Region: TerC; cl10468 652103006658 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103006659 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 652103006660 ligand binding site [chemical binding]; other site 652103006661 flexible hinge region; other site 652103006662 Helix-turn-helix domains; Region: HTH; cl00088 652103006663 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103006664 DNA-binding site [nucleotide binding]; DNA binding site 652103006665 RNA-binding motif; other site 652103006666 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 652103006667 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 652103006668 active site 652103006669 substrate binding site [chemical binding]; other site 652103006670 cosubstrate binding site; other site 652103006671 catalytic site [active] 652103006672 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 652103006673 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 652103006674 dimerization interface [polypeptide binding]; other site 652103006675 putative ATP binding site [chemical binding]; other site 652103006676 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 652103006677 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006678 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 652103006679 polyphosphate kinase; Provisional; Region: PRK05443 652103006680 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 652103006681 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 652103006682 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 652103006683 putative domain interface [polypeptide binding]; other site 652103006684 putative active site [active] 652103006685 catalytic site [active] 652103006686 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 652103006687 putative domain interface [polypeptide binding]; other site 652103006688 putative active site [active] 652103006689 catalytic site [active] 652103006690 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 652103006691 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 652103006692 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 652103006693 ribonuclease D; Region: rnd; TIGR01388 652103006694 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 652103006695 putative active site [active] 652103006696 catalytic site [active] 652103006697 putative substrate binding site [chemical binding]; other site 652103006698 HRDC domain; Region: HRDC; cl02578 652103006699 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 652103006700 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 652103006701 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 652103006702 dimer interface [polypeptide binding]; other site 652103006703 anticodon binding site; other site 652103006704 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 652103006705 homodimer interface [polypeptide binding]; other site 652103006706 motif 1; other site 652103006707 active site 652103006708 motif 2; other site 652103006709 GAD domain; Region: GAD; pfam02938 652103006710 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103006711 active site 652103006712 motif 3; other site 652103006713 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 652103006714 Malic enzyme, N-terminal domain; Region: malic; pfam00390 652103006715 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 652103006716 putative NAD(P) binding site [chemical binding]; other site 652103006717 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 652103006718 DoxX; Region: DoxX; cl00976 652103006719 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 652103006720 NADP+ binding site [chemical binding]; other site 652103006721 folate binding site [chemical binding]; other site 652103006722 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103006723 NodB motif; other site 652103006724 active site 652103006725 catalytic site [active] 652103006726 metal binding site [ion binding]; metal-binding site 652103006727 hypothetical protein; Provisional; Region: PRK12472 652103006728 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103006729 CreA protein; Region: CreA; pfam05981 652103006730 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 652103006731 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 652103006732 metal binding site [ion binding]; metal-binding site 652103006733 dimer interface [polypeptide binding]; other site 652103006734 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 652103006735 CoenzymeA binding site [chemical binding]; other site 652103006736 subunit interaction site [polypeptide binding]; other site 652103006737 PHB binding site; other site 652103006738 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103006739 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103006740 Sel1 repeat; Region: Sel1; cl02723 652103006741 K+ potassium transporter; Region: K_trans; cl15781 652103006742 potassium uptake protein; Region: kup; TIGR00794 652103006743 CAAX protease self-immunity; Region: Abi; cl00558 652103006744 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006745 metal binding site [ion binding]; metal-binding site 652103006746 active site 652103006747 I-site; other site 652103006748 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103006749 Helix-turn-helix domains; Region: HTH; cl00088 652103006750 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103006751 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103006752 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103006753 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 652103006754 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 652103006755 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 652103006756 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 652103006757 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 652103006758 dimer interface [polypeptide binding]; other site 652103006759 active site 652103006760 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 652103006761 Ligand Binding Site [chemical binding]; other site 652103006762 Molecular Tunnel; other site 652103006763 TIGR03442 family protein; Region: TIGR03442 652103006764 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 652103006765 putative active site [active] 652103006766 putative dimer interface [polypeptide binding]; other site 652103006767 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 652103006768 Ligand Binding Site [chemical binding]; other site 652103006769 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 652103006770 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103006771 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103006772 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103006773 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103006774 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103006775 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 652103006776 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103006777 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 652103006778 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 652103006779 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 652103006780 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 652103006781 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103006782 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 652103006783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006784 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103006785 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 652103006786 N-terminal plug; other site 652103006787 ligand-binding site [chemical binding]; other site 652103006788 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 652103006789 putative ligand binding residues [chemical binding]; other site 652103006790 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 652103006791 putative PBP binding regions; other site 652103006792 ABC-ATPase subunit interface; other site 652103006793 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103006794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006795 Walker A/P-loop; other site 652103006796 ATP binding site [chemical binding]; other site 652103006797 Q-loop/lid; other site 652103006798 ABC transporter signature motif; other site 652103006799 Walker B; other site 652103006800 D-loop; other site 652103006801 H-loop/switch region; other site 652103006802 Cytochrome C'; Region: Cytochrom_C_2; cl01610 652103006803 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 652103006804 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 652103006805 CoenzymeA binding site [chemical binding]; other site 652103006806 subunit interaction site [polypeptide binding]; other site 652103006807 PHB binding site; other site 652103006808 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103006809 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 652103006810 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 652103006811 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 652103006812 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 652103006813 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 652103006814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006815 Walker A/P-loop; other site 652103006816 ATP binding site [chemical binding]; other site 652103006817 Q-loop/lid; other site 652103006818 ABC transporter signature motif; other site 652103006819 Walker B; other site 652103006820 D-loop; other site 652103006821 H-loop/switch region; other site 652103006822 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 652103006823 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006824 Walker A/P-loop; other site 652103006825 ATP binding site [chemical binding]; other site 652103006826 Q-loop/lid; other site 652103006827 ABC transporter signature motif; other site 652103006828 Walker B; other site 652103006829 D-loop; other site 652103006830 H-loop/switch region; other site 652103006831 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 652103006832 Helix-turn-helix domains; Region: HTH; cl00088 652103006833 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 652103006834 dimerization interface [polypeptide binding]; other site 652103006835 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 652103006836 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 652103006837 inhibitor-cofactor binding pocket; inhibition site 652103006838 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103006839 catalytic residue [active] 652103006840 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103006841 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 652103006842 tetramerization interface [polypeptide binding]; other site 652103006843 NAD(P) binding site [chemical binding]; other site 652103006844 catalytic residues [active] 652103006845 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 652103006846 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 652103006847 metal binding site [ion binding]; metal-binding site 652103006848 dimer interface [polypeptide binding]; other site 652103006849 hypothetical protein; Provisional; Region: PRK12474 652103006850 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103006851 PYR/PP interface [polypeptide binding]; other site 652103006852 dimer interface [polypeptide binding]; other site 652103006853 TPP binding site [chemical binding]; other site 652103006854 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 652103006855 TPP-binding site [chemical binding]; other site 652103006856 dimer interface [polypeptide binding]; other site 652103006857 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103006858 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 652103006859 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103006860 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 652103006861 dimer interface [polypeptide binding]; other site 652103006862 conserved gate region; other site 652103006863 putative PBP binding loops; other site 652103006864 ABC-ATPase subunit interface; other site 652103006865 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103006866 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 652103006867 dimer interface [polypeptide binding]; other site 652103006868 conserved gate region; other site 652103006869 putative PBP binding loops; other site 652103006870 ABC-ATPase subunit interface; other site 652103006871 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103006872 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103006873 Walker A/P-loop; other site 652103006874 ATP binding site [chemical binding]; other site 652103006875 Q-loop/lid; other site 652103006876 ABC transporter signature motif; other site 652103006877 Walker B; other site 652103006878 D-loop; other site 652103006879 H-loop/switch region; other site 652103006880 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103006881 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103006882 Walker A/P-loop; other site 652103006883 ATP binding site [chemical binding]; other site 652103006884 Q-loop/lid; other site 652103006885 ABC transporter signature motif; other site 652103006886 Walker B; other site 652103006887 D-loop; other site 652103006888 H-loop/switch region; other site 652103006889 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103006890 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 652103006891 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103006892 Domain of unknown function (DUF305); Region: DUF305; cl15795 652103006893 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103006894 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103006895 NAD(P) binding site [chemical binding]; other site 652103006896 Protein of unknown function (DUF1847); Region: DUF1847; cl02037 652103006897 NMT1-like family; Region: NMT1_2; cl15260 652103006898 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 652103006899 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 652103006900 dimer interface [polypeptide binding]; other site 652103006901 ABC-ATPase subunit interface; other site 652103006902 putative PBP binding loops; other site 652103006903 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103006904 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103006905 Walker A/P-loop; other site 652103006906 ATP binding site [chemical binding]; other site 652103006907 Q-loop/lid; other site 652103006908 ABC transporter signature motif; other site 652103006909 Walker B; other site 652103006910 D-loop; other site 652103006911 H-loop/switch region; other site 652103006912 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 652103006913 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103006914 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 652103006915 putative substrate binding pocket [chemical binding]; other site 652103006916 trimer interface [polypeptide binding]; other site 652103006917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006918 metal binding site [ion binding]; metal-binding site 652103006919 active site 652103006920 I-site; other site 652103006921 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 652103006922 trimer interface [polypeptide binding]; other site 652103006923 active site 652103006924 substrate binding site [chemical binding]; other site 652103006925 CoA binding site [chemical binding]; other site 652103006926 Helix-turn-helix domains; Region: HTH; cl00088 652103006927 putative transposase OrfB; Reviewed; Region: PHA02517 652103006928 HTH-like domain; Region: HTH_21; pfam13276 652103006929 Integrase core domain; Region: rve; cl01316 652103006930 Integrase core domain; Region: rve_3; cl15866 652103006931 TIR domain; Region: TIR_2; cl15770 652103006932 TIR domain; Region: TIR_2; cl15770 652103006933 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 652103006934 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 652103006935 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 652103006936 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 652103006937 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 652103006938 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 652103006939 active site 652103006940 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 652103006941 TSCPD domain; Region: TSCPD; cl14834 652103006942 EamA-like transporter family; Region: EamA; cl01037 652103006943 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103006944 EamA-like transporter family; Region: EamA; cl01037 652103006945 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 652103006946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103006947 amidase; Provisional; Region: PRK07869 652103006948 Amidase; Region: Amidase; cl11426 652103006949 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 652103006950 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 652103006951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103006952 catalytic residue [active] 652103006953 AAA domain; Region: AAA_26; pfam13500 652103006954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103006955 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 652103006956 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 652103006957 inhibitor-cofactor binding pocket; inhibition site 652103006958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103006959 catalytic residue [active] 652103006960 Helix-turn-helix domains; Region: HTH; cl00088 652103006961 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 652103006962 glutamine synthetase; Provisional; Region: glnA; PRK09469 652103006963 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103006964 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103006965 Nitrogen regulatory protein P-II; Region: P-II; cl00412 652103006966 Nitrogen regulatory protein P-II; Region: P-II; smart00938 652103006967 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 652103006968 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 652103006969 putative substrate binding site [chemical binding]; other site 652103006970 putative ATP binding site [chemical binding]; other site 652103006971 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 652103006972 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103006973 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103006974 trigger factor; Provisional; Region: tig; PRK01490 652103006975 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 652103006976 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 652103006977 Clp protease; Region: CLP_protease; pfam00574 652103006978 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 652103006979 oligomer interface [polypeptide binding]; other site 652103006980 active site residues [active] 652103006981 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 652103006982 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 652103006983 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 652103006984 Walker A motif; other site 652103006985 ATP binding site [chemical binding]; other site 652103006986 Walker B motif; other site 652103006987 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 652103006988 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 652103006989 Found in ATP-dependent protease La (LON); Region: LON; smart00464 652103006990 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 652103006991 Walker A motif; other site 652103006992 ATP binding site [chemical binding]; other site 652103006993 Walker B motif; other site 652103006994 arginine finger; other site 652103006995 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 652103006996 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 652103006997 PAS fold; Region: PAS_7; pfam12860 652103006998 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103006999 metal binding site [ion binding]; metal-binding site 652103007000 active site 652103007001 I-site; other site 652103007002 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 652103007003 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103007004 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103007005 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103007006 peptidase T; Region: peptidase-T; TIGR01882 652103007007 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 652103007008 metal binding site [ion binding]; metal-binding site 652103007009 dimer interface [polypeptide binding]; other site 652103007010 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 652103007011 IHF - DNA interface [nucleotide binding]; other site 652103007012 IHF dimer interface [polypeptide binding]; other site 652103007013 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 652103007014 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 652103007015 non-specific DNA binding site [nucleotide binding]; other site 652103007016 salt bridge; other site 652103007017 sequence-specific DNA binding site [nucleotide binding]; other site 652103007018 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 652103007019 sequence-specific DNA binding site [nucleotide binding]; other site 652103007020 salt bridge; other site 652103007021 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 652103007022 salt bridge; other site 652103007023 non-specific DNA binding site [nucleotide binding]; other site 652103007024 sequence-specific DNA binding site [nucleotide binding]; other site 652103007025 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 652103007026 N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; Region: NGN; cl02766 652103007027 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 652103007028 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 652103007029 DNA binding site [nucleotide binding] 652103007030 dimer interface [polypeptide binding]; other site 652103007031 Int/Topo IB signature motif; other site 652103007032 active site 652103007033 Terminase small subunit; Region: Terminase_2; cl01513 652103007034 Terminase-like family; Region: Terminase_6; pfam03237 652103007035 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 652103007036 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 652103007037 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 652103007038 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 652103007039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007040 Phage Tail Collar Domain; Region: Collar; pfam07484 652103007041 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 652103007042 catalytic residue [active] 652103007043 polyphosphate kinase; Provisional; Region: PRK05443 652103007044 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; cl10351 652103007045 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 652103007046 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 652103007047 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 652103007048 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 652103007049 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 652103007050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007051 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 652103007052 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 652103007053 putative dimer interface [polypeptide binding]; other site 652103007054 [2Fe-2S] cluster binding site [ion binding]; other site 652103007055 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 652103007056 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 652103007057 SLBB domain; Region: SLBB; pfam10531 652103007058 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 652103007059 NADH dehydrogenase subunit G; Validated; Region: PRK09130 652103007060 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 652103007061 catalytic loop [active] 652103007062 iron binding site [ion binding]; other site 652103007063 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 652103007064 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 652103007065 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 652103007066 NADH dehydrogenase; Region: NADHdh; cl00469 652103007067 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 652103007068 4Fe-4S binding domain; Region: Fer4; cl02805 652103007069 4Fe-4S binding domain; Region: Fer4; cl02805 652103007070 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 652103007071 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 652103007072 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 652103007073 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103007074 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 652103007075 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 652103007076 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103007077 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 652103007078 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103007079 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103007080 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 652103007081 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 652103007082 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 652103007083 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 652103007084 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103007085 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 652103007086 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103007087 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 652103007088 dimer interface [polypeptide binding]; other site 652103007089 substrate binding site [chemical binding]; other site 652103007090 metal binding site [ion binding]; metal-binding site 652103007091 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 652103007092 Protein of unknown function (DUF461); Region: DUF461; cl01071 652103007093 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 652103007094 Bacterial Ig-like domain; Region: Big_5; cl01012 652103007095 Copper resistance protein D; Region: CopD; cl00563 652103007096 prolyl-tRNA synthetase; Provisional; Region: PRK12325 652103007097 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 652103007098 dimer interface [polypeptide binding]; other site 652103007099 motif 1; other site 652103007100 active site 652103007101 motif 2; other site 652103007102 motif 3; other site 652103007103 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 652103007104 anticodon binding site; other site 652103007105 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 652103007106 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103007107 FtsX-like permease family; Region: FtsX; cl15850 652103007108 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103007109 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103007110 Walker A/P-loop; other site 652103007111 ATP binding site [chemical binding]; other site 652103007112 Q-loop/lid; other site 652103007113 ABC transporter signature motif; other site 652103007114 Walker B; other site 652103007115 D-loop; other site 652103007116 H-loop/switch region; other site 652103007117 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 652103007118 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 652103007119 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 652103007120 generic binding surface I; other site 652103007121 generic binding surface II; other site 652103007122 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103007123 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 652103007124 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 652103007125 rRNA interaction site [nucleotide binding]; other site 652103007126 S8 interaction site; other site 652103007127 putative laminin-1 binding site; other site 652103007128 Uncharacterized conserved protein [Function unknown]; Region: COG3743 652103007129 elongation factor Ts; Provisional; Region: tsf; PRK09377 652103007130 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 652103007131 Elongation factor TS; Region: EF_TS; pfam00889 652103007132 Elongation factor TS; Region: EF_TS; pfam00889 652103007133 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 652103007134 putative nucleotide binding site [chemical binding]; other site 652103007135 uridine monophosphate binding site [chemical binding]; other site 652103007136 homohexameric interface [polypeptide binding]; other site 652103007137 ribosome recycling factor; Reviewed; Region: frr; PRK00083 652103007138 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 652103007139 hinge region; other site 652103007140 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 652103007141 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 652103007142 catalytic residue [active] 652103007143 putative FPP diphosphate binding site; other site 652103007144 putative FPP binding hydrophobic cleft; other site 652103007145 dimer interface [polypeptide binding]; other site 652103007146 putative IPP diphosphate binding site; other site 652103007147 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 652103007148 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 652103007149 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 652103007150 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 652103007151 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 652103007152 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 652103007153 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 652103007154 active site 652103007155 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 652103007156 protein binding site [polypeptide binding]; other site 652103007157 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 652103007158 putative substrate binding region [chemical binding]; other site 652103007159 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 652103007160 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 652103007161 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 652103007162 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 652103007163 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 652103007164 Surface antigen; Region: Bac_surface_Ag; cl03097 652103007165 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 652103007166 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 652103007167 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 652103007168 trimer interface [polypeptide binding]; other site 652103007169 active site 652103007170 UDP-GlcNAc binding site [chemical binding]; other site 652103007171 lipid binding site [chemical binding]; lipid-binding site 652103007172 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 652103007173 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 652103007174 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 652103007175 active site 652103007176 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 652103007177 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 652103007178 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 652103007179 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 652103007180 dimer interface [polypeptide binding]; other site 652103007181 Citrate synthase; Region: Citrate_synt; pfam00285 652103007182 active site 652103007183 citrylCoA binding site [chemical binding]; other site 652103007184 NADH binding [chemical binding]; other site 652103007185 cationic pore residues; other site 652103007186 oxalacetate/citrate binding site [chemical binding]; other site 652103007187 coenzyme A binding site [chemical binding]; other site 652103007188 catalytic triad [active] 652103007189 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 652103007190 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 652103007191 HIGH motif; other site 652103007192 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 652103007193 active site 652103007194 KMSKS motif; other site 652103007195 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 652103007196 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103007197 active site 652103007198 HIGH motif; other site 652103007199 nucleotide binding site [chemical binding]; other site 652103007200 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 652103007201 KMSKS motif; other site 652103007202 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 652103007203 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 652103007204 Competence protein; Region: Competence; cl00471 652103007205 LexA repressor; Validated; Region: PRK00215 652103007206 Helix-turn-helix domains; Region: HTH; cl00088 652103007207 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 652103007208 Catalytic site [active] 652103007209 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 652103007210 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 652103007211 dimer interface [polypeptide binding]; other site 652103007212 putative functional site; other site 652103007213 putative MPT binding site; other site 652103007214 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 652103007215 active site 652103007216 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 652103007217 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103007218 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 652103007219 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 652103007220 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103007221 ligand binding site [chemical binding]; other site 652103007222 PilZ domain; Region: PilZ; cl01260 652103007223 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 652103007224 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 652103007225 putative dimer interface [polypeptide binding]; other site 652103007226 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103007227 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 652103007228 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103007229 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 652103007230 motif II; other site 652103007231 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103007232 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 652103007233 trimer interface [polypeptide binding]; other site 652103007234 dimer interface [polypeptide binding]; other site 652103007235 putative active site [active] 652103007236 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 652103007237 active site 652103007238 ribulose/triose binding site [chemical binding]; other site 652103007239 phosphate binding site [ion binding]; other site 652103007240 substrate (anthranilate) binding pocket [chemical binding]; other site 652103007241 product (indole) binding pocket [chemical binding]; other site 652103007242 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 652103007243 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 652103007244 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 652103007245 periplasmic folding chaperone; Provisional; Region: PRK10788 652103007246 SurA N-terminal domain; Region: SurA_N_3; cl07813 652103007247 PPIC-type PPIASE domain; Region: Rotamase; cl08278 652103007248 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 652103007249 substrate binding site [chemical binding]; other site 652103007250 dimer interface [polypeptide binding]; other site 652103007251 catalytic triad [active] 652103007252 Preprotein translocase SecG subunit; Region: SecG; cl09123 652103007253 CTP synthetase; Validated; Region: pyrG; PRK05380 652103007254 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 652103007255 Catalytic site [active] 652103007256 active site 652103007257 UTP binding site [chemical binding]; other site 652103007258 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 652103007259 active site 652103007260 putative oxyanion hole; other site 652103007261 catalytic triad [active] 652103007262 PAAR motif; Region: PAAR_motif; cl15808 652103007263 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 652103007264 Protein of unknown function (DUF497); Region: DUF497; cl01108 652103007265 NIPSNAP; Region: NIPSNAP; pfam07978 652103007266 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 652103007267 NeuB family; Region: NeuB; cl00496 652103007268 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 652103007269 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 652103007270 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 652103007271 Ligand binding site; other site 652103007272 DXD motif; other site 652103007273 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 652103007274 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 652103007275 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 652103007276 enolase; Provisional; Region: eno; PRK00077 652103007277 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 652103007278 dimer interface [polypeptide binding]; other site 652103007279 metal binding site [ion binding]; metal-binding site 652103007280 substrate binding pocket [chemical binding]; other site 652103007281 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 652103007282 NADP binding site [chemical binding]; other site 652103007283 dimer interface [polypeptide binding]; other site 652103007284 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 652103007285 LysE type translocator; Region: LysE; cl00565 652103007286 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103007287 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103007288 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103007289 Septum formation initiator; Region: DivIC; cl11433 652103007290 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 652103007291 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 652103007292 tetramer interface [polypeptide binding]; other site 652103007293 TPP-binding site [chemical binding]; other site 652103007294 heterodimer interface [polypeptide binding]; other site 652103007295 phosphorylation loop region [posttranslational modification] 652103007296 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 652103007297 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 652103007298 E3 interaction surface; other site 652103007299 lipoyl attachment site [posttranslational modification]; other site 652103007300 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 652103007301 alpha subunit interface [polypeptide binding]; other site 652103007302 TPP binding site [chemical binding]; other site 652103007303 heterodimer interface [polypeptide binding]; other site 652103007304 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103007305 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 652103007306 E3 interaction surface; other site 652103007307 lipoyl attachment site [posttranslational modification]; other site 652103007308 e3 binding domain; Region: E3_binding; pfam02817 652103007309 dihydrolipoamide acetyltransferase; Provisional; Region: PRK14843 652103007310 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 652103007311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007312 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 652103007313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103007314 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103007315 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 652103007316 Sel1 repeat; Region: Sel1; cl02723 652103007317 Sel1 repeat; Region: Sel1; cl02723 652103007318 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 652103007319 putative phosphate binding site [ion binding]; other site 652103007320 putative catalytic site [active] 652103007321 active site 652103007322 metal binding site A [ion binding]; metal-binding site 652103007323 DNA binding site [nucleotide binding] 652103007324 putative AP binding site [nucleotide binding]; other site 652103007325 putative metal binding site B [ion binding]; other site 652103007326 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 652103007327 non-specific DNA binding site [nucleotide binding]; other site 652103007328 salt bridge; other site 652103007329 sequence-specific DNA binding site [nucleotide binding]; other site 652103007330 Neurotransmitter-gated ion-channel ligand binding domain; Region: Neur_chan_LBD; pfam02931 652103007331 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 652103007332 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 652103007333 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 652103007334 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 652103007335 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 652103007336 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 652103007337 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 652103007338 active site 652103007339 HIGH motif; other site 652103007340 KMSK motif region; other site 652103007341 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 652103007342 tRNA binding surface [nucleotide binding]; other site 652103007343 anticodon binding site; other site 652103007344 Sporulation related domain; Region: SPOR; cl10051 652103007345 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 652103007346 ScpA/B protein; Region: ScpA_ScpB; cl00598 652103007347 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 652103007348 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 652103007349 sec-independent translocase; Provisional; Region: PRK00708 652103007350 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 652103007351 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 652103007352 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 652103007353 active site 652103007354 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103007355 seryl-tRNA synthetase; Provisional; Region: PRK05431 652103007356 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 652103007357 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103007358 motif 1; other site 652103007359 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103007360 active site 652103007361 dimer interface [polypeptide binding]; other site 652103007362 motif 2; other site 652103007363 motif 3; other site 652103007364 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 652103007365 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 652103007366 active site 652103007367 Zn binding site [ion binding]; other site 652103007368 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 652103007369 Survival protein SurE; Region: SurE; cl00448 652103007370 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103007371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103007372 active site 652103007373 phosphorylation site [posttranslational modification] 652103007374 intermolecular recognition site; other site 652103007375 dimerization interface [polypeptide binding]; other site 652103007376 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 652103007377 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103007378 S-adenosylmethionine binding site [chemical binding]; other site 652103007379 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 652103007380 putative peptidoglycan binding site; other site 652103007381 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 652103007382 putative peptidoglycan binding site; other site 652103007383 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103007384 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103007385 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 652103007386 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103007387 Preprotein translocase subunit; Region: YajC; cl00806 652103007388 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 652103007389 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 652103007390 Protein export membrane protein; Region: SecD_SecF; cl14618 652103007391 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 652103007392 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 652103007393 Protein export membrane protein; Region: SecD_SecF; cl14618 652103007394 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 652103007395 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 652103007396 substrate binding pocket [chemical binding]; other site 652103007397 substrate-Mg2+ binding site; other site 652103007398 aspartate-rich region 2; other site 652103007399 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 652103007400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007401 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 652103007402 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 652103007403 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 652103007404 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 652103007405 CoenzymeA binding site [chemical binding]; other site 652103007406 subunit interaction site [polypeptide binding]; other site 652103007407 PHB binding site; other site 652103007408 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103007409 Ion channel; Region: Ion_trans_2; cl11596 652103007410 Protein of unknown function (DUF433); Region: DUF433; cl01030 652103007411 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 652103007412 Protein of unknown function (DUF433); Region: DUF433; cl01030 652103007413 Uncharacterized conserved protein [Function unknown]; Region: COG1656; cl09136 652103007414 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 652103007415 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 652103007416 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 652103007417 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 652103007418 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103007419 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 652103007420 dimer interface [polypeptide binding]; other site 652103007421 ssDNA binding site [nucleotide binding]; other site 652103007422 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103007423 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 652103007424 Domain of unknown function DUF21; Region: DUF21; pfam01595 652103007425 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 652103007426 Transporter associated domain; Region: CorC_HlyC; cl08393 652103007427 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 652103007428 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 652103007429 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 652103007430 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 652103007431 Ligand Binding Site [chemical binding]; other site 652103007432 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103007433 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103007434 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103007435 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103007436 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 652103007437 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 652103007438 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 652103007439 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 652103007440 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 652103007441 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 652103007442 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103007443 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 652103007444 substrate binding site [chemical binding]; other site 652103007445 oxyanion hole (OAH) forming residues; other site 652103007446 trimer interface [polypeptide binding]; other site 652103007447 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 652103007448 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 652103007449 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103007450 Family description; Region: UvrD_C_2; cl15862 652103007451 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 652103007452 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 652103007453 dimer interface [polypeptide binding]; other site 652103007454 pyridoxamine kinase; Validated; Region: PRK05756 652103007455 pyridoxal binding site [chemical binding]; other site 652103007456 ATP binding site [chemical binding]; other site 652103007457 benzoate transporter; Region: benE; TIGR00843 652103007458 Benzoate membrane transport protein; Region: BenE; pfam03594 652103007459 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 652103007460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103007461 DNA-binding site [nucleotide binding]; DNA binding site 652103007462 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 652103007463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007464 homodimer interface [polypeptide binding]; other site 652103007465 catalytic residue [active] 652103007466 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 652103007467 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 652103007468 dimer interface [polypeptide binding]; other site 652103007469 glycine-pyridoxal phosphate binding site [chemical binding]; other site 652103007470 active site 652103007471 folate binding site [chemical binding]; other site 652103007472 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 652103007473 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103007474 catalytic residue [active] 652103007475 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 652103007476 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 652103007477 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 652103007478 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 652103007479 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103007480 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103007481 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 652103007482 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 652103007483 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103007484 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007485 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007486 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007487 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103007488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103007489 AAA domain; Region: AAA_27; pfam13514 652103007490 Walker A/P-loop; other site 652103007491 ATP binding site [chemical binding]; other site 652103007492 Q-loop/lid; other site 652103007493 ABC transporter signature motif; other site 652103007494 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 652103007495 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 652103007496 active site 652103007497 metal binding site [ion binding]; metal-binding site 652103007498 DNA binding site [nucleotide binding] 652103007499 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103007500 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103007501 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103007502 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103007503 DctM-like transporters; Region: DctM; pfam06808 652103007504 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103007505 acyl-CoA synthetase; Validated; Region: PRK08162 652103007506 AMP-binding enzyme; Region: AMP-binding; cl15778 652103007507 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103007508 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103007509 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 652103007510 active site 652103007511 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 652103007512 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 652103007513 active site 652103007514 HIGH motif; other site 652103007515 KMSKS motif; other site 652103007516 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 652103007517 tRNA binding surface [nucleotide binding]; other site 652103007518 anticodon binding site; other site 652103007519 DNA polymerase III subunit delta'; Validated; Region: PRK07471 652103007520 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103007521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103007522 thymidylate kinase; Validated; Region: tmk; PRK00698 652103007523 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 652103007524 TMP-binding site; other site 652103007525 ATP-binding site [chemical binding]; other site 652103007526 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 652103007527 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 652103007528 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103007529 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103007530 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 652103007531 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 652103007532 Domain of unknown function DUF20; Region: UPF0118; pfam01594 652103007533 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 652103007534 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 652103007535 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103007536 metal binding site [ion binding]; metal-binding site 652103007537 active site 652103007538 I-site; other site 652103007539 Transposase domain (DUF772); Region: DUF772; cl15789 652103007540 Transposase domain (DUF772); Region: DUF772; cl15789 652103007541 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 652103007542 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 652103007543 23S rRNA interface [nucleotide binding]; other site 652103007544 L3 interface [polypeptide binding]; other site 652103007545 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 652103007546 CoenzymeA binding site [chemical binding]; other site 652103007547 subunit interaction site [polypeptide binding]; other site 652103007548 PHB binding site; other site 652103007549 enoyl-CoA hydratase; Validated; Region: PRK08139 652103007550 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 652103007551 substrate binding site [chemical binding]; other site 652103007552 oxyanion hole (OAH) forming residues; other site 652103007553 trimer interface [polypeptide binding]; other site 652103007554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007555 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 652103007556 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 652103007557 homodimer interface [polypeptide binding]; other site 652103007558 substrate-cofactor binding pocket; other site 652103007559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007560 catalytic residue [active] 652103007561 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 652103007562 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 652103007563 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 652103007564 putative NAD(P) binding site [chemical binding]; other site 652103007565 catalytic Zn binding site [ion binding]; other site 652103007566 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 652103007567 classical (c) SDRs; Region: SDR_c; cd05233 652103007568 NAD(P) binding site [chemical binding]; other site 652103007569 active site 652103007570 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 652103007571 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103007572 PYR/PP interface [polypeptide binding]; other site 652103007573 dimer interface [polypeptide binding]; other site 652103007574 TPP binding site [chemical binding]; other site 652103007575 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103007576 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 652103007577 TPP-binding site; other site 652103007578 dimer interface [polypeptide binding]; other site 652103007579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103007580 Helix-turn-helix domains; Region: HTH; cl00088 652103007581 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 652103007582 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 652103007583 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103007584 Ferritin-like domain; Region: Ferritin; pfam00210 652103007585 dimerization interface [polypeptide binding]; other site 652103007586 DPS ferroxidase diiron center [ion binding]; other site 652103007587 ion pore; other site 652103007588 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 652103007589 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 652103007590 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103007591 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103007592 putative active site [active] 652103007593 putative metal binding site [ion binding]; other site 652103007594 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103007595 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103007596 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 652103007597 Chain length determinant protein; Region: Wzz; cl15801 652103007598 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 652103007599 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 652103007600 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 652103007601 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007602 Bacterial sugar transferase; Region: Bac_transf; cl00939 652103007603 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 652103007604 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 652103007605 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 652103007606 DNA binding residues [nucleotide binding] 652103007607 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 652103007608 IHF dimer interface [polypeptide binding]; other site 652103007609 IHF - DNA interface [nucleotide binding]; other site 652103007610 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 652103007611 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 652103007612 dimer interface [polypeptide binding]; other site 652103007613 active site 652103007614 CoA binding pocket [chemical binding]; other site 652103007615 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 652103007616 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 652103007617 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 652103007618 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 652103007619 short chain dehydrogenase; Validated; Region: PRK05855 652103007620 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103007621 Spc7 kinetochore protein; Region: Spc7; pfam08317 652103007622 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 652103007623 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 652103007624 thiamine monophosphate kinase; Provisional; Region: PRK05731 652103007625 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 652103007626 ATP binding site [chemical binding]; other site 652103007627 dimerization interface [polypeptide binding]; other site 652103007628 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 652103007629 putative RNA binding site [nucleotide binding]; other site 652103007630 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 652103007631 homopentamer interface [polypeptide binding]; other site 652103007632 active site 652103007633 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 652103007634 Lumazine binding domain; Region: Lum_binding; pfam00677 652103007635 Lumazine binding domain; Region: Lum_binding; pfam00677 652103007636 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 652103007637 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 652103007638 catalytic motif [active] 652103007639 Zn binding site [ion binding]; other site 652103007640 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 652103007641 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 652103007642 ATP cone domain; Region: ATP-cone; pfam03477 652103007643 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 652103007644 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 652103007645 dimer interface [polypeptide binding]; other site 652103007646 glycine-pyridoxal phosphate binding site [chemical binding]; other site 652103007647 active site 652103007648 folate binding site [chemical binding]; other site 652103007649 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 652103007650 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 652103007651 putative active site [active] 652103007652 Cupin domain; Region: Cupin_2; cl09118 652103007653 putative S-transferase; Provisional; Region: PRK11752 652103007654 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 652103007655 C-terminal domain interface [polypeptide binding]; other site 652103007656 GSH binding site (G-site) [chemical binding]; other site 652103007657 dimer interface [polypeptide binding]; other site 652103007658 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 652103007659 dimer interface [polypeptide binding]; other site 652103007660 N-terminal domain interface [polypeptide binding]; other site 652103007661 active site 652103007662 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 652103007663 apolar tunnel; other site 652103007664 heme binding site [chemical binding]; other site 652103007665 dimerization interface [polypeptide binding]; other site 652103007666 Domain of unknown function (DUF305); Region: DUF305; cl15795 652103007667 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103007668 Helix-turn-helix domains; Region: HTH; cl00088 652103007669 acyl-CoA synthetase; Validated; Region: PRK06188 652103007670 AMP-binding enzyme; Region: AMP-binding; cl15778 652103007671 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103007672 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 652103007673 dimer interface [polypeptide binding]; other site 652103007674 allosteric magnesium binding site [ion binding]; other site 652103007675 active site 652103007676 aspartate-rich active site metal binding site; other site 652103007677 Schiff base residues; other site 652103007678 RDD family; Region: RDD; cl00746 652103007679 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 652103007680 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 652103007681 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103007682 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 652103007683 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103007684 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103007685 Fusaric acid resistance protein family; Region: FUSC; pfam04632 652103007686 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 652103007687 Cupin domain; Region: Cupin_2; cl09118 652103007688 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 652103007689 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 652103007690 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 652103007691 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 652103007692 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 652103007693 transmembrane helices; other site 652103007694 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 652103007695 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 652103007696 CAP-like domain; other site 652103007697 active site 652103007698 primary dimer interface [polypeptide binding]; other site 652103007699 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007700 Helix-turn-helix domains; Region: HTH; cl00088 652103007701 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 652103007702 NmrA-like family; Region: NmrA; pfam05368 652103007703 NADP binding site [chemical binding]; other site 652103007704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 652103007705 Helix-turn-helix domains; Region: HTH; cl00088 652103007706 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103007707 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 652103007708 putative C-terminal domain interface [polypeptide binding]; other site 652103007709 putative GSH binding site (G-site) [chemical binding]; other site 652103007710 putative dimer interface [polypeptide binding]; other site 652103007711 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103007712 N-terminal domain interface [polypeptide binding]; other site 652103007713 dimer interface [polypeptide binding]; other site 652103007714 substrate binding pocket (H-site) [chemical binding]; other site 652103007715 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 652103007716 Recombination protein O N terminal; Region: RecO_N; cl15812 652103007717 Recombination protein O C terminal; Region: RecO_C; pfam02565 652103007718 GTPase Era; Reviewed; Region: era; PRK00089 652103007719 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 652103007720 G1 box; other site 652103007721 GTP/Mg2+ binding site [chemical binding]; other site 652103007722 Switch I region; other site 652103007723 G2 box; other site 652103007724 Switch II region; other site 652103007725 G3 box; other site 652103007726 G4 box; other site 652103007727 G5 box; other site 652103007728 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 652103007729 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 652103007730 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 652103007731 dimerization interface [polypeptide binding]; other site 652103007732 active site 652103007733 metal binding site [ion binding]; metal-binding site 652103007734 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 652103007735 dsRNA binding site [nucleotide binding]; other site 652103007736 signal peptidase I; Provisional; Region: PRK10861 652103007737 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 652103007738 Catalytic site [active] 652103007739 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 652103007740 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 652103007741 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 652103007742 active site 652103007743 hydrophilic channel; other site 652103007744 dimerization interface [polypeptide binding]; other site 652103007745 catalytic residues [active] 652103007746 active site lid [active] 652103007747 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 652103007748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 652103007749 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 652103007750 synthetase active site [active] 652103007751 NTP binding site [chemical binding]; other site 652103007752 metal binding site [ion binding]; metal-binding site 652103007753 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 652103007754 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 652103007755 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 652103007756 LabA_like proteins; Region: LabA; cd10911 652103007757 putative metal binding site [ion binding]; other site 652103007758 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 652103007759 Fe-S cluster binding site [ion binding]; other site 652103007760 DNA binding site [nucleotide binding] 652103007761 active site 652103007762 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 652103007763 catalytic triad [active] 652103007764 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 652103007765 SmpB-tmRNA interface; other site 652103007766 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 652103007767 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 652103007768 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 652103007769 dihydrodipicolinate synthase; Region: dapA; TIGR00674 652103007770 dimer interface [polypeptide binding]; other site 652103007771 active site 652103007772 catalytic residue [active] 652103007773 Cupin domain; Region: Cupin_2; cl09118 652103007774 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 652103007775 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 652103007776 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 652103007777 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 652103007778 LamB/YcsF family; Region: LamB_YcsF; cl00664 652103007779 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 652103007780 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 652103007781 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103007782 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 652103007783 Walker A/P-loop; other site 652103007784 ATP binding site [chemical binding]; other site 652103007785 Q-loop/lid; other site 652103007786 ABC transporter signature motif; other site 652103007787 Walker B; other site 652103007788 D-loop; other site 652103007789 H-loop/switch region; other site 652103007790 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 652103007791 dimer interface [polypeptide binding]; other site 652103007792 conserved gate region; other site 652103007793 putative PBP binding loops; other site 652103007794 ABC-ATPase subunit interface; other site 652103007795 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 652103007796 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 652103007797 membrane-bound complex binding site; other site 652103007798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103007799 Helix-turn-helix domains; Region: HTH; cl00088 652103007800 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 652103007801 dimerization interface [polypeptide binding]; other site 652103007802 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 652103007803 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 652103007804 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 652103007805 FeS/SAM binding site; other site 652103007806 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 652103007807 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 652103007808 NADP binding site [chemical binding]; other site 652103007809 dimer interface [polypeptide binding]; other site 652103007810 Integral membrane protein TerC family; Region: TerC; cl10468 652103007811 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 652103007812 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 652103007813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103007814 Membrane transport protein; Region: Mem_trans; cl09117 652103007815 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 652103007816 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 652103007817 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 652103007818 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 652103007819 AMP-binding enzyme; Region: AMP-binding; cl15778 652103007820 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 652103007821 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 652103007822 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 652103007823 ATP binding site [chemical binding]; other site 652103007824 putative Mg++ binding site [ion binding]; other site 652103007825 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 652103007826 nucleotide binding region [chemical binding]; other site 652103007827 ATP-binding site [chemical binding]; other site 652103007828 TRCF domain; Region: TRCF; cl04088 652103007829 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 652103007830 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 652103007831 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 652103007832 generic binding surface II; other site 652103007833 ssDNA binding site; other site 652103007834 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 652103007835 ATP binding site [chemical binding]; other site 652103007836 putative Mg++ binding site [ion binding]; other site 652103007837 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 652103007838 nucleotide binding region [chemical binding]; other site 652103007839 ATP-binding site [chemical binding]; other site 652103007840 Protein of unknown function (DUF502); Region: DUF502; cl01107 652103007841 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 652103007842 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 652103007843 glutaminase active site [active] 652103007844 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 652103007845 dimer interface [polypeptide binding]; other site 652103007846 active site 652103007847 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 652103007848 dimer interface [polypeptide binding]; other site 652103007849 active site 652103007850 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 652103007851 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 652103007852 Substrate binding site; other site 652103007853 Mg++ binding site; other site 652103007854 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 652103007855 active site 652103007856 substrate binding site [chemical binding]; other site 652103007857 CoA binding site [chemical binding]; other site 652103007858 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 652103007859 Glycosyl hydrolases family 17; Region: Glyco_hydro_17; cl02191 652103007860 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103007861 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 652103007862 active site 652103007863 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103007864 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103007865 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 652103007866 homotrimer interaction site [polypeptide binding]; other site 652103007867 putative active site [active] 652103007868 EamA-like transporter family; Region: EamA; cl01037 652103007869 EamA-like transporter family; Region: EamA; cl01037 652103007870 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 652103007871 CrcB-like protein; Region: CRCB; cl09114 652103007872 CrcB-like protein; Region: CRCB; cl09114 652103007873 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 652103007874 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 652103007875 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 652103007876 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 652103007877 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 652103007878 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 652103007879 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 652103007880 active site 652103007881 Gram-negative bacterial tonB protein; Region: TonB; cl10048 652103007882 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 652103007883 active site 652103007884 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 652103007885 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 652103007886 active site 652103007887 (T/H)XGH motif; other site 652103007888 DNA gyrase subunit A; Validated; Region: PRK05560 652103007889 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 652103007890 CAP-like domain; other site 652103007891 active site 652103007892 primary dimer interface [polypeptide binding]; other site 652103007893 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007894 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007895 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007896 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007897 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007898 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 652103007899 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 652103007900 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 652103007901 HflX GTPase family; Region: HflX; cd01878 652103007902 G1 box; other site 652103007903 GTP/Mg2+ binding site [chemical binding]; other site 652103007904 Switch I region; other site 652103007905 G2 box; other site 652103007906 G3 box; other site 652103007907 Switch II region; other site 652103007908 G4 box; other site 652103007909 G5 box; other site 652103007910 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 652103007911 Sm1 motif; other site 652103007912 intra - hexamer interaction site; other site 652103007913 inter - hexamer interaction site [polypeptide binding]; other site 652103007914 nucleotide binding pocket [chemical binding]; other site 652103007915 Sm2 motif; other site 652103007916 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 652103007917 homodimer interface [polypeptide binding]; other site 652103007918 substrate-cofactor binding pocket; other site 652103007919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103007920 catalytic residue [active] 652103007921 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103007922 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103007923 active site 652103007924 phosphorylation site [posttranslational modification] 652103007925 intermolecular recognition site; other site 652103007926 dimerization interface [polypeptide binding]; other site 652103007927 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 652103007928 Walker A motif; other site 652103007929 ATP binding site [chemical binding]; other site 652103007930 Walker B motif; other site 652103007931 arginine finger; other site 652103007932 Helix-turn-helix domains; Region: HTH; cl00088 652103007933 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 652103007934 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 652103007935 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 652103007936 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 652103007937 dimer interface [polypeptide binding]; other site 652103007938 phosphorylation site [posttranslational modification] 652103007939 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 652103007940 ATP binding site [chemical binding]; other site 652103007941 Mg2+ binding site [ion binding]; other site 652103007942 G-X-G motif; other site 652103007943 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 652103007944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103007945 active site 652103007946 phosphorylation site [posttranslational modification] 652103007947 intermolecular recognition site; other site 652103007948 dimerization interface [polypeptide binding]; other site 652103007949 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 652103007950 Walker A motif; other site 652103007951 ATP binding site [chemical binding]; other site 652103007952 Walker B motif; other site 652103007953 Helix-turn-helix domains; Region: HTH; cl00088 652103007954 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103007955 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 652103007956 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 652103007957 dimer interface [polypeptide binding]; other site 652103007958 phosphorylation site [posttranslational modification] 652103007959 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 652103007960 ATP binding site [chemical binding]; other site 652103007961 Mg2+ binding site [ion binding]; other site 652103007962 G-X-G motif; other site 652103007963 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 652103007964 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 652103007965 FMN binding site [chemical binding]; other site 652103007966 active site 652103007967 catalytic residues [active] 652103007968 substrate binding site [chemical binding]; other site 652103007969 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 652103007970 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 652103007971 substrate binding site; other site 652103007972 dimer interface; other site 652103007973 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 652103007974 homotrimer interaction site [polypeptide binding]; other site 652103007975 zinc binding site [ion binding]; other site 652103007976 CDP-binding sites; other site 652103007977 Competence-damaged protein; Region: CinA; cl00666 652103007978 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 652103007979 putative coenzyme Q binding site [chemical binding]; other site 652103007980 lipoyl synthase; Provisional; Region: PRK05481 652103007981 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 652103007982 FeS/SAM binding site; other site 652103007983 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 652103007984 active site 652103007985 DNA binding site [nucleotide binding] 652103007986 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 652103007987 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 652103007988 HIGH motif; other site 652103007989 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 652103007990 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 652103007991 active site 652103007992 KMSKS motif; other site 652103007993 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 652103007994 tRNA binding surface [nucleotide binding]; other site 652103007995 anticodon binding site; other site 652103007996 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 652103007997 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 652103007998 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 652103007999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008000 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 652103008001 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 652103008002 DTW domain; Region: DTW; cl01221 652103008003 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 652103008004 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 652103008005 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008006 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 652103008007 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008008 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008009 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 652103008010 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 652103008011 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008012 Uncharacterized conserved protein [Function unknown]; Region: COG3496 652103008013 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 652103008014 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 652103008015 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103008016 S-adenosylmethionine binding site [chemical binding]; other site 652103008017 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103008018 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 652103008019 dimer interface [polypeptide binding]; other site 652103008020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008021 catalytic residue [active] 652103008022 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 652103008023 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 652103008024 Walker A/P-loop; other site 652103008025 ATP binding site [chemical binding]; other site 652103008026 Q-loop/lid; other site 652103008027 ABC transporter signature motif; other site 652103008028 Walker B; other site 652103008029 D-loop; other site 652103008030 H-loop/switch region; other site 652103008031 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 652103008032 dimer interface [polypeptide binding]; other site 652103008033 conserved gate region; other site 652103008034 putative PBP binding loops; other site 652103008035 ABC-ATPase subunit interface; other site 652103008036 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 652103008037 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 652103008038 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 652103008039 dimer interface [polypeptide binding]; other site 652103008040 ABC-ATPase subunit interface; other site 652103008041 putative PBP binding loops; other site 652103008042 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 652103008043 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 652103008044 substrate binding pocket [chemical binding]; other site 652103008045 membrane-bound complex binding site; other site 652103008046 hinge residues; other site 652103008047 cystathionine beta-lyase; Provisional; Region: PRK05967 652103008048 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 652103008049 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008050 catalytic residue [active] 652103008051 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 652103008052 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 652103008053 Ligand binding site; other site 652103008054 Putative Catalytic site; other site 652103008055 DXD motif; other site 652103008056 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 652103008057 active site 652103008058 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 652103008059 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 652103008060 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 652103008061 Transglycosylase; Region: Transgly; cl07896 652103008062 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103008063 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 652103008064 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 652103008065 MG2 domain; Region: A2M_N; pfam01835 652103008066 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 652103008067 Alpha-2-macroglobulin family; Region: A2M; pfam00207 652103008068 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 652103008069 surface patch; other site 652103008070 thioester region; other site 652103008071 specificity defining residues; other site 652103008072 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 652103008073 Uncharacterized conserved protein [Function unknown]; Region: COG2966 652103008074 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 652103008075 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 652103008076 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 652103008077 active site 652103008078 catalytic residues [active] 652103008079 metal binding site [ion binding]; metal-binding site 652103008080 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103008081 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103008082 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103008083 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103008084 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103008085 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 652103008086 carboxyltransferase (CT) interaction site; other site 652103008087 biotinylation site [posttranslational modification]; other site 652103008088 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 652103008089 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103008090 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103008091 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 652103008092 OpgC protein; Region: OpgC_C; cl00792 652103008093 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103008094 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103008095 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 652103008096 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 652103008097 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 652103008098 DNA binding site [nucleotide binding] 652103008099 Int/Topo IB signature motif; other site 652103008100 active site 652103008101 integrase; Provisional; Region: int; PHA02601 652103008102 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 652103008103 DNA binding site [nucleotide binding] 652103008104 Int/Topo IB signature motif; other site 652103008105 active site 652103008106 catalytic residues [active] 652103008107 Helix-turn-helix domains; Region: HTH; cl00088 652103008108 Winged helix-turn helix; Region: HTH_29; pfam13551 652103008109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103008110 Helix-turn-helix domains; Region: HTH; cl00088 652103008111 Integrase core domain; Region: rve; cl01316 652103008112 Integrase core domain; Region: rve_3; cl15866 652103008113 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 652103008114 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 652103008115 Phage Tail Collar Domain; Region: Collar; pfam07484 652103008116 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14948 652103008117 large terminase protein; Provisional; Region: 17; PHA02533 652103008118 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 652103008119 catalytic residues [active] 652103008120 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 652103008121 active site 652103008122 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 652103008123 Poly A polymerase head domain; Region: PolyA_pol; cl14657 652103008124 exonuclease; Region: PHA00439 652103008125 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 652103008126 putative active site [active] 652103008127 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_B; cd08643 652103008128 active site 652103008129 DNA binding site [nucleotide binding] 652103008130 catalytic site [active] 652103008131 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 652103008132 active site 652103008133 metal binding site [ion binding]; metal-binding site 652103008134 interdomain interaction site; other site 652103008135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008136 Walker A motif; other site 652103008137 ATP binding site [chemical binding]; other site 652103008138 Walker B motif; other site 652103008139 HNH endonuclease; Region: HNH_3; pfam13392 652103008140 Helix-turn-helix domain; Region: HTH_39; pfam14090 652103008141 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008142 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103008143 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008144 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008145 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 652103008146 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 652103008147 Phage endonuclease I; Region: Phage_endo_I; cl11622 652103008148 T3/T7-like RNA polymerase; Region: PHA00452 652103008149 DNA-dependent RNA polymerase; Region: RNA_pol; pfam00940 652103008150 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 652103008151 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103008152 DNA-binding site [nucleotide binding]; DNA binding site 652103008153 RNA-binding motif; other site 652103008154 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 652103008155 DNA-binding site [nucleotide binding]; DNA binding site 652103008156 RNA-binding motif; other site 652103008157 NAD-dependent deacetylase; Provisional; Region: PRK00481 652103008158 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 652103008159 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103008160 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 652103008161 dimer interface [polypeptide binding]; other site 652103008162 active site 652103008163 metal binding site [ion binding]; metal-binding site 652103008164 glutathione binding site [chemical binding]; other site 652103008165 PilZ domain; Region: PilZ; cl01260 652103008166 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 652103008167 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 652103008168 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 652103008169 FeS/SAM binding site; other site 652103008170 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 652103008171 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 652103008172 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 652103008173 motif 1; other site 652103008174 dimer interface [polypeptide binding]; other site 652103008175 active site 652103008176 motif 2; other site 652103008177 motif 3; other site 652103008178 elongation factor P; Validated; Region: PRK00529 652103008179 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 652103008180 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 652103008181 RNA binding site [nucleotide binding]; other site 652103008182 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 652103008183 RNA binding site [nucleotide binding]; other site 652103008184 putative lipid kinase; Reviewed; Region: PRK13057 652103008185 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 652103008186 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103008187 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 652103008188 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103008189 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 652103008190 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 652103008191 DHH family; Region: DHH; pfam01368 652103008192 DHHA1 domain; Region: DHHA1; pfam02272 652103008193 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 652103008194 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103008195 putative acetyltransferase; Provisional; Region: PRK03624 652103008196 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103008197 Coenzyme A binding pocket [chemical binding]; other site 652103008198 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 652103008199 putative active site [active] 652103008200 homoserine dehydrogenase; Provisional; Region: PRK06349 652103008201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008202 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 652103008203 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 652103008204 aminotransferase; Validated; Region: PRK09148 652103008205 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 652103008206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008207 homodimer interface [polypeptide binding]; other site 652103008208 catalytic residue [active] 652103008209 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 652103008210 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 652103008211 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 652103008212 Amidase; Region: Amidase; cl11426 652103008213 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103008214 NMT1-like family; Region: NMT1_2; cl15260 652103008215 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103008216 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 652103008217 dimer interface [polypeptide binding]; other site 652103008218 conserved gate region; other site 652103008219 putative PBP binding loops; other site 652103008220 ABC-ATPase subunit interface; other site 652103008221 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103008222 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103008223 Walker A/P-loop; other site 652103008224 ATP binding site [chemical binding]; other site 652103008225 Q-loop/lid; other site 652103008226 ABC transporter signature motif; other site 652103008227 Walker B; other site 652103008228 D-loop; other site 652103008229 H-loop/switch region; other site 652103008230 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103008231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103008232 DNA-binding site [nucleotide binding]; DNA binding site 652103008233 FCD domain; Region: FCD; cl11656 652103008234 B12-binding domain/radical SAM domain protein, MJ_1487 family; Region: B12_SAM_MJ_1487; TIGR04013 652103008235 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 652103008236 Radical SAM superfamily; Region: Radical_SAM; pfam04055 652103008237 FeS/SAM binding site; other site 652103008238 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103008239 S-adenosylmethionine binding site [chemical binding]; other site 652103008240 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 652103008241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008242 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103008243 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 652103008244 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103008245 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103008246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103008247 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 652103008248 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 652103008249 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 652103008250 Mg2+ binding site [ion binding]; other site 652103008251 G-X-G motif; other site 652103008252 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 652103008253 anchoring element; other site 652103008254 dimer interface [polypeptide binding]; other site 652103008255 ATP binding site [chemical binding]; other site 652103008256 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 652103008257 active site 652103008258 putative metal-binding site [ion binding]; other site 652103008259 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 652103008260 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103008261 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103008262 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008263 dimer interface [polypeptide binding]; other site 652103008264 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103008265 putative CheW interface [polypeptide binding]; other site 652103008266 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 652103008267 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 652103008268 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103008269 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008270 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 652103008271 DEAD-like helicases superfamily; Region: DEXDc; smart00487 652103008272 ATP binding site [chemical binding]; other site 652103008273 Mg++ binding site [ion binding]; other site 652103008274 motif III; other site 652103008275 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 652103008276 nucleotide binding region [chemical binding]; other site 652103008277 ATP-binding site [chemical binding]; other site 652103008278 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103008279 metal binding site [ion binding]; metal-binding site 652103008280 active site 652103008281 I-site; other site 652103008282 TfoX N-terminal domain; Region: TfoX_N; cl01167 652103008283 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 652103008284 homotrimer interaction site [polypeptide binding]; other site 652103008285 putative active site [active] 652103008286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008287 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 652103008288 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 652103008289 putative metal binding site [ion binding]; other site 652103008290 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103008291 Domain of unknown function DUF59; Region: DUF59; cl00941 652103008292 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103008293 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 652103008294 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008295 catalytic residue [active] 652103008296 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 652103008297 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 652103008298 FeS assembly ATPase SufC; Region: sufC; TIGR01978 652103008299 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 652103008300 Walker A/P-loop; other site 652103008301 ATP binding site [chemical binding]; other site 652103008302 Q-loop/lid; other site 652103008303 ABC transporter signature motif; other site 652103008304 Walker B; other site 652103008305 D-loop; other site 652103008306 H-loop/switch region; other site 652103008307 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 652103008308 putative ABC transporter; Region: ycf24; CHL00085 652103008309 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 652103008310 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 652103008311 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008312 catalytic residue [active] 652103008313 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 652103008314 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 652103008315 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 652103008316 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 652103008317 active site 652103008318 HIGH motif; other site 652103008319 dimer interface [polypeptide binding]; other site 652103008320 KMSKS motif; other site 652103008321 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 652103008322 RNA binding surface [nucleotide binding]; other site 652103008323 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 652103008324 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103008325 putative substrate translocation pore; other site 652103008326 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 652103008327 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 652103008328 Protein of unknown function; Region: DUF3971; pfam13116 652103008329 AsmA-like C-terminal region; Region: AsmA_2; cl15864 652103008330 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 652103008331 catalytic triad [active] 652103008332 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 652103008333 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103008334 peptide chain release factor 2; Validated; Region: prfB; PRK00578 652103008335 RF-1 domain; Region: RF-1; cl02875 652103008336 RF-1 domain; Region: RF-1; cl02875 652103008337 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 652103008338 Transglycosylase; Region: Transgly; cl07896 652103008339 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103008340 AMIN domain; Region: AMIN; pfam11741 652103008341 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 652103008342 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 652103008343 active site 652103008344 metal binding site [ion binding]; metal-binding site 652103008345 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 652103008346 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 652103008347 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 652103008348 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 652103008349 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 652103008350 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 652103008351 aspartate aminotransferase; Provisional; Region: PRK05764 652103008352 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 652103008353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103008354 homodimer interface [polypeptide binding]; other site 652103008355 catalytic residue [active] 652103008356 Peptidase family M48; Region: Peptidase_M48; cl12018 652103008357 Tetratricopeptide repeat; Region: TPR_16; pfam13432 652103008358 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 652103008359 binding surface 652103008360 TPR motif; other site 652103008361 BA14K-like protein; Region: BA14K; pfam07886 652103008362 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 652103008363 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 652103008364 dimer interface [polypeptide binding]; other site 652103008365 decamer (pentamer of dimers) interface [polypeptide binding]; other site 652103008366 catalytic triad [active] 652103008367 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 652103008368 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103008369 catalytic residues [active] 652103008370 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103008371 Helix-turn-helix domains; Region: HTH; cl00088 652103008372 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 652103008373 Cation efflux family; Region: Cation_efflux; cl00316 652103008374 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 652103008375 trimer interface [polypeptide binding]; other site 652103008376 active site 652103008377 dimer interface [polypeptide binding]; other site 652103008378 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 652103008379 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 652103008380 carboxyltransferase (CT) interaction site; other site 652103008381 biotinylation site [posttranslational modification]; other site 652103008382 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 652103008383 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103008384 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103008385 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103008386 CHASE3 domain; Region: CHASE3; cl05000 652103008387 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 652103008388 dimer interface [polypeptide binding]; other site 652103008389 phosphorylation site [posttranslational modification] 652103008390 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 652103008391 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 652103008392 ATP binding site [chemical binding]; other site 652103008393 Mg2+ binding site [ion binding]; other site 652103008394 G-X-G motif; other site 652103008395 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103008396 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008397 active site 652103008398 phosphorylation site [posttranslational modification] 652103008399 intermolecular recognition site; other site 652103008400 dimerization interface [polypeptide binding]; other site 652103008401 Response regulator receiver domain; Region: Response_reg; pfam00072 652103008402 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008403 active site 652103008404 phosphorylation site [posttranslational modification] 652103008405 intermolecular recognition site; other site 652103008406 dimerization interface [polypeptide binding]; other site 652103008407 Histidine kinase; Region: HisKA_2; cl06527 652103008408 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 652103008409 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 652103008410 ATP binding site [chemical binding]; other site 652103008411 Mg2+ binding site [ion binding]; other site 652103008412 G-X-G motif; other site 652103008413 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103008414 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103008415 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 652103008416 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103008417 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 652103008418 substrate binding pocket [chemical binding]; other site 652103008419 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103008420 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 652103008421 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 652103008422 conserved cys residue [active] 652103008423 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008424 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 652103008425 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 652103008426 conserved cys residue [active] 652103008427 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 652103008428 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 652103008429 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103008430 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103008431 catalytic residue [active] 652103008432 Porin subfamily; Region: Porin_2; pfam02530 652103008433 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 652103008434 dimer interface [polypeptide binding]; other site 652103008435 conserved gate region; other site 652103008436 putative PBP binding loops; other site 652103008437 ABC-ATPase subunit interface; other site 652103008438 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103008439 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 652103008440 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 652103008441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008442 Walker A/P-loop; other site 652103008443 ATP binding site [chemical binding]; other site 652103008444 Q-loop/lid; other site 652103008445 ABC transporter signature motif; other site 652103008446 Walker B; other site 652103008447 D-loop; other site 652103008448 H-loop/switch region; other site 652103008449 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103008450 classical (c) SDRs; Region: SDR_c; cd05233 652103008451 NAD(P) binding site [chemical binding]; other site 652103008452 active site 652103008453 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103008454 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 652103008455 active site 652103008456 catalytic triad [active] 652103008457 dimer interface [polypeptide binding]; other site 652103008458 Second nitrilase domain of an uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_1_R2; cd07579 652103008459 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103008460 putative active site [active] 652103008461 catalytic triad [active] 652103008462 putative dimer interface [polypeptide binding]; other site 652103008463 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 652103008464 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 652103008465 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103008466 Walker A/P-loop; other site 652103008467 ATP binding site [chemical binding]; other site 652103008468 Q-loop/lid; other site 652103008469 ABC transporter signature motif; other site 652103008470 Walker B; other site 652103008471 D-loop; other site 652103008472 H-loop/switch region; other site 652103008473 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103008474 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103008475 Walker A/P-loop; other site 652103008476 ATP binding site [chemical binding]; other site 652103008477 Q-loop/lid; other site 652103008478 ABC transporter signature motif; other site 652103008479 Walker B; other site 652103008480 D-loop; other site 652103008481 H-loop/switch region; other site 652103008482 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 652103008483 TM-ABC transporter signature motif; other site 652103008484 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 652103008485 TM-ABC transporter signature motif; other site 652103008486 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103008487 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_Amide_Urea_BP_like; cd06356 652103008488 putative ligand binding site [chemical binding]; other site 652103008489 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 652103008490 ANTAR domain; Region: ANTAR; cl04297 652103008491 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103008492 Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family; Region: PBP1_AmiC; cd06357 652103008493 ligand binding site [chemical binding]; other site 652103008494 regulator interaction site; other site 652103008495 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 652103008496 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 652103008497 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103008498 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 652103008499 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 652103008500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008501 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 652103008502 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 652103008503 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 652103008504 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 652103008505 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 652103008506 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 652103008507 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 652103008508 ATP cone domain; Region: ATP-cone; pfam03477 652103008509 Class III ribonucleotide reductase; Region: RNR_III; cd01675 652103008510 effector binding site; other site 652103008511 active site 652103008512 Zn binding site [ion binding]; other site 652103008513 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 652103008514 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 652103008515 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 652103008516 FeS/SAM binding site; other site 652103008517 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 652103008518 GAF domain; Region: GAF; cl15785 652103008519 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 652103008520 Walker A motif; other site 652103008521 ATP binding site [chemical binding]; other site 652103008522 Walker B motif; other site 652103008523 arginine finger; other site 652103008524 nitrogenase reductase; Reviewed; Region: nifH; PRK13233 652103008525 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 652103008526 Nucleotide-binding sites [chemical binding]; other site 652103008527 Walker A motif; other site 652103008528 Switch I region of nucleotide binding site; other site 652103008529 Fe4S4 binding sites [ion binding]; other site 652103008530 Switch II region of nucleotide binding site; other site 652103008531 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 652103008532 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 652103008533 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; cl03910 652103008534 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 652103008535 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103008536 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 652103008537 Fe-only nitrogenase accessory protein AnfO; Region: anfO_nitrog; TIGR02940 652103008538 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 652103008539 putative active site pocket [active] 652103008540 dimerization interface [polypeptide binding]; other site 652103008541 putative catalytic residue [active] 652103008542 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103008543 Dinitrogenase reductase ADP-ribosyltransferase (DRAT); Region: DRAT; pfam07357 652103008544 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103008545 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 652103008546 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103008547 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008548 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 652103008549 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008550 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008551 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 652103008552 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103008553 active site 652103008554 phosphorylation site [posttranslational modification] 652103008555 intermolecular recognition site; other site 652103008556 dimerization interface [polypeptide binding]; other site 652103008557 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 652103008558 DNA binding site [nucleotide binding] 652103008559 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 652103008560 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 652103008561 dimer interface [polypeptide binding]; other site 652103008562 phosphorylation site [posttranslational modification] 652103008563 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 652103008564 ATP binding site [chemical binding]; other site 652103008565 Mg2+ binding site [ion binding]; other site 652103008566 G-X-G motif; other site 652103008567 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103008568 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 652103008569 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 652103008570 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 652103008571 Cytochrome c; Region: Cytochrom_C; cl11414 652103008572 Sulphur transport; Region: Sulf_transp; cl01018 652103008573 Cytochrome c; Region: Cytochrom_C; cl11414 652103008574 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 652103008575 Moco binding site; other site 652103008576 metal coordination site [ion binding]; other site 652103008577 dimerization interface [polypeptide binding]; other site 652103008578 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 652103008579 active site 652103008580 metal binding site [ion binding]; metal-binding site 652103008581 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103008582 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 652103008583 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 652103008584 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 652103008585 Cytochrome c [Energy production and conversion]; Region: COG3258 652103008586 Cytochrome c; Region: Cytochrom_C; cl11414 652103008587 Domain of unknown function (DUF336); Region: DUF336; cl01249 652103008588 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 652103008589 catalytic residues [active] 652103008590 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 652103008591 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103008592 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 652103008593 dimerization interface [polypeptide binding]; other site 652103008594 putative DNA binding site [nucleotide binding]; other site 652103008595 putative Zn2+ binding site [ion binding]; other site 652103008596 Sulphur transport; Region: Sulf_transp; cl01018 652103008597 Sulphur transport; Region: Sulf_transp; cl01018 652103008598 DsrE/DsrF-like family; Region: DrsE; cl00672 652103008599 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 652103008600 FAD binding pocket [chemical binding]; other site 652103008601 FAD binding motif [chemical binding]; other site 652103008602 phosphate binding motif [ion binding]; other site 652103008603 NAD binding pocket [chemical binding]; other site 652103008604 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 652103008605 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103008606 Walker A/P-loop; other site 652103008607 ATP binding site [chemical binding]; other site 652103008608 Q-loop/lid; other site 652103008609 ABC transporter signature motif; other site 652103008610 Walker B; other site 652103008611 D-loop; other site 652103008612 H-loop/switch region; other site 652103008613 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 652103008614 ABC-ATPase subunit interface; other site 652103008615 dimer interface [polypeptide binding]; other site 652103008616 putative PBP binding regions; other site 652103008617 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 652103008618 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 652103008619 intersubunit interface [polypeptide binding]; other site 652103008620 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103008621 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103008622 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 652103008623 N-terminal plug; other site 652103008624 ligand-binding site [chemical binding]; other site 652103008625 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103008626 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 652103008627 N-terminal plug; other site 652103008628 ligand-binding site [chemical binding]; other site 652103008629 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103008630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008631 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103008632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103008633 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103008634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008635 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103008636 NAD(P) binding site [chemical binding]; other site 652103008637 active site 652103008638 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103008639 AMP-binding enzyme; Region: AMP-binding; cl15778 652103008640 AMP-binding enzyme; Region: AMP-binding; cl15778 652103008641 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 652103008642 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103008643 Walker A/P-loop; other site 652103008644 ATP binding site [chemical binding]; other site 652103008645 Q-loop/lid; other site 652103008646 ABC transporter signature motif; other site 652103008647 Walker B; other site 652103008648 D-loop; other site 652103008649 H-loop/switch region; other site 652103008650 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103008651 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103008652 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103008653 Walker A/P-loop; other site 652103008654 ATP binding site [chemical binding]; other site 652103008655 Q-loop/lid; other site 652103008656 ABC transporter signature motif; other site 652103008657 Walker B; other site 652103008658 D-loop; other site 652103008659 H-loop/switch region; other site 652103008660 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103008661 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 652103008662 dimer interface [polypeptide binding]; other site 652103008663 conserved gate region; other site 652103008664 putative PBP binding loops; other site 652103008665 ABC-ATPase subunit interface; other site 652103008666 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103008667 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 652103008668 dimer interface [polypeptide binding]; other site 652103008669 conserved gate region; other site 652103008670 ABC-ATPase subunit interface; other site 652103008671 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 652103008672 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 652103008673 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 652103008674 CoenzymeA binding site [chemical binding]; other site 652103008675 subunit interaction site [polypeptide binding]; other site 652103008676 PHB binding site; other site 652103008677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008678 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103008679 NAD(P) binding site [chemical binding]; other site 652103008680 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 652103008681 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 652103008682 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 652103008683 metal binding site [ion binding]; metal-binding site 652103008684 putative dimer interface [polypeptide binding]; other site 652103008685 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 652103008686 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 652103008687 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103008688 catalytic residue [active] 652103008689 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103008690 Helix-turn-helix domains; Region: HTH; cl00088 652103008691 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 652103008692 dimerization interface [polypeptide binding]; other site 652103008693 putative DNA binding site [nucleotide binding]; other site 652103008694 putative Zn2+ binding site [ion binding]; other site 652103008695 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 652103008696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103008697 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103008698 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 652103008699 IucA / IucC family; Region: IucA_IucC; pfam04183 652103008700 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 652103008701 IucA / IucC family; Region: IucA_IucC; pfam04183 652103008702 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 652103008703 acyl-CoA synthetase; Validated; Region: PRK08308 652103008704 AMP-binding enzyme; Region: AMP-binding; cl15778 652103008705 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103008706 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 652103008707 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 652103008708 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 652103008709 putative ligand binding residues [chemical binding]; other site 652103008710 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 652103008711 ABC-ATPase subunit interface; other site 652103008712 dimer interface [polypeptide binding]; other site 652103008713 putative PBP binding regions; other site 652103008714 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 652103008715 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 652103008716 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103008717 Walker A/P-loop; other site 652103008718 ATP binding site [chemical binding]; other site 652103008719 Q-loop/lid; other site 652103008720 ABC transporter signature motif; other site 652103008721 Walker B; other site 652103008722 D-loop; other site 652103008723 H-loop/switch region; other site 652103008724 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 652103008725 FecR protein; Region: FecR; pfam04773 652103008726 Secretin and TonB N terminus short domain; Region: STN; cl06624 652103008727 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 652103008728 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; cl00284 652103008729 putative acetyltransferase YhhY; Provisional; Region: PRK10140 652103008730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103008731 Coenzyme A binding pocket [chemical binding]; other site 652103008732 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103008733 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 652103008734 N-terminal plug; other site 652103008735 ligand-binding site [chemical binding]; other site 652103008736 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 652103008737 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 652103008738 Ligand Binding Site [chemical binding]; other site 652103008739 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 652103008740 Ligand Binding Site [chemical binding]; other site 652103008741 Citrate transporter; Region: CitMHS; pfam03600 652103008742 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 652103008743 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103008744 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 652103008745 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103008746 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 652103008747 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103008748 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103008749 Protein of unknown function (DUF502); Region: DUF502; cl01107 652103008750 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 652103008751 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 652103008752 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 652103008753 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103008754 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12662 652103008755 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103008756 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00200 652103008757 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103008758 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 652103008759 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103008760 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103008761 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008762 Protein export membrane protein; Region: SecD_SecF; cl14618 652103008763 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103008764 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008765 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103008766 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 652103008767 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 652103008768 Trp docking motif [polypeptide binding]; other site 652103008769 putative active site [active] 652103008770 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 652103008771 metal binding site 2 [ion binding]; metal-binding site 652103008772 putative DNA binding helix; other site 652103008773 metal binding site 1 [ion binding]; metal-binding site 652103008774 dimer interface [polypeptide binding]; other site 652103008775 structural Zn2+ binding site [ion binding]; other site 652103008776 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 652103008777 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 652103008778 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103008779 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103008780 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 652103008781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103008782 Helix-turn-helix domains; Region: HTH; cl00088 652103008783 CHASE3 domain; Region: CHASE3; cl05000 652103008784 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 652103008785 dimer interface [polypeptide binding]; other site 652103008786 phosphorylation site [posttranslational modification] 652103008787 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 652103008788 ATP binding site [chemical binding]; other site 652103008789 Mg2+ binding site [ion binding]; other site 652103008790 G-X-G motif; other site 652103008791 CHASE2 domain; Region: CHASE2; cl01732 652103008792 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103008793 cyclase homology domain; Region: CHD; cd07302 652103008794 nucleotidyl binding site; other site 652103008795 metal binding site [ion binding]; metal-binding site 652103008796 dimer interface [polypeptide binding]; other site 652103008797 FecR protein; Region: FecR; pfam04773 652103008798 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 652103008799 binding surface 652103008800 TPR motif; other site 652103008801 Tetratricopeptide repeat; Region: TPR_9; pfam13371 652103008802 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 652103008803 hydrophobic ligand binding site; other site 652103008804 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 652103008805 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 652103008806 G1 box; other site 652103008807 putative GEF interaction site [polypeptide binding]; other site 652103008808 GTP/Mg2+ binding site [chemical binding]; other site 652103008809 Switch I region; other site 652103008810 G2 box; other site 652103008811 G3 box; other site 652103008812 Switch II region; other site 652103008813 G4 box; other site 652103008814 G5 box; other site 652103008815 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 652103008816 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 652103008817 Phosphate transporter family; Region: PHO4; cl00396 652103008818 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 652103008819 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 652103008820 Plant ATP synthase F0; Region: YMF19; cl07975 652103008821 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 652103008822 TM-ABC transporter signature motif; other site 652103008823 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 652103008824 TM-ABC transporter signature motif; other site 652103008825 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103008826 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103008827 Walker A/P-loop; other site 652103008828 ATP binding site [chemical binding]; other site 652103008829 Q-loop/lid; other site 652103008830 ABC transporter signature motif; other site 652103008831 Walker B; other site 652103008832 D-loop; other site 652103008833 H-loop/switch region; other site 652103008834 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103008835 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103008836 Walker A/P-loop; other site 652103008837 ATP binding site [chemical binding]; other site 652103008838 Q-loop/lid; other site 652103008839 ABC transporter signature motif; other site 652103008840 Walker B; other site 652103008841 D-loop; other site 652103008842 H-loop/switch region; other site 652103008843 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 652103008844 ArsC family; Region: ArsC; pfam03960 652103008845 putative catalytic residues [active] 652103008846 pyruvate kinase; Validated; Region: PRK08187 652103008847 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103008848 domain interfaces; other site 652103008849 active site 652103008850 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 652103008851 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 652103008852 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103008853 Flavin Reductases; Region: FlaRed; cl00801 652103008854 AAA domain; Region: AAA_28; pfam13521 652103008855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008856 Cupin domain; Region: Cupin_2; cl09118 652103008857 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103008858 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 652103008859 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 652103008860 Helix-turn-helix domains; Region: HTH; cl00088 652103008861 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 652103008862 RES domain; Region: RES; cl02411 652103008863 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 652103008864 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103008865 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103008866 Transposase domain (DUF772); Region: DUF772; cl15789 652103008867 Transposase domain (DUF772); Region: DUF772; cl15789 652103008868 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 652103008869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103008870 active site 652103008871 phosphorylation site [posttranslational modification] 652103008872 intermolecular recognition site; other site 652103008873 dimerization interface [polypeptide binding]; other site 652103008874 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 652103008875 DNA binding residues [nucleotide binding] 652103008876 dimerization interface [polypeptide binding]; other site 652103008877 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 652103008878 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 652103008879 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 652103008880 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 652103008881 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 652103008882 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008883 dimer interface [polypeptide binding]; other site 652103008884 putative CheW interface [polypeptide binding]; other site 652103008885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008886 dimer interface [polypeptide binding]; other site 652103008887 putative CheW interface [polypeptide binding]; other site 652103008888 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 652103008889 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 652103008890 PAS fold; Region: PAS_3; pfam08447 652103008891 putative active site [active] 652103008892 heme pocket [chemical binding]; other site 652103008893 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103008894 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 652103008895 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 652103008896 dimerization interface [polypeptide binding]; other site 652103008897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008898 dimer interface [polypeptide binding]; other site 652103008899 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103008900 putative CheW interface [polypeptide binding]; other site 652103008901 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 652103008902 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 652103008903 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 652103008904 VirB7 interaction site; other site 652103008905 VirB8 protein; Region: VirB8; cl01500 652103008906 conjugal transfer protein TrbL; Provisional; Region: PRK13875 652103008907 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 652103008908 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314; cl02193 652103008909 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 652103008910 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 652103008911 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008913 Walker B; other site 652103008914 D-loop; other site 652103008915 H-loop/switch region; other site 652103008916 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 652103008917 TrbC/VIRB2 family; Region: TrbC; cl01583 652103008918 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 652103008919 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008921 Walker A motif; other site 652103008922 ATP binding site [chemical binding]; other site 652103008923 Walker B motif; other site 652103008924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103008925 metal binding site [ion binding]; metal-binding site 652103008926 active site 652103008927 I-site; other site 652103008928 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 652103008929 PAS domain; Region: PAS_9; pfam13426 652103008930 putative active site [active] 652103008931 heme pocket [chemical binding]; other site 652103008932 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 652103008933 PAS domain; Region: PAS_9; pfam13426 652103008934 putative active site [active] 652103008935 heme pocket [chemical binding]; other site 652103008936 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 652103008937 PAS domain; Region: PAS_9; pfam13426 652103008938 putative active site [active] 652103008939 heme pocket [chemical binding]; other site 652103008940 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103008941 dimer interface [polypeptide binding]; other site 652103008942 putative CheW interface [polypeptide binding]; other site 652103008943 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103008944 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103008945 active site 652103008946 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 652103008947 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 652103008948 Walker A/P-loop; other site 652103008949 ATP binding site [chemical binding]; other site 652103008950 Q-loop/lid; other site 652103008951 ABC transporter signature motif; other site 652103008952 Walker B; other site 652103008953 D-loop; other site 652103008954 H-loop/switch region; other site 652103008955 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 652103008956 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 652103008957 TM-ABC transporter signature motif; other site 652103008958 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 652103008959 Strictosidine synthase; Region: Str_synth; pfam03088 652103008960 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 652103008961 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 652103008962 ligand binding site [chemical binding]; other site 652103008963 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 652103008964 TM-ABC transporter signature motif; other site 652103008965 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103008966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103008967 DNA-binding site [nucleotide binding]; DNA binding site 652103008968 FCD domain; Region: FCD; cl11656 652103008969 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 652103008970 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 652103008971 Walker A motif; other site 652103008972 ATP binding site [chemical binding]; other site 652103008973 Walker B motif; other site 652103008974 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 652103008975 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 652103008976 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103008977 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103008978 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 652103008979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 652103008980 catalytic residue [active] 652103008981 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 652103008982 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 652103008983 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 652103008984 Replication initiator protein A; Region: RPA; cl02339 652103008985 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 652103008986 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103008987 Uncharacterized conserved protein (DUF2285); Region: DUF2285; cl02246 652103008988 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 652103008989 non-specific DNA binding site [nucleotide binding]; other site 652103008990 salt bridge; other site 652103008991 sequence-specific DNA binding site [nucleotide binding]; other site 652103008992 Protein of unknown function (DUF736); Region: DUF736; cl02303 652103008993 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 652103008994 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 652103008995 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 652103008996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103008997 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103008999 ParB-like nuclease domain; Region: ParBc; cl02129 652103009000 plasmid partitioning protein; Provisional; Region: PRK13832 652103009001 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 652103009002 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 652103009003 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 652103009004 integrase; Provisional; Region: PRK09692 652103009005 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 652103009006 active site 652103009007 Int/Topo IB signature motif; other site 652103009008 GMP synthase; Reviewed; Region: guaA; PRK00074 652103009009 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 652103009010 AMP/PPi binding site [chemical binding]; other site 652103009011 candidate oxyanion hole; other site 652103009012 catalytic triad [active] 652103009013 potential glutamine specificity residues [chemical binding]; other site 652103009014 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 652103009015 ATP Binding subdomain [chemical binding]; other site 652103009016 Ligand Binding sites [chemical binding]; other site 652103009017 Dimerization subdomain; other site 652103009018 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 652103009019 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103009020 Prostaglandin dehydrogenases; Region: PGDH; cd05288 652103009021 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 652103009022 NAD(P) binding site [chemical binding]; other site 652103009023 substrate binding site [chemical binding]; other site 652103009024 dimer interface [polypeptide binding]; other site 652103009025 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 652103009026 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 652103009027 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 652103009028 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 652103009029 active site 652103009030 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 652103009031 putative transporter; Provisional; Region: PRK10504 652103009032 putative substrate translocation pore; other site 652103009033 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 652103009034 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103009035 S-adenosylmethionine binding site [chemical binding]; other site 652103009036 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 652103009037 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103009038 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103009039 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103009040 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103009041 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 652103009042 putative ligand binding site [chemical binding]; other site 652103009043 (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 652103009044 active site 652103009045 catalytic site [active] 652103009046 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 652103009047 ABC transporter ATPase component; Reviewed; Region: PRK11147 652103009048 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103009049 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103009050 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 652103009051 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 652103009052 dimer interface [polypeptide binding]; other site 652103009053 active site 652103009054 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103009055 substrate binding site [chemical binding]; other site 652103009056 catalytic residue [active] 652103009057 HI0933-like protein; Region: HI0933_like; pfam03486 652103009058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009059 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103009060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009061 NAD(P) binding site [chemical binding]; other site 652103009062 active site 652103009063 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 652103009064 putative active site [active] 652103009065 putative catalytic site [active] 652103009066 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103009067 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 652103009068 NAD(P) binding site [chemical binding]; other site 652103009069 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 652103009070 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 652103009071 putative catalytic residue [active] 652103009072 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 652103009073 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 652103009074 C-terminal domain interface [polypeptide binding]; other site 652103009075 GSH binding site (G-site) [chemical binding]; other site 652103009076 dimer interface [polypeptide binding]; other site 652103009077 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 652103009078 N-terminal domain interface [polypeptide binding]; other site 652103009079 putative dimer interface [polypeptide binding]; other site 652103009080 active site 652103009081 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 652103009082 substrate binding site [chemical binding]; other site 652103009083 methionine synthase; Provisional; Region: PRK01207 652103009084 THF binding site; other site 652103009085 zinc-binding site [ion binding]; other site 652103009086 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 652103009087 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 652103009088 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 652103009089 putative MPT binding site; other site 652103009090 Uncharacterized conserved protein [Function unknown]; Region: COG2308 652103009091 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 652103009092 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 652103009093 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103009094 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 652103009095 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103009096 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 652103009097 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 652103009098 active site 652103009099 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103009100 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 652103009101 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103009102 classical (c) SDRs; Region: SDR_c; cd05233 652103009103 NAD(P) binding site [chemical binding]; other site 652103009104 active site 652103009105 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; cl02325 652103009106 Cupin domain; Region: Cupin_2; cl09118 652103009107 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 652103009108 dimer interface [polypeptide binding]; other site 652103009109 active site 652103009110 catalytic residue [active] 652103009111 metal binding site [ion binding]; metal-binding site 652103009112 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 652103009113 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 652103009114 Nucleoside recognition; Region: Gate; cl00486 652103009115 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 652103009116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009117 AAA domain; Region: AAA_33; pfam13671 652103009118 Usg-like family; Region: Usg; cl11567 652103009119 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 652103009120 oligomerisation interface [polypeptide binding]; other site 652103009121 mobile loop; other site 652103009122 roof hairpin; other site 652103009123 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 652103009124 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 652103009125 ring oligomerisation interface [polypeptide binding]; other site 652103009126 ATP/Mg binding site [chemical binding]; other site 652103009127 stacking interactions; other site 652103009128 hinge regions; other site 652103009129 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 652103009130 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 652103009131 non-specific DNA binding site [nucleotide binding]; other site 652103009132 salt bridge; other site 652103009133 sequence-specific DNA binding site [nucleotide binding]; other site 652103009134 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 652103009135 non-specific DNA binding site [nucleotide binding]; other site 652103009136 salt bridge; other site 652103009137 sequence-specific DNA binding site [nucleotide binding]; other site 652103009138 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 652103009139 hypothetical protein; Provisional; Region: PRK10396 652103009140 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 652103009141 SEC-C motif; Region: SEC-C; pfam02810 652103009142 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 652103009143 dimerization interface [polypeptide binding]; other site 652103009144 putative DNA binding site [nucleotide binding]; other site 652103009145 putative Zn2+ binding site [ion binding]; other site 652103009146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009147 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103009148 NAD(P) binding site [chemical binding]; other site 652103009149 active site 652103009150 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 652103009151 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103009152 Dehydratase family; Region: ILVD_EDD; cl00340 652103009153 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 652103009154 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 652103009155 NAD binding site [chemical binding]; other site 652103009156 catalytic residues [active] 652103009157 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 652103009158 PAS fold; Region: PAS_7; pfam12860 652103009159 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103009160 metal binding site [ion binding]; metal-binding site 652103009161 active site 652103009162 I-site; other site 652103009163 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 652103009164 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 652103009165 EamA-like transporter family; Region: EamA; cl01037 652103009166 EamA-like transporter family; Region: EamA; cl01037 652103009167 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 652103009168 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103009169 active site 652103009170 catalytic tetrad [active] 652103009171 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 652103009172 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 652103009173 dimer interface [polypeptide binding]; other site 652103009174 active site 652103009175 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103009176 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 652103009177 AMP-binding enzyme; Region: AMP-binding; cl15778 652103009178 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103009179 enoyl-CoA hydratase; Provisional; Region: PRK05995 652103009180 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 652103009181 substrate binding site [chemical binding]; other site 652103009182 oxyanion hole (OAH) forming residues; other site 652103009183 trimer interface [polypeptide binding]; other site 652103009184 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 652103009185 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103009186 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103009187 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103009188 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 652103009189 carboxyltransferase (CT) interaction site; other site 652103009190 biotinylation site [posttranslational modification]; other site 652103009191 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 652103009192 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103009193 acyl-CoA synthetase; Validated; Region: PRK08316 652103009194 AMP-binding enzyme; Region: AMP-binding; cl15778 652103009195 AMP-binding enzyme; Region: AMP-binding; cl15778 652103009196 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 652103009197 Helix-turn-helix domain; Region: HTH_18; pfam12833 652103009198 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103009199 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 652103009200 putative C-terminal domain interface [polypeptide binding]; other site 652103009201 putative GSH binding site (G-site) [chemical binding]; other site 652103009202 putative dimer interface [polypeptide binding]; other site 652103009203 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103009204 N-terminal domain interface [polypeptide binding]; other site 652103009205 dimer interface [polypeptide binding]; other site 652103009206 substrate binding pocket (H-site) [chemical binding]; other site 652103009207 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009209 active site 652103009210 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009211 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009212 active site 652103009213 Cytochrome c; Region: Cytochrom_C; cl11414 652103009214 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 652103009215 dimer interface [polypeptide binding]; other site 652103009216 phosphorylation site [posttranslational modification] 652103009217 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 652103009218 ATP binding site [chemical binding]; other site 652103009219 G-X-G motif; other site 652103009220 Response regulator receiver domain; Region: Response_reg; pfam00072 652103009221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103009222 active site 652103009223 phosphorylation site [posttranslational modification] 652103009224 intermolecular recognition site; other site 652103009225 dimerization interface [polypeptide binding]; other site 652103009226 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 652103009227 active site 652103009228 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103009229 Gram-negative bacterial tonB protein; Region: TonB; cl10048 652103009230 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 652103009231 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103009232 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 652103009233 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 652103009234 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 652103009235 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 652103009236 N-terminal plug; other site 652103009237 ligand-binding site [chemical binding]; other site 652103009238 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 652103009239 NAD(P) binding site [chemical binding]; other site 652103009240 putative active site [active] 652103009241 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 652103009242 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 652103009243 FeS/SAM binding site; other site 652103009244 Hemin uptake protein hemP; Region: hemP; cl10043 652103009245 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 652103009246 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 652103009247 putative hemin binding site; other site 652103009248 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 652103009249 dimer interface [polypeptide binding]; other site 652103009250 putative PBP binding regions; other site 652103009251 ABC-ATPase subunit interface; other site 652103009252 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 652103009253 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 652103009254 Walker A/P-loop; other site 652103009255 ATP binding site [chemical binding]; other site 652103009256 Q-loop/lid; other site 652103009257 ABC transporter signature motif; other site 652103009258 Walker B; other site 652103009259 D-loop; other site 652103009260 H-loop/switch region; other site 652103009261 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103009262 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 652103009263 cyanate hydratase; Validated; Region: PRK02866 652103009264 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 652103009265 oligomer interface [polypeptide binding]; other site 652103009266 active site 652103009267 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103009268 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 652103009269 Walker A/P-loop; other site 652103009270 ATP binding site [chemical binding]; other site 652103009271 Q-loop/lid; other site 652103009272 ABC transporter signature motif; other site 652103009273 Walker B; other site 652103009274 D-loop; other site 652103009275 H-loop/switch region; other site 652103009276 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 652103009277 dimer interface [polypeptide binding]; other site 652103009278 conserved gate region; other site 652103009279 putative PBP binding loops; other site 652103009280 ABC-ATPase subunit interface; other site 652103009281 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103009282 NMT1-like family; Region: NMT1_2; cl15260 652103009283 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 652103009284 putative active site [active] 652103009285 heme pocket [chemical binding]; other site 652103009286 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 652103009287 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 652103009288 Walker A motif; other site 652103009289 ATP binding site [chemical binding]; other site 652103009290 Walker B motif; other site 652103009291 arginine finger; other site 652103009292 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009293 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009294 cobyric acid synthase; Provisional; Region: PRK00784 652103009295 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009296 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009297 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 652103009298 catalytic triad [active] 652103009299 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 652103009300 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 652103009301 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 652103009302 putative dimer interface [polypeptide binding]; other site 652103009303 active site pocket [active] 652103009304 putative cataytic base [active] 652103009305 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 652103009306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009307 CitB domain protein; Region: CitB; TIGR02484 652103009308 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 652103009309 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 652103009310 Precorrin-8X methylmutase; Region: CbiC; pfam02570 652103009311 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009312 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009313 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009314 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009315 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 652103009316 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 652103009317 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009318 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009319 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103009320 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 652103009321 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009322 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009323 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 652103009324 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 652103009325 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103009326 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103009327 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 652103009328 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 652103009329 intersubunit interface [polypeptide binding]; other site 652103009330 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 652103009331 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 652103009332 Copper resistance protein D; Region: CopD; cl00563 652103009333 ApbE family; Region: ApbE; cl00643 652103009334 NosL; Region: NosL; cl01769 652103009335 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103009336 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 652103009337 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 652103009338 Walker A/P-loop; other site 652103009339 ATP binding site [chemical binding]; other site 652103009340 Q-loop/lid; other site 652103009341 ABC transporter signature motif; other site 652103009342 Walker B; other site 652103009343 D-loop; other site 652103009344 H-loop/switch region; other site 652103009345 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 652103009346 nitrous-oxide reductase; Validated; Region: PRK02888 652103009347 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103009348 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 652103009349 FMN-binding domain; Region: FMN_bind; cl01081 652103009350 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 652103009351 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103009352 4Fe-4S binding domain; Region: Fer4_5; pfam12801 652103009353 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103009354 diiron binding motif [ion binding]; other site 652103009355 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 652103009356 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 652103009357 nudix motif; other site 652103009358 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 652103009359 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009360 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 652103009361 E3 interaction surface; other site 652103009362 lipoyl attachment site [posttranslational modification]; other site 652103009363 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009364 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 652103009365 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 652103009366 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103009367 Coenzyme A binding pocket [chemical binding]; other site 652103009368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103009369 ornithine decarboxylase; Provisional; Region: PRK13578 652103009370 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 652103009371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103009372 catalytic residue [active] 652103009373 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 652103009374 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 652103009375 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 652103009376 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 652103009377 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 652103009378 ATP binding site [chemical binding]; other site 652103009379 putative Mg++ binding site [ion binding]; other site 652103009380 Pseudomurein-binding repeat; Region: PMBR; pfam09373 652103009381 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 652103009382 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103009383 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103009384 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103009385 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103009386 2-isopropylmalate synthase; Validated; Region: PRK00915 652103009387 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 652103009388 active site 652103009389 catalytic residues [active] 652103009390 metal binding site [ion binding]; metal-binding site 652103009391 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 652103009392 biotin synthase; Region: bioB; TIGR00433 652103009393 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 652103009394 FeS/SAM binding site; other site 652103009395 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 652103009396 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103009397 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 652103009398 NMT1-like family; Region: NMT1_2; cl15260 652103009399 NMT1/THI5 like; Region: NMT1; pfam09084 652103009400 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 652103009401 dimer interface [polypeptide binding]; other site 652103009402 conserved gate region; other site 652103009403 ABC-ATPase subunit interface; other site 652103009404 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103009405 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103009406 Walker A/P-loop; other site 652103009407 ATP binding site [chemical binding]; other site 652103009408 Q-loop/lid; other site 652103009409 ABC transporter signature motif; other site 652103009410 Walker B; other site 652103009411 D-loop; other site 652103009412 H-loop/switch region; other site 652103009413 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009414 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 652103009415 Walker A/P-loop; other site 652103009416 ATP binding site [chemical binding]; other site 652103009417 Q-loop/lid; other site 652103009418 ABC transporter signature motif; other site 652103009419 Walker B; other site 652103009420 D-loop; other site 652103009421 H-loop/switch region; other site 652103009422 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 652103009423 dimer interface [polypeptide binding]; other site 652103009424 conserved gate region; other site 652103009425 ABC-ATPase subunit interface; other site 652103009426 NMT1-like family; Region: NMT1_2; cl15260 652103009427 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 652103009428 short chain dehydrogenase; Validated; Region: PRK06182 652103009429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009430 NAD(P) binding site [chemical binding]; other site 652103009431 active site 652103009432 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 652103009433 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103009434 putative ligand binding site [chemical binding]; other site 652103009435 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103009436 DNA-binding site [nucleotide binding]; DNA binding site 652103009437 FCD domain; Region: FCD; cl11656 652103009438 ketol-acid reductoisomerase; Provisional; Region: PRK05479 652103009439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009440 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 652103009441 LysE type translocator; Region: LysE; cl00565 652103009442 EamA-like transporter family; Region: EamA; cl01037 652103009443 EamA-like transporter family; Region: EamA; cl01037 652103009444 Protein required for attachment to host cells; Region: Host_attach; cl02398 652103009445 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 652103009446 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 652103009447 putative valine binding site [chemical binding]; other site 652103009448 dimer interface [polypeptide binding]; other site 652103009449 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 652103009450 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 652103009451 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103009452 PYR/PP interface [polypeptide binding]; other site 652103009453 dimer interface [polypeptide binding]; other site 652103009454 TPP binding site [chemical binding]; other site 652103009455 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103009456 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 652103009457 TPP-binding site [chemical binding]; other site 652103009458 dimer interface [polypeptide binding]; other site 652103009459 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 652103009460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009461 phosphoserine phosphatase SerB; Region: serB; TIGR00338 652103009462 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103009463 HerA helicase [Replication, recombination, and repair]; Region: COG0433 652103009464 Domain of unknown function DUF87; Region: DUF87; pfam01935 652103009465 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 652103009466 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103009467 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103009468 MgtC family; Region: MgtC; pfam02308 652103009469 Phosphopantetheine attachment site; Region: PP-binding; cl09936 652103009470 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 652103009471 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 652103009472 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 652103009473 active site 652103009474 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 652103009475 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 652103009476 dimer interface [polypeptide binding]; other site 652103009477 active site 652103009478 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009479 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103009480 NAD(P) binding site [chemical binding]; other site 652103009481 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 652103009482 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 652103009483 putative acyl-acceptor binding pocket; other site 652103009484 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 652103009485 B12 binding site [chemical binding]; other site 652103009486 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 652103009487 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 652103009488 FeS/SAM binding site; other site 652103009489 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 652103009490 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 652103009491 hypothetical protein; Provisional; Region: PRK08912 652103009492 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 652103009493 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103009494 homodimer interface [polypeptide binding]; other site 652103009495 catalytic residue [active] 652103009496 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 652103009497 active site residue [active] 652103009498 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 652103009499 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 652103009500 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103009501 ligand binding site [chemical binding]; other site 652103009502 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103009503 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 652103009504 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 652103009505 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 652103009506 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 652103009507 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103009508 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 652103009509 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 652103009510 Walker A/P-loop; other site 652103009511 ATP binding site [chemical binding]; other site 652103009512 Q-loop/lid; other site 652103009513 ABC transporter signature motif; other site 652103009514 Walker B; other site 652103009515 D-loop; other site 652103009516 H-loop/switch region; other site 652103009517 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 652103009518 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 652103009519 Cytochrome c; Region: Cytochrom_C; cl11414 652103009520 Cytochrome c [Energy production and conversion]; Region: COG3258 652103009521 Cytochrome c; Region: Cytochrom_C; cl11414 652103009522 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103009523 FAD binding domain; Region: FAD_binding_4; pfam01565 652103009524 hypothetical protein; Provisional; Region: PRK12474 652103009525 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103009526 PYR/PP interface [polypeptide binding]; other site 652103009527 dimer interface [polypeptide binding]; other site 652103009528 TPP binding site [chemical binding]; other site 652103009529 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 652103009530 TPP-binding site [chemical binding]; other site 652103009531 dimer interface [polypeptide binding]; other site 652103009532 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 652103009533 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 652103009534 active site 652103009535 catalytic residues [active] 652103009536 metal binding site [ion binding]; metal-binding site 652103009537 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 652103009538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103009539 Coenzyme A binding pocket [chemical binding]; other site 652103009540 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 652103009541 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 652103009542 active site 652103009543 HIGH motif; other site 652103009544 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 652103009545 KMSKS motif; other site 652103009546 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 652103009547 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103009548 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 652103009549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009550 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 652103009551 DNA binding residues [nucleotide binding] 652103009552 dimerization interface [polypeptide binding]; other site 652103009553 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103009554 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 652103009555 oligomeric interface; other site 652103009556 putative active site [active] 652103009557 homodimer interface [polypeptide binding]; other site 652103009558 NAD synthetase; Provisional; Region: PRK13981 652103009559 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 652103009560 multimer interface [polypeptide binding]; other site 652103009561 active site 652103009562 catalytic triad [active] 652103009563 protein interface 1 [polypeptide binding]; other site 652103009564 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 652103009565 homodimer interface [polypeptide binding]; other site 652103009566 NAD binding pocket [chemical binding]; other site 652103009567 ATP binding pocket [chemical binding]; other site 652103009568 Mg binding site [ion binding]; other site 652103009569 active-site loop [active] 652103009570 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 652103009571 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 652103009572 glutathione reductase; Validated; Region: PRK06116 652103009573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103009574 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 652103009575 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 652103009576 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 652103009577 tetramer (dimer of dimers) interface [polypeptide binding]; other site 652103009578 active site 652103009579 dimer interface [polypeptide binding]; other site 652103009580 phosphoglycolate phosphatase; Provisional; Region: PRK13222 652103009581 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 652103009582 motif II; other site 652103009583 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 652103009584 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 652103009585 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 652103009586 FeS/SAM binding site; other site 652103009587 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 652103009588 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103009589 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103009590 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103009591 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103009592 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103009593 Domain of unknown function DUF59; Region: DUF59; cl00941 652103009594 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 652103009595 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 652103009596 Walker A motif; other site 652103009597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009598 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 652103009599 NAD(P) binding pocket [chemical binding]; other site 652103009600 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 652103009601 dimer interface [polypeptide binding]; other site 652103009602 phosphorylation site [posttranslational modification] 652103009603 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 652103009604 ATP binding site [chemical binding]; other site 652103009605 Mg2+ binding site [ion binding]; other site 652103009606 G-X-G motif; other site 652103009607 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 652103009608 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 652103009609 catalytic motif [active] 652103009610 Catalytic residue [active] 652103009611 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 652103009612 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 652103009613 FMN binding site [chemical binding]; other site 652103009614 active site 652103009615 catalytic residues [active] 652103009616 substrate binding site [chemical binding]; other site 652103009617 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103009618 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009619 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009620 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 652103009621 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009622 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103009623 Helix-turn-helix domains; Region: HTH; cl00088 652103009624 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 652103009625 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 652103009626 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 652103009627 cyclase homology domain; Region: CHD; cd07302 652103009628 nucleotidyl binding site; other site 652103009629 metal binding site [ion binding]; metal-binding site 652103009630 dimer interface [polypeptide binding]; other site 652103009631 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 652103009632 nucleophile elbow; other site 652103009633 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103009634 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009635 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009636 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009637 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009638 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103009640 Helix-turn-helix domains; Region: HTH; cl00088 652103009641 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 652103009642 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 652103009643 HerA helicase [Replication, recombination, and repair]; Region: COG0433 652103009644 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 652103009645 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 652103009646 substrate binding site [chemical binding]; other site 652103009647 catalytic Zn binding site [ion binding]; other site 652103009648 NAD binding site [chemical binding]; other site 652103009649 structural Zn binding site [ion binding]; other site 652103009650 dimer interface [polypeptide binding]; other site 652103009651 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 652103009652 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 652103009653 FeS/SAM binding site; other site 652103009654 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 652103009655 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 652103009656 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 652103009657 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103009658 PqqA family; Region: PqqA; cl15372 652103009659 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 652103009660 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103009661 DNA-binding site [nucleotide binding]; DNA binding site 652103009662 FCD domain; Region: FCD; cl11656 652103009663 formyl-coenzyme A transferase; Provisional; Region: PRK05398 652103009664 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103009665 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 652103009666 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009667 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 652103009668 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 652103009669 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 652103009670 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 652103009671 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 652103009672 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 652103009673 FMN binding site [chemical binding]; other site 652103009674 substrate binding site [chemical binding]; other site 652103009675 putative catalytic residue [active] 652103009676 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 652103009677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009678 NAD(P) binding site [chemical binding]; other site 652103009679 Cation efflux family; Region: Cation_efflux; cl00316 652103009680 Cation efflux family; Region: Cation_efflux; cl00316 652103009681 Cation efflux family; Region: Cation_efflux; cl00316 652103009682 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 652103009683 PAS fold; Region: PAS_3; pfam08447 652103009684 putative active site [active] 652103009685 heme pocket [chemical binding]; other site 652103009686 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103009687 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 652103009688 dimer interface [polypeptide binding]; other site 652103009689 phosphorylation site [posttranslational modification] 652103009690 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 652103009691 ATP binding site [chemical binding]; other site 652103009692 Mg2+ binding site [ion binding]; other site 652103009693 G-X-G motif; other site 652103009694 Peptidase S8 family domain in Autotransporter serine proteases; Region: Peptidases_S8_Autotransporter_serine_protease_like; cd04848 652103009695 putative active site [active] 652103009696 catalytic triad [active] 652103009697 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 652103009698 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103009699 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 652103009700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103009701 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 652103009702 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103009703 metal binding triad; other site 652103009704 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103009705 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 652103009706 metal binding triad; other site 652103009707 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 652103009708 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 652103009709 dimerization interface [polypeptide binding]; other site 652103009710 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 652103009711 dimer interface [polypeptide binding]; other site 652103009712 phosphorylation site [posttranslational modification] 652103009713 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 652103009714 ATP binding site [chemical binding]; other site 652103009715 Mg2+ binding site [ion binding]; other site 652103009716 G-X-G motif; other site 652103009717 PAS fold; Region: PAS_3; pfam08447 652103009718 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 652103009719 putative active site [active] 652103009720 heme pocket [chemical binding]; other site 652103009721 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103009722 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103009723 dimer interface [polypeptide binding]; other site 652103009724 putative CheW interface [polypeptide binding]; other site 652103009725 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 652103009726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103009727 active site 652103009728 phosphorylation site [posttranslational modification] 652103009729 intermolecular recognition site; other site 652103009730 dimerization interface [polypeptide binding]; other site 652103009731 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 652103009732 DNA binding site [nucleotide binding] 652103009733 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103009734 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 652103009735 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 652103009736 protein binding site [polypeptide binding]; other site 652103009737 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 652103009738 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 652103009739 catalytic loop [active] 652103009740 iron binding site [ion binding]; other site 652103009741 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103009742 diiron binding motif [ion binding]; other site 652103009743 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103009744 diiron binding motif [ion binding]; other site 652103009745 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103009746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103009747 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 652103009748 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 652103009749 Predicted amidohydrolase [General function prediction only]; Region: COG0388 652103009750 multimer interface [polypeptide binding]; other site 652103009751 active site 652103009752 catalytic triad [active] 652103009753 dimer interface [polypeptide binding]; other site 652103009754 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103009755 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103009756 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 652103009757 FtsX-like permease family; Region: FtsX; cl15850 652103009758 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103009759 FtsX-like permease family; Region: FtsX; cl15850 652103009760 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103009761 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103009762 Walker A/P-loop; other site 652103009763 ATP binding site [chemical binding]; other site 652103009764 Q-loop/lid; other site 652103009765 ABC transporter signature motif; other site 652103009766 Walker B; other site 652103009767 D-loop; other site 652103009768 H-loop/switch region; other site 652103009769 Cytochrome C biogenesis protein; Region: CcmH; cl01179 652103009770 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 652103009771 CcmE; Region: CcmE; cl00994 652103009772 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 652103009773 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 652103009774 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 652103009775 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 652103009776 sensor protein PhoQ; Provisional; Region: PRK10815 652103009777 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 652103009778 ATP binding site [chemical binding]; other site 652103009779 Mg2+ binding site [ion binding]; other site 652103009780 G-X-G motif; other site 652103009781 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103009782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103009783 active site 652103009784 phosphorylation site [posttranslational modification] 652103009785 intermolecular recognition site; other site 652103009786 dimerization interface [polypeptide binding]; other site 652103009787 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 652103009788 DNA binding site [nucleotide binding] 652103009789 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 652103009790 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 652103009791 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 652103009792 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 652103009793 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 652103009794 Putative phage tail protein; Region: Phage-tail_3; pfam13550 652103009795 transcriptional regulator SlyA; Provisional; Region: PRK03573 652103009796 Helix-turn-helix domains; Region: HTH; cl00088 652103009797 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 652103009798 NlpC/P60 family; Region: NLPC_P60; cl11438 652103009799 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 652103009800 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 652103009801 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 652103009802 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103009803 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103009804 active site 652103009805 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 652103009806 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 652103009807 dimer interface [polypeptide binding]; other site 652103009808 active site 652103009809 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 652103009810 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 652103009811 NAD binding site [chemical binding]; other site 652103009812 homotetramer interface [polypeptide binding]; other site 652103009813 homodimer interface [polypeptide binding]; other site 652103009814 active site 652103009815 acetyl-CoA synthetase; Provisional; Region: PRK04319 652103009816 AMP-binding enzyme; Region: AMP-binding; cl15778 652103009817 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103009818 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 652103009819 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 652103009820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 652103009821 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 652103009822 DNA binding residues [nucleotide binding] 652103009823 dimerization interface [polypeptide binding]; other site 652103009824 Flagellar protein FlbT; Region: FlbT; cl11455 652103009825 flagellin; Provisional; Region: PRK14708 652103009826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103009827 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103009828 Domain of Unknown Function (DUF1522); Region: DUF1522; pfam07482 652103009829 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 652103009830 Phage-related minor tail protein [Function unknown]; Region: COG5281 652103009831 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 652103009832 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 652103009833 Phage major tail protein 2; Region: Phage_tail_2; cl11463 652103009834 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 652103009835 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 652103009836 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 652103009837 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 652103009838 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 652103009839 oligomerization interface [polypeptide binding]; other site 652103009840 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 652103009841 active site 652103009842 substrate binding sites [chemical binding]; other site 652103009843 Uncharacterized conserved protein [Function unknown]; Region: COG5323 652103009844 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 652103009845 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 652103009846 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103009847 cofactor binding site; other site 652103009848 DNA binding site [nucleotide binding] 652103009849 substrate interaction site [chemical binding]; other site 652103009850 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103009851 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 652103009852 additional DNA contacts [nucleotide binding]; other site 652103009853 mismatch recognition site; other site 652103009854 active site 652103009855 zinc binding site [ion binding]; other site 652103009856 DNA intercalation site [nucleotide binding]; other site 652103009857 Domain of unknown function (DUF2019); Region: DUF2019; pfam09450 652103009858 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 652103009859 Phage capsid family; Region: Phage_capsid; pfam05065 652103009860 Phage-related protein [Function unknown]; Region: COG4695; cl01923 652103009861 Phage portal protein; Region: Phage_portal; pfam04860 652103009862 Flp/Fap pilin component; Region: Flp_Fap; cl01585 652103009863 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103009864 NMT1-like family; Region: NMT1_2; cl15260 652103009865 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 652103009866 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 652103009867 putative substrate translocation pore; other site 652103009868 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 652103009869 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 652103009870 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 652103009871 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 652103009872 Protein of unknown function (DUF497); Region: DUF497; cl01108 652103009873 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103009874 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103009875 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103009876 Peptidase S8 family domain, uncharacterized subfamily 1; Region: Peptidases_S8_1; cd07487 652103009877 active site 652103009878 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 652103009879 active site 652103009880 nucleophile elbow; other site 652103009881 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 652103009882 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 652103009883 N-terminal plug; other site 652103009884 ligand-binding site [chemical binding]; other site 652103009885 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103009886 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103009887 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103009888 Helix-turn-helix domains; Region: HTH; cl00088 652103009889 Winged helix-turn helix; Region: HTH_29; pfam13551 652103009890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103009891 Helix-turn-helix domains; Region: HTH; cl00088 652103009892 Integrase core domain; Region: rve; cl01316 652103009893 Integrase core domain; Region: rve_3; cl15866 652103009894 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103009895 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 652103009896 putative ligand binding site [chemical binding]; other site 652103009897 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 652103009898 catalytic loop [active] 652103009899 iron binding site [ion binding]; other site 652103009900 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103009901 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103009902 Helix-turn-helix domains; Region: HTH; cl00088 652103009903 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 652103009904 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103009905 Flagellin N-methylase; Region: FliB; cl00497 652103009906 Transglycosylase; Region: Transgly; cl07896 652103009907 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 652103009908 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103009909 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 652103009910 Protein of unknown function (DUF1254); Region: DUF1254; cl02257 652103009911 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 652103009912 NodB motif; other site 652103009913 active site 652103009914 catalytic site [active] 652103009915 metal binding site [ion binding]; metal-binding site 652103009916 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 652103009917 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103009918 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 652103009919 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 652103009920 putative active site [active] 652103009921 heme pocket [chemical binding]; other site 652103009922 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 652103009923 dimer interface [polypeptide binding]; other site 652103009924 phosphorylation site [posttranslational modification] 652103009925 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 652103009926 ATP binding site [chemical binding]; other site 652103009927 Mg2+ binding site [ion binding]; other site 652103009928 G-X-G motif; other site 652103009929 Fe-S metabolism associated domain; Region: SufE; cl00951 652103009930 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103009931 Helix-turn-helix domains; Region: HTH; cl00088 652103009932 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103009933 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103009934 NAD(P) binding site [chemical binding]; other site 652103009935 active site 652103009936 Predicted transcriptional regulator [Transcription]; Region: COG4957 652103009937 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 652103009938 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 652103009939 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 652103009940 intersubunit interface [polypeptide binding]; other site 652103009941 active site 652103009942 Zn2+ binding site [ion binding]; other site 652103009943 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103009944 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 652103009945 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103009946 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 652103009947 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 652103009948 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103009949 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 652103009950 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 652103009951 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103009952 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 652103009953 N-terminal plug; other site 652103009954 ligand-binding site [chemical binding]; other site 652103009955 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 652103009956 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 652103009957 metal binding site [ion binding]; metal-binding site 652103009958 putative dimer interface [polypeptide binding]; other site 652103009959 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 652103009960 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 652103009961 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 652103009962 dihydropteroate synthase; Region: DHPS; TIGR01496 652103009963 substrate binding pocket [chemical binding]; other site 652103009964 dimer interface [polypeptide binding]; other site 652103009965 inhibitor binding site; inhibition site 652103009966 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 652103009967 homooctamer interface [polypeptide binding]; other site 652103009968 active site 652103009969 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 652103009970 catalytic center binding site [active] 652103009971 ATP binding site [chemical binding]; other site 652103009972 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 652103009973 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 652103009974 heterodimer interface [polypeptide binding]; other site 652103009975 substrate interaction site [chemical binding]; other site 652103009976 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 652103009977 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 652103009978 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 652103009979 active site 652103009980 substrate binding site [chemical binding]; other site 652103009981 coenzyme B12 binding site [chemical binding]; other site 652103009982 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 652103009983 B12 binding site [chemical binding]; other site 652103009984 cobalt ligand [ion binding]; other site 652103009985 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 652103009986 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 652103009987 putative active site [active] 652103009988 homotetrameric interface [polypeptide binding]; other site 652103009989 metal binding site [ion binding]; metal-binding site 652103009990 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 652103009991 active site 652103009992 NTP binding site [chemical binding]; other site 652103009993 metal binding triad [ion binding]; metal-binding site 652103009994 Protein of unknown function DUF86; Region: DUF86; cl01031 652103009995 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 652103009996 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 652103009997 membrane ATPase/protein kinase; Provisional; Region: PRK09435 652103009998 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 652103009999 Walker A; other site 652103010000 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 652103010001 putative substrate binding pocket [chemical binding]; other site 652103010002 AC domain interface; other site 652103010003 catalytic triad [active] 652103010004 AB domain interface; other site 652103010005 interchain disulfide; other site 652103010006 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 652103010007 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 652103010008 putative cofactor-binding repeat; Region: RR_fam_repeat; TIGR03807 652103010009 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 652103010010 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; cl00284 652103010011 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 652103010012 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 652103010013 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103010014 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103010015 dimer interface [polypeptide binding]; other site 652103010016 putative CheW interface [polypeptide binding]; other site 652103010017 TIGR03809 family protein; Region: TIGR03809 652103010018 RNA polymerase sigma factor; Provisional; Region: PRK12515 652103010019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103010020 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 652103010021 DNA binding residues [nucleotide binding] 652103010022 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010023 metal binding site [ion binding]; metal-binding site 652103010024 active site 652103010025 I-site; other site 652103010026 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; cl15419 652103010027 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103010028 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 652103010029 N-terminal plug; other site 652103010030 ligand-binding site [chemical binding]; other site 652103010031 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 652103010032 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 652103010033 N-terminal plug; other site 652103010034 ligand-binding site [chemical binding]; other site 652103010035 Protein of unknown function (DUF1109); Region: DUF1109; cl02071 652103010036 RNA polymerase sigma factor; Provisional; Region: PRK12512 652103010037 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103010038 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103010039 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103010040 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 652103010041 substrate binding site [chemical binding]; other site 652103010042 oxyanion hole (OAH) forming residues; other site 652103010043 trimer interface [polypeptide binding]; other site 652103010044 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 652103010045 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103010046 urea carboxylase; Region: urea_carbox; TIGR02712 652103010047 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 652103010048 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010049 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103010050 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010051 sensor kinase CusS; Provisional; Region: PRK09835 652103010052 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 652103010053 dimer interface [polypeptide binding]; other site 652103010054 phosphorylation site [posttranslational modification] 652103010055 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 652103010056 ATP binding site [chemical binding]; other site 652103010057 Mg2+ binding site [ion binding]; other site 652103010058 G-X-G motif; other site 652103010059 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103010060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010061 active site 652103010062 phosphorylation site [posttranslational modification] 652103010063 intermolecular recognition site; other site 652103010064 dimerization interface [polypeptide binding]; other site 652103010065 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 652103010066 DNA binding site [nucleotide binding] 652103010067 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 652103010068 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 652103010069 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103010070 putative active site [active] 652103010071 putative metal binding site [ion binding]; other site 652103010072 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 652103010073 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 652103010074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010075 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 652103010076 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 652103010077 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 652103010078 generic binding surface II; other site 652103010079 generic binding surface I; other site 652103010080 DNA Polymerase Y-family; Region: PolY_like; cd03468 652103010081 active site 652103010082 DNA binding site [nucleotide binding] 652103010083 Cell division inhibitor SulA; Region: SulA; cl01880 652103010084 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 652103010085 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 652103010086 FeS/SAM binding site; other site 652103010087 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 652103010088 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 652103010089 Fe-S cluster binding site [ion binding]; other site 652103010090 active site 652103010091 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 652103010092 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010093 putative ligand binding site [chemical binding]; other site 652103010094 Helix-turn-helix domains; Region: HTH; cl00088 652103010095 Winged helix-turn helix; Region: HTH_29; pfam13551 652103010096 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103010097 Helix-turn-helix domains; Region: HTH; cl00088 652103010098 Integrase core domain; Region: rve; cl01316 652103010099 Integrase core domain; Region: rve_3; cl15866 652103010100 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 652103010101 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 652103010102 MOFRL family; Region: MOFRL; pfam05161 652103010103 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 652103010104 cyclase homology domain; Region: CHD; cd07302 652103010105 nucleotidyl binding site; other site 652103010106 metal binding site [ion binding]; metal-binding site 652103010107 dimer interface [polypeptide binding]; other site 652103010108 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 652103010109 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 652103010110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010111 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103010112 Helix-turn-helix domains; Region: HTH; cl00088 652103010113 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 652103010114 TM-ABC transporter signature motif; other site 652103010115 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 652103010116 TM-ABC transporter signature motif; other site 652103010117 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103010118 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103010119 Walker A/P-loop; other site 652103010120 ATP binding site [chemical binding]; other site 652103010121 Q-loop/lid; other site 652103010122 ABC transporter signature motif; other site 652103010123 Walker B; other site 652103010124 D-loop; other site 652103010125 H-loop/switch region; other site 652103010126 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103010127 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103010128 Walker A/P-loop; other site 652103010129 ATP binding site [chemical binding]; other site 652103010130 Q-loop/lid; other site 652103010131 ABC transporter signature motif; other site 652103010132 Walker B; other site 652103010133 D-loop; other site 652103010134 H-loop/switch region; other site 652103010135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010136 metal binding site [ion binding]; metal-binding site 652103010137 active site 652103010138 I-site; other site 652103010139 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 652103010140 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 652103010141 putative ligand binding site [chemical binding]; other site 652103010142 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 652103010143 active site 652103010144 feruloyl-CoA synthase; Reviewed; Region: PRK08180 652103010145 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010146 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 652103010147 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 652103010148 substrate binding site [chemical binding]; other site 652103010149 oxyanion hole (OAH) forming residues; other site 652103010150 trimer interface [polypeptide binding]; other site 652103010151 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 652103010152 DctM-like transporters; Region: DctM; pfam06808 652103010153 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103010154 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103010155 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103010156 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103010157 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 652103010158 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010159 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 652103010160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010161 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 652103010162 CoenzymeA binding site [chemical binding]; other site 652103010163 subunit interaction site [polypeptide binding]; other site 652103010164 PHB binding site; other site 652103010165 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 652103010166 amidase; Provisional; Region: PRK07056 652103010167 Amidase; Region: Amidase; cl11426 652103010168 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 652103010169 DUF35 OB-fold domain; Region: DUF35; pfam01796 652103010170 thiolase; Provisional; Region: PRK06158 652103010171 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 652103010172 active site 652103010173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010174 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 652103010175 NAD(P) binding site [chemical binding]; other site 652103010176 active site 652103010177 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103010178 ligand binding site [chemical binding]; other site 652103010179 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 652103010180 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 652103010181 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 652103010182 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 652103010183 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 652103010184 Helix-turn-helix domains; Region: HTH; cl00088 652103010185 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 652103010186 putative dimerization interface [polypeptide binding]; other site 652103010187 sensory histidine kinase AtoS; Provisional; Region: PRK11360 652103010188 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 652103010189 dimer interface [polypeptide binding]; other site 652103010190 phosphorylation site [posttranslational modification] 652103010191 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 652103010192 ATP binding site [chemical binding]; other site 652103010193 G-X-G motif; other site 652103010194 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010195 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010196 active site 652103010197 phosphorylation site [posttranslational modification] 652103010198 intermolecular recognition site; other site 652103010199 dimerization interface [polypeptide binding]; other site 652103010200 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 652103010201 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010202 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103010203 enoyl-CoA hydratase; Provisional; Region: PRK07509 652103010204 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 652103010205 substrate binding site [chemical binding]; other site 652103010206 oxyanion hole (OAH) forming residues; other site 652103010207 trimer interface [polypeptide binding]; other site 652103010208 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 652103010209 short chain dehydrogenase; Provisional; Region: PRK07677 652103010210 NAD(P) binding site [chemical binding]; other site 652103010211 substrate binding site [chemical binding]; other site 652103010212 homotetramer interface [polypeptide binding]; other site 652103010213 active site 652103010214 homodimer interface [polypeptide binding]; other site 652103010215 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103010216 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010217 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103010218 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103010219 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010220 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 652103010221 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103010222 active site 652103010223 enoyl-CoA hydratase; Provisional; Region: PRK06494 652103010224 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 652103010225 substrate binding site [chemical binding]; other site 652103010226 oxyanion hole (OAH) forming residues; other site 652103010227 trimer interface [polypeptide binding]; other site 652103010228 Phosphotransferase enzyme family; Region: APH; pfam01636 652103010229 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 652103010230 putative active site [active] 652103010231 putative substrate binding site [chemical binding]; other site 652103010232 ATP binding site [chemical binding]; other site 652103010233 enoyl-CoA hydratase; Provisional; Region: PRK05981 652103010234 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 652103010235 substrate binding site [chemical binding]; other site 652103010236 oxyanion hole (OAH) forming residues; other site 652103010237 trimer interface [polypeptide binding]; other site 652103010238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010239 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103010240 NAD(P) binding site [chemical binding]; other site 652103010241 active site 652103010242 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 652103010243 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 652103010244 active site 652103010245 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 652103010246 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103010247 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103010248 Walker A/P-loop; other site 652103010249 ATP binding site [chemical binding]; other site 652103010250 Q-loop/lid; other site 652103010251 ABC transporter signature motif; other site 652103010252 Walker B; other site 652103010253 D-loop; other site 652103010254 H-loop/switch region; other site 652103010255 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103010256 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103010257 Walker A/P-loop; other site 652103010258 ATP binding site [chemical binding]; other site 652103010259 Q-loop/lid; other site 652103010260 ABC transporter signature motif; other site 652103010261 Walker B; other site 652103010262 D-loop; other site 652103010263 H-loop/switch region; other site 652103010264 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 652103010265 TM-ABC transporter signature motif; other site 652103010266 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 652103010267 TM-ABC transporter signature motif; other site 652103010268 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010269 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 652103010270 putative ligand binding site [chemical binding]; other site 652103010271 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 652103010272 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103010273 Helix-turn-helix domains; Region: HTH; cl00088 652103010274 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 652103010275 dimerization interface [polypeptide binding]; other site 652103010276 allantoate amidohydrolase; Reviewed; Region: PRK09290 652103010277 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 652103010278 active site 652103010279 metal binding site [ion binding]; metal-binding site 652103010280 dimer interface [polypeptide binding]; other site 652103010281 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 652103010282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010283 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 652103010284 tartrate dehydrogenase; Provisional; Region: PRK08194 652103010285 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010286 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 652103010287 putative ligand binding site [chemical binding]; other site 652103010288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010289 active site 652103010290 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 652103010291 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103010292 amidase; Provisional; Region: PRK07486 652103010293 Amidase; Region: Amidase; cl11426 652103010294 OsmC-like protein; Region: OsmC; cl00767 652103010295 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 652103010296 Fatty acid desaturase; Region: FA_desaturase; pfam00487 652103010297 putative di-iron ligands [ion binding]; other site 652103010298 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 652103010299 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 652103010300 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 652103010301 substrate binding site [chemical binding]; other site 652103010302 dimer interface [polypeptide binding]; other site 652103010303 NADP binding site [chemical binding]; other site 652103010304 catalytic residues [active] 652103010305 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 652103010306 substrate binding site [chemical binding]; other site 652103010307 enoyl-CoA hydratase; Provisional; Region: PRK08140 652103010308 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 652103010309 substrate binding site [chemical binding]; other site 652103010310 oxyanion hole (OAH) forming residues; other site 652103010311 trimer interface [polypeptide binding]; other site 652103010312 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 652103010313 CoenzymeA binding site [chemical binding]; other site 652103010314 subunit interaction site [polypeptide binding]; other site 652103010315 PHB binding site; other site 652103010316 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010317 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 652103010318 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 652103010319 transcriptional regulator; Provisional; Region: PRK10632 652103010320 Helix-turn-helix domains; Region: HTH; cl00088 652103010321 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 652103010322 putative effector binding pocket; other site 652103010323 putative dimerization interface [polypeptide binding]; other site 652103010324 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 652103010325 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 652103010326 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010327 metal binding site [ion binding]; metal-binding site 652103010328 active site 652103010329 I-site; other site 652103010330 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 652103010331 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 652103010332 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 652103010333 ligand binding site [chemical binding]; other site 652103010334 flexible hinge region; other site 652103010335 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 652103010336 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103010337 substrate binding site [chemical binding]; other site 652103010338 oxyanion hole (OAH) forming residues; other site 652103010339 trimer interface [polypeptide binding]; other site 652103010340 Transposase; Region: DEDD_Tnp_IS110; pfam01548 652103010341 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 652103010342 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 652103010343 putative FMN binding site [chemical binding]; other site 652103010344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010345 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 652103010346 FAD binding site [chemical binding]; other site 652103010347 substrate binding site [chemical binding]; other site 652103010348 catalytic base [active] 652103010349 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010350 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 652103010351 FAD binding site [chemical binding]; other site 652103010352 substrate binding site [chemical binding]; other site 652103010353 catalytic base [active] 652103010354 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010355 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010356 active site 652103010357 acyl-CoA synthetase; Provisional; Region: PRK12582 652103010358 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010359 enoyl-CoA hydratase; Provisional; Region: PRK06688 652103010360 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 652103010361 substrate binding site [chemical binding]; other site 652103010362 oxyanion hole (OAH) forming residues; other site 652103010363 trimer interface [polypeptide binding]; other site 652103010364 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 652103010365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010366 NAD(P) binding site [chemical binding]; other site 652103010367 active site 652103010368 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103010369 Helix-turn-helix domains; Region: HTH; cl00088 652103010370 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 652103010371 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 652103010372 dimer interface [polypeptide binding]; other site 652103010373 active site 652103010374 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 652103010375 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010376 AMP-binding enzyme; Region: AMP-binding; cl15778 652103010377 amidase; Provisional; Region: PRK06170 652103010378 Amidase; Region: Amidase; cl11426 652103010379 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010380 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010381 active site 652103010382 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 652103010383 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 652103010384 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 652103010385 Competence-damaged protein; Region: CinA; cl00666 652103010386 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 652103010387 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 652103010388 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 652103010389 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 652103010390 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 652103010391 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 652103010392 MatE; Region: MatE; cl10513 652103010393 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 652103010394 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 652103010395 NAD(P) binding site [chemical binding]; other site 652103010396 catalytic residues [active] 652103010397 choline dehydrogenase; Validated; Region: PRK02106 652103010398 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 652103010399 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103010400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010401 NAD(P) binding site [chemical binding]; other site 652103010402 active site 652103010403 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103010404 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 652103010405 putative NAD(P) binding site [chemical binding]; other site 652103010406 putative active site [active] 652103010407 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 652103010408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010409 active site 652103010410 phosphorylation site [posttranslational modification] 652103010411 intermolecular recognition site; other site 652103010412 dimerization interface [polypeptide binding]; other site 652103010413 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 652103010414 DNA binding residues [nucleotide binding] 652103010415 dimerization interface [polypeptide binding]; other site 652103010416 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010417 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103010418 putative phosphoketolase; Provisional; Region: PRK05261 652103010419 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 652103010420 TPP-binding site; other site 652103010421 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 652103010422 XFP C-terminal domain; Region: XFP_C; pfam09363 652103010423 BON domain; Region: BON; cl02771 652103010424 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 652103010425 BON domain; Region: BON; cl02771 652103010426 BON domain; Region: BON; cl02771 652103010427 Protein kinase domain; Region: Pkinase; pfam00069 652103010428 Catalytic domain of Protein Kinases; Region: PKc; cd00180 652103010429 active site 652103010430 ATP binding site [chemical binding]; other site 652103010431 substrate binding site [chemical binding]; other site 652103010432 activation loop (A-loop); other site 652103010433 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 652103010434 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103010435 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 652103010436 active site 652103010437 metal binding site [ion binding]; metal-binding site 652103010438 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 652103010439 active site 652103010440 metal binding site [ion binding]; metal-binding site 652103010441 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 652103010442 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 652103010443 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 652103010444 FeS/SAM binding site; other site 652103010445 Heme NO binding; Region: HNOB; cl15268 652103010446 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 652103010447 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 652103010448 FeS/SAM binding site; other site 652103010449 HemN C-terminal domain; Region: HemN_C; pfam06969 652103010450 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 652103010451 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103010452 Zn binding site [ion binding]; other site 652103010453 Helix-turn-helix domains; Region: HTH; cl00088 652103010454 Winged helix-turn helix; Region: HTH_29; pfam13551 652103010455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 652103010456 Helix-turn-helix domains; Region: HTH; cl00088 652103010457 Integrase core domain; Region: rve; cl01316 652103010458 Integrase core domain; Region: rve_3; cl15866 652103010459 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 652103010460 putative homotetramer interface [polypeptide binding]; other site 652103010461 putative homodimer interface [polypeptide binding]; other site 652103010462 putative allosteric switch controlling residues; other site 652103010463 putative metal binding site [ion binding]; other site 652103010464 putative homodimer-homodimer interface [polypeptide binding]; other site 652103010465 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 652103010466 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 652103010467 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 652103010468 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 652103010469 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103010470 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103010471 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 652103010472 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 652103010473 active site 652103010474 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010475 metal binding site [ion binding]; metal-binding site 652103010476 active site 652103010477 I-site; other site 652103010478 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010479 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 652103010480 putative ligand binding site [chemical binding]; other site 652103010481 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 652103010482 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 652103010483 active site 652103010484 catalytic tetrad [active] 652103010485 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 652103010486 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103010487 putative ligand binding site [chemical binding]; other site 652103010488 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 652103010489 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 652103010490 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103010491 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103010492 Walker A/P-loop; other site 652103010493 ATP binding site [chemical binding]; other site 652103010494 Q-loop/lid; other site 652103010495 ABC transporter signature motif; other site 652103010496 Walker B; other site 652103010497 D-loop; other site 652103010498 H-loop/switch region; other site 652103010499 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 652103010500 FtsX-like permease family; Region: FtsX; cl15850 652103010501 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103010502 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103010503 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103010504 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103010505 Protein of unknown function (DUF3222); Region: DUF3222; pfam11519 652103010506 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103010507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010508 metal binding site [ion binding]; metal-binding site 652103010509 active site 652103010510 I-site; other site 652103010511 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 652103010512 octamerization interface [polypeptide binding]; other site 652103010513 diferric-oxygen binding site [ion binding]; other site 652103010514 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 652103010515 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 652103010516 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 652103010517 octamerization interface [polypeptide binding]; other site 652103010518 diferric-oxygen binding site [ion binding]; other site 652103010519 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 652103010520 PAS domain; Region: PAS_9; pfam13426 652103010521 putative active site [active] 652103010522 heme pocket [chemical binding]; other site 652103010523 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103010524 metal binding site [ion binding]; metal-binding site 652103010525 active site 652103010526 I-site; other site 652103010527 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 652103010528 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103010529 putative substrate translocation pore; other site 652103010530 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 652103010531 FHIPEP family; Region: FHIPEP; pfam00771 652103010532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 652103010533 Anti-sigma-K factor rskA; Region: RskA; pfam10099 652103010534 RNA polymerase sigma factor; Provisional; Region: PRK12514 652103010535 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103010536 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103010537 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 652103010538 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 652103010539 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 652103010540 Walker A motif/ATP binding site; other site 652103010541 Walker B motif; other site 652103010542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 652103010543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010544 active site 652103010545 phosphorylation site [posttranslational modification] 652103010546 intermolecular recognition site; other site 652103010547 dimerization interface [polypeptide binding]; other site 652103010548 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 652103010549 DNA binding site [nucleotide binding] 652103010550 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 652103010551 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 652103010552 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010553 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 652103010554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010555 active site 652103010556 phosphorylation site [posttranslational modification] 652103010557 intermolecular recognition site; other site 652103010558 dimerization interface [polypeptide binding]; other site 652103010559 CheB methylesterase; Region: CheB_methylest; pfam01339 652103010560 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010561 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010562 active site 652103010563 phosphorylation site [posttranslational modification] 652103010564 intermolecular recognition site; other site 652103010565 dimerization interface [polypeptide binding]; other site 652103010566 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 652103010567 putative CheA interaction surface; other site 652103010568 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 652103010569 putative binding surface; other site 652103010570 active site 652103010571 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 652103010572 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 652103010573 ATP binding site [chemical binding]; other site 652103010574 Mg2+ binding site [ion binding]; other site 652103010575 G-X-G motif; other site 652103010576 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 652103010577 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 652103010578 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010580 active site 652103010581 phosphorylation site [posttranslational modification] 652103010582 intermolecular recognition site; other site 652103010583 dimerization interface [polypeptide binding]; other site 652103010584 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 652103010585 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 cysteine...; Region: CysQ; cd01638 652103010586 active site 652103010587 oxaloacetate decarboxylase; Provisional; Region: PRK14040 652103010588 Protein of unknown function (DUF1134); Region: DUF1134; cl02235 652103010589 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 652103010590 hypothetical protein; Validated; Region: PRK07586 652103010591 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103010592 PYR/PP interface [polypeptide binding]; other site 652103010593 dimer interface [polypeptide binding]; other site 652103010594 TPP binding site [chemical binding]; other site 652103010595 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 652103010596 TPP-binding site [chemical binding]; other site 652103010597 dimer interface [polypeptide binding]; other site 652103010598 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103010599 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 652103010600 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 652103010601 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103010602 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 652103010603 isovaleryl-CoA dehydrogenase; Region: PLN02519 652103010604 substrate binding site [chemical binding]; other site 652103010605 FAD binding site [chemical binding]; other site 652103010606 catalytic base [active] 652103010607 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 652103010608 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103010609 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103010610 active site 652103010611 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103010612 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010613 Uncharacterized conserved protein [Function unknown]; Region: COG3777 652103010614 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 652103010615 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 652103010616 active site 2 [active] 652103010617 active site 1 [active] 652103010618 benzoylformate decarboxylase; Reviewed; Region: PRK07092 652103010619 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 652103010620 PYR/PP interface [polypeptide binding]; other site 652103010621 dimer interface [polypeptide binding]; other site 652103010622 TPP binding site [chemical binding]; other site 652103010623 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 652103010624 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 652103010625 TPP-binding site [chemical binding]; other site 652103010626 dimer interface [polypeptide binding]; other site 652103010627 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 652103010628 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103010629 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 652103010630 putative ADP-ribose binding site [chemical binding]; other site 652103010631 putative active site [active] 652103010632 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 652103010633 putative GSH binding site [chemical binding]; other site 652103010634 catalytic residues [active] 652103010635 TIGR03440 family protein; Region: unchr_TIGR03440 652103010636 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 652103010637 probable methyltransferase; Region: TIGR03438 652103010638 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 652103010639 BolA-like protein; Region: BolA; cl00386 652103010640 Domain of unknown function (DUF427); Region: DUF427; cl00998 652103010641 Acyltransferase family; Region: Acyl_transf_3; pfam01757 652103010642 OpgC protein; Region: OpgC_C; cl00792 652103010643 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 652103010644 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 652103010645 dimerization interface [polypeptide binding]; other site 652103010646 ATP binding site [chemical binding]; other site 652103010647 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 652103010648 dimerization interface [polypeptide binding]; other site 652103010649 ATP binding site [chemical binding]; other site 652103010650 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 652103010651 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 652103010652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103010653 catalytic residue [active] 652103010654 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 652103010655 Cupin domain; Region: Cupin_2; cl09118 652103010656 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 652103010657 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 652103010658 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 652103010659 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 652103010660 RNA binding surface [nucleotide binding]; other site 652103010661 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 652103010662 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 652103010663 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103010664 catalytic residue [active] 652103010665 classical (c) SDRs; Region: SDR_c; cd05233 652103010666 short chain dehydrogenase; Provisional; Region: PRK05650 652103010667 NAD(P) binding site [chemical binding]; other site 652103010668 active site 652103010669 Haemolysin-III related; Region: HlyIII; cl03831 652103010670 YcjX-like family, DUF463; Region: DUF463; cl01193 652103010671 Domain of unknown function (DUF697); Region: DUF697; cl12064 652103010672 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 652103010673 catalytic loop [active] 652103010674 iron binding site [ion binding]; other site 652103010675 cyclase homology domain; Region: CHD; cd07302 652103010676 nucleotidyl binding site; other site 652103010677 metal binding site [ion binding]; metal-binding site 652103010678 dimer interface [polypeptide binding]; other site 652103010679 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 652103010680 Proline dehydrogenase; Region: Pro_dh; cl03282 652103010681 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 652103010682 Glutamate binding site [chemical binding]; other site 652103010683 NAD binding site [chemical binding]; other site 652103010684 catalytic residues [active] 652103010685 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103010686 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010687 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 652103010688 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 652103010689 FAD binding pocket [chemical binding]; other site 652103010690 FAD binding motif [chemical binding]; other site 652103010691 phosphate binding motif [ion binding]; other site 652103010692 beta-alpha-beta structure motif; other site 652103010693 NAD binding pocket [chemical binding]; other site 652103010694 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 652103010695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103010696 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 652103010697 putative C-terminal domain interface [polypeptide binding]; other site 652103010698 putative GSH binding site (G-site) [chemical binding]; other site 652103010699 putative dimer interface [polypeptide binding]; other site 652103010700 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 652103010701 putative N-terminal domain interface [polypeptide binding]; other site 652103010702 putative dimer interface [polypeptide binding]; other site 652103010703 putative substrate binding pocket (H-site) [chemical binding]; other site 652103010704 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 652103010705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010706 Predicted transcriptional regulator [Transcription]; Region: COG1959 652103010707 Helix-turn-helix domains; Region: HTH; cl00088 652103010708 Repair protein; Region: Repair_PSII; cl01535 652103010709 Repair protein; Region: Repair_PSII; cl01535 652103010710 LemA family; Region: LemA; cl00742 652103010711 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103010712 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103010713 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103010714 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 652103010715 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 652103010716 inhibitor site; inhibition site 652103010717 active site 652103010718 dimer interface [polypeptide binding]; other site 652103010719 catalytic residue [active] 652103010720 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 652103010721 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010722 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 652103010723 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 652103010724 homodimer interface [polypeptide binding]; other site 652103010725 substrate-cofactor binding pocket; other site 652103010726 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103010727 catalytic residue [active] 652103010728 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010729 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103010730 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010731 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010732 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 652103010733 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 652103010734 Walker A motif; other site 652103010735 ATP binding site [chemical binding]; other site 652103010736 Walker B motif; other site 652103010737 arginine finger; other site 652103010738 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 652103010739 multimerization interface [polypeptide binding]; other site 652103010740 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 652103010741 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 652103010742 homodimer interface [polypeptide binding]; other site 652103010743 active site 652103010744 heterodimer interface [polypeptide binding]; other site 652103010745 catalytic residue [active] 652103010746 metal binding site [ion binding]; metal-binding site 652103010747 CHASE domain; Region: CHASE; cl01369 652103010748 PAS domain S-box; Region: sensory_box; TIGR00229 652103010749 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 652103010750 putative active site [active] 652103010751 heme pocket [chemical binding]; other site 652103010752 PAS domain S-box; Region: sensory_box; TIGR00229 652103010753 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 652103010754 putative active site [active] 652103010755 heme pocket [chemical binding]; other site 652103010756 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 652103010757 dimer interface [polypeptide binding]; other site 652103010758 phosphorylation site [posttranslational modification] 652103010759 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 652103010760 ATP binding site [chemical binding]; other site 652103010761 Mg2+ binding site [ion binding]; other site 652103010762 G-X-G motif; other site 652103010763 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010764 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010765 active site 652103010766 phosphorylation site [posttranslational modification] 652103010767 intermolecular recognition site; other site 652103010768 dimerization interface [polypeptide binding]; other site 652103010769 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 652103010770 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010771 active site 652103010772 phosphorylation site [posttranslational modification] 652103010773 intermolecular recognition site; other site 652103010774 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010776 active site 652103010777 phosphorylation site [posttranslational modification] 652103010778 intermolecular recognition site; other site 652103010779 dimerization interface [polypeptide binding]; other site 652103010780 Response regulator receiver domain; Region: Response_reg; pfam00072 652103010781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010782 active site 652103010783 phosphorylation site [posttranslational modification] 652103010784 intermolecular recognition site; other site 652103010785 dimerization interface [polypeptide binding]; other site 652103010786 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 652103010787 Helix-turn-helix domains; Region: HTH; cl00088 652103010788 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 652103010789 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 652103010790 putative dimerization interface [polypeptide binding]; other site 652103010791 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 652103010792 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 652103010793 substrate-cofactor binding pocket; other site 652103010794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103010795 catalytic residue [active] 652103010796 Protein of unknown function (DUF3623); Region: DUF3623; cl11843 652103010797 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 652103010798 diiron binding motif [ion binding]; other site 652103010799 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 652103010800 Bacterial PH domain; Region: DUF304; cl01348 652103010801 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 652103010802 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 652103010803 subunit M interaction residues [polypeptide binding]; other site 652103010804 subunit L interaction residues [polypeptide binding]; other site 652103010805 putative proton transfer pathway, P1; other site 652103010806 putative proton transfer pathway, P2; other site 652103010807 PUCC protein; Region: PUCC; pfam03209 652103010808 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 652103010809 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010810 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103010811 S-adenosylmethionine binding site [chemical binding]; other site 652103010812 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010813 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 652103010814 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 652103010815 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 652103010816 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 652103010817 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 652103010818 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 652103010819 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 652103010820 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 652103010821 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 652103010822 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; cl06353 652103010823 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 652103010824 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 652103010825 heme binding pocket [chemical binding]; other site 652103010826 heme ligand [chemical binding]; other site 652103010827 PAS fold; Region: PAS_2; pfam08446 652103010828 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 652103010829 GAF domain; Region: GAF; cl15785 652103010830 Phytochrome region; Region: PHY; pfam00360 652103010831 PAS domain; Region: PAS_9; pfam13426 652103010832 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 652103010833 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 652103010834 Helix-turn-helix domains; Region: HTH; cl00088 652103010835 Cytochrome c; Region: Cytochrom_C; cl11414 652103010836 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 652103010837 TspO/MBR family; Region: TspO_MBR; cl01379 652103010838 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 652103010839 PUCC protein; Region: PUCC; pfam03209 652103010840 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 652103010841 putative substrate translocation pore; other site 652103010842 UbiA prenyltransferase family; Region: UbiA; cl00337 652103010843 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 652103010844 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 652103010845 Helix-turn-helix domains; Region: HTH; cl00088 652103010846 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 652103010847 subunit H interface; other site 652103010848 subunit L interface; other site 652103010849 bacteriopheophytin binding site; other site 652103010850 carotenoid binding site; other site 652103010851 bacteriochlorophyll binding site; other site 652103010852 cytochrome C interface; other site 652103010853 quinone binding site; other site 652103010854 Fe binding site [ion binding]; other site 652103010855 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 652103010856 subunit M interface; other site 652103010857 subunit H interface; other site 652103010858 quinone binding site; other site 652103010859 bacteriopheophytin binding site; other site 652103010860 bacteriochlorophyll binding site; other site 652103010861 cytochrome C subunit interface; other site 652103010862 Fe binding site [ion binding]; other site 652103010863 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103010864 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103010865 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 652103010866 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 652103010867 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 652103010868 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 652103010869 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 652103010870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103010871 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 652103010872 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 652103010873 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 652103010874 putative NAD(P) binding site [chemical binding]; other site 652103010875 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 652103010876 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 652103010877 substrate binding pocket [chemical binding]; other site 652103010878 chain length determination region; other site 652103010879 substrate-Mg2+ binding site; other site 652103010880 catalytic residues [active] 652103010881 aspartate-rich region 1; other site 652103010882 active site lid residues [active] 652103010883 aspartate-rich region 2; other site 652103010884 phytoene desaturase; Region: crtI_fam; TIGR02734 652103010885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010886 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 652103010887 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 652103010888 GIY-YIG motif/motif A; other site 652103010889 putative active site [active] 652103010890 putative metal binding site [ion binding]; other site 652103010891 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 652103010892 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 652103010893 active site lid residues [active] 652103010894 substrate binding pocket [chemical binding]; other site 652103010895 catalytic residues [active] 652103010896 substrate-Mg2+ binding site; other site 652103010897 aspartate-rich region 1; other site 652103010898 aspartate-rich region 2; other site 652103010899 phytoene desaturase; Region: crtI_fam; TIGR02734 652103010900 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010901 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 652103010902 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010903 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103010904 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 652103010905 substrate binding site [chemical binding]; other site 652103010906 active site 652103010907 PilZ domain; Region: PilZ; cl01260 652103010908 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 652103010909 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 652103010910 metal ion-dependent adhesion site (MIDAS); other site 652103010911 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 652103010912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103010913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103010914 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 652103010915 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 652103010916 domain interfaces; other site 652103010917 active site 652103010918 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 652103010919 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103010920 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103010921 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; cl15292 652103010922 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 652103010923 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 652103010924 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 652103010925 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 652103010926 Protein export membrane protein; Region: SecD_SecF; cl14618 652103010927 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 652103010928 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103010929 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 652103010930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103010931 PUCC protein; Region: PUCC; pfam03209 652103010932 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103010933 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103010934 GAF domain; Region: GAF; cl15785 652103010935 Phytochrome region; Region: PHY; pfam00360 652103010936 Histidine kinase; Region: HisKA_3; pfam07730 652103010937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 652103010938 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 652103010939 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010940 active site 652103010941 phosphorylation site [posttranslational modification] 652103010942 intermolecular recognition site; other site 652103010943 dimerization interface [polypeptide binding]; other site 652103010944 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 652103010945 DNA binding residues [nucleotide binding] 652103010946 dimerization interface [polypeptide binding]; other site 652103010947 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103010948 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103010949 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 652103010950 NnrS protein; Region: NnrS; cl01258 652103010951 Phospholipid methyltransferase; Region: PEMT; cl00763 652103010952 phosphoglucomutase; Validated; Region: PRK07564 652103010953 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 652103010954 active site 652103010955 substrate binding site [chemical binding]; other site 652103010956 metal binding site [ion binding]; metal-binding site 652103010957 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 652103010958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103010959 active site 652103010960 phosphorylation site [posttranslational modification] 652103010961 intermolecular recognition site; other site 652103010962 dimerization interface [polypeptide binding]; other site 652103010963 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 652103010964 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103010965 active site 652103010966 metal binding site [ion binding]; metal-binding site 652103010967 hexamer interface [polypeptide binding]; other site 652103010968 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 652103010969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103010970 Walker A/P-loop; other site 652103010971 ATP binding site [chemical binding]; other site 652103010972 Q-loop/lid; other site 652103010973 ABC transporter signature motif; other site 652103010974 Walker B; other site 652103010975 D-loop; other site 652103010976 H-loop/switch region; other site 652103010977 TOBE domain; Region: TOBE_2; cl01440 652103010978 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 652103010979 putative PBP binding loops; other site 652103010980 dimer interface [polypeptide binding]; other site 652103010981 ABC-ATPase subunit interface; other site 652103010982 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103010983 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 652103010984 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103010985 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 652103010986 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 652103010987 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103010988 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103010989 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 652103010990 dimer interface [polypeptide binding]; other site 652103010991 conserved gate region; other site 652103010992 putative PBP binding loops; other site 652103010993 ABC-ATPase subunit interface; other site 652103010994 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 652103010995 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 652103010996 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 652103010997 dimer interface [polypeptide binding]; other site 652103010998 conserved gate region; other site 652103010999 putative PBP binding loops; other site 652103011000 ABC-ATPase subunit interface; other site 652103011001 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 652103011002 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103011003 Walker A/P-loop; other site 652103011004 ATP binding site [chemical binding]; other site 652103011005 Q-loop/lid; other site 652103011006 ABC transporter signature motif; other site 652103011007 Walker B; other site 652103011008 D-loop; other site 652103011009 H-loop/switch region; other site 652103011010 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011011 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103011012 Walker A/P-loop; other site 652103011013 ATP binding site [chemical binding]; other site 652103011014 Q-loop/lid; other site 652103011015 ABC transporter signature motif; other site 652103011016 Walker B; other site 652103011017 D-loop; other site 652103011018 H-loop/switch region; other site 652103011019 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011020 Protein of unknown function (DUF4089); Region: DUF4089; pfam13318 652103011021 amidase; Provisional; Region: PRK09201 652103011022 Amidase; Region: Amidase; cl11426 652103011023 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 652103011024 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103011025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103011026 DNA-binding site [nucleotide binding]; DNA binding site 652103011027 FCD domain; Region: FCD; cl11656 652103011028 allophanate hydrolase; Provisional; Region: PRK08186 652103011029 Amidase; Region: Amidase; cl11426 652103011030 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 652103011031 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 652103011032 Cl- selectivity filter; other site 652103011033 Cl- binding residues [ion binding]; other site 652103011034 pore gating glutamate residue; other site 652103011035 dimer interface [polypeptide binding]; other site 652103011036 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 652103011037 Peptidase C26; Region: Peptidase_C26; pfam07722 652103011038 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 652103011039 catalytic triad [active] 652103011040 Dehydratase family; Region: ILVD_EDD; cl00340 652103011041 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 652103011042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103011043 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 652103011044 Domain of unknown function (DUF4424); Region: DUF4424; pfam14415 652103011045 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 652103011046 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 652103011047 metal ion-dependent adhesion site (MIDAS); other site 652103011048 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 652103011049 Walker A motif; other site 652103011050 ATP binding site [chemical binding]; other site 652103011051 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 652103011052 Walker B motif; other site 652103011053 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 652103011054 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 652103011055 D-pathway; other site 652103011056 K-pathway; other site 652103011057 Binuclear center (active site) [active] 652103011058 Putative proton exit pathway; other site 652103011059 Cytochrome c; Region: Cytochrom_C; cl11414 652103011060 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 652103011061 Subunit I/III interface [polypeptide binding]; other site 652103011062 pyruvate carboxylase; Reviewed; Region: PRK12999 652103011063 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103011064 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 652103011065 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 652103011066 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 652103011067 carboxyltransferase (CT) interaction site; other site 652103011068 biotinylation site [posttranslational modification]; other site 652103011069 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 652103011070 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 652103011071 acyl-CoA synthetase; Validated; Region: PRK06178 652103011072 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011073 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011074 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 652103011075 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 652103011076 dimer interface [polypeptide binding]; other site 652103011077 conserved gate region; other site 652103011078 ABC-ATPase subunit interface; other site 652103011079 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 652103011080 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 652103011081 dimer interface [polypeptide binding]; other site 652103011082 conserved gate region; other site 652103011083 putative PBP binding loops; other site 652103011084 ABC-ATPase subunit interface; other site 652103011085 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 652103011086 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 652103011087 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103011088 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 652103011089 Walker A/P-loop; other site 652103011090 ATP binding site [chemical binding]; other site 652103011091 Q-loop/lid; other site 652103011092 ABC transporter signature motif; other site 652103011093 Walker B; other site 652103011094 D-loop; other site 652103011095 H-loop/switch region; other site 652103011096 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011097 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 652103011098 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 652103011099 Walker A/P-loop; other site 652103011100 ATP binding site [chemical binding]; other site 652103011101 Q-loop/lid; other site 652103011102 ABC transporter signature motif; other site 652103011103 Walker B; other site 652103011104 D-loop; other site 652103011105 H-loop/switch region; other site 652103011106 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 652103011107 Transcriptional regulators [Transcription]; Region: GntR; COG1802 652103011108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 652103011109 DNA-binding site [nucleotide binding]; DNA binding site 652103011110 FCD domain; Region: FCD; cl11656 652103011111 NMT1-like family; Region: NMT1_2; cl15260 652103011112 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 652103011113 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011114 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 652103011115 Helix-turn-helix domains; Region: HTH; cl00088 652103011116 Integrase core domain; Region: rve; cl01316 652103011117 NMT1-like family; Region: NMT1_2; cl15260 652103011118 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 652103011119 dimer interface [polypeptide binding]; other site 652103011120 conserved gate region; other site 652103011121 ABC-ATPase subunit interface; other site 652103011122 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 652103011123 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 652103011124 Walker A/P-loop; other site 652103011125 ATP binding site [chemical binding]; other site 652103011126 Q-loop/lid; other site 652103011127 ABC transporter signature motif; other site 652103011128 Walker B; other site 652103011129 D-loop; other site 652103011130 H-loop/switch region; other site 652103011131 NIL domain; Region: NIL; cl09633 652103011132 serine O-acetyltransferase; Region: cysE; TIGR01172 652103011133 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 652103011134 trimer interface [polypeptide binding]; other site 652103011135 active site 652103011136 substrate binding site [chemical binding]; other site 652103011137 CoA binding site [chemical binding]; other site 652103011138 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103011139 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 652103011140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103011141 catalytic residue [active] 652103011142 FixH; Region: FixH; cl01254 652103011143 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 652103011144 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103011145 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103011146 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 652103011147 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 652103011148 NAD binding site [chemical binding]; other site 652103011149 catalytic Zn binding site [ion binding]; other site 652103011150 structural Zn binding site [ion binding]; other site 652103011151 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 652103011152 dinuclear metal binding motif [ion binding]; other site 652103011153 Isochorismatase family; Region: Isochorismatase; pfam00857 652103011154 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 652103011155 catalytic triad [active] 652103011156 conserved cis-peptide bond; other site 652103011157 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 652103011158 classical (c) SDRs; Region: SDR_c; cd05233 652103011159 NAD(P) binding site [chemical binding]; other site 652103011160 active site 652103011161 Protein of unknown function DUF72; Region: DUF72; cl00777 652103011162 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 652103011163 dimanganese center [ion binding]; other site 652103011164 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103011165 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 652103011166 Helix-turn-helix domains; Region: HTH; cl00088 652103011167 hypothetical protein; Provisional; Region: PRK13559 652103011168 Histidine kinase; Region: HisKA_2; cl06527 652103011169 response regulator; Provisional; Region: PRK13435 652103011170 short chain dehydrogenase; Provisional; Region: PRK06701 652103011171 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 652103011172 NAD binding site [chemical binding]; other site 652103011173 metal binding site [ion binding]; metal-binding site 652103011174 active site 652103011175 Domain of unknown function (DUF378); Region: DUF378; cl00943 652103011176 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 652103011177 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 652103011178 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 652103011179 substrate binding site [chemical binding]; other site 652103011180 oxyanion hole (OAH) forming residues; other site 652103011181 trimer interface [polypeptide binding]; other site 652103011182 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103011183 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 652103011184 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 652103011185 NAD binding site [chemical binding]; other site 652103011186 catalytic Zn binding site [ion binding]; other site 652103011187 substrate binding site [chemical binding]; other site 652103011188 structural Zn binding site [ion binding]; other site 652103011189 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 652103011190 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 652103011191 ligand binding site [chemical binding]; other site 652103011192 flexible hinge region; other site 652103011193 Helix-turn-helix domains; Region: HTH; cl00088 652103011194 4-hydroxybenzoyl-CoA reductase, beta subunit; Region: 4hydrxCoA_B; TIGR03195 652103011195 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 652103011196 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 652103011197 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103011198 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103011199 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 652103011200 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 652103011201 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 652103011202 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103011203 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 652103011204 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011205 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103011206 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011207 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 652103011208 putative ligand binding site [chemical binding]; other site 652103011209 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 652103011210 TM-ABC transporter signature motif; other site 652103011211 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 652103011212 TM-ABC transporter signature motif; other site 652103011213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103011214 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011215 Walker A/P-loop; other site 652103011216 ATP binding site [chemical binding]; other site 652103011217 Q-loop/lid; other site 652103011218 ABC transporter signature motif; other site 652103011219 Walker B; other site 652103011220 D-loop; other site 652103011221 H-loop/switch region; other site 652103011222 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011223 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011224 Walker A/P-loop; other site 652103011225 ATP binding site [chemical binding]; other site 652103011226 Q-loop/lid; other site 652103011227 ABC transporter signature motif; other site 652103011228 Walker B; other site 652103011229 D-loop; other site 652103011230 H-loop/switch region; other site 652103011231 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103011232 Coenzyme A binding pocket [chemical binding]; other site 652103011233 Rrf2 family protein; Region: rrf2_super; TIGR00738 652103011234 Helix-turn-helix domains; Region: HTH; cl00088 652103011235 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 652103011236 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 652103011237 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011238 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103011239 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 652103011240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 652103011241 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 652103011242 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 652103011243 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 652103011244 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 652103011245 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 652103011246 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 652103011247 putative NAD(P) binding site [chemical binding]; other site 652103011248 structural Zn binding site [ion binding]; other site 652103011249 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103011250 Helix-turn-helix domains; Region: HTH; cl00088 652103011251 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103011252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011253 NAD(P) binding site [chemical binding]; other site 652103011254 active site 652103011255 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 652103011256 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 652103011257 substrate binding site [chemical binding]; other site 652103011258 oxyanion hole (OAH) forming residues; other site 652103011259 trimer interface [polypeptide binding]; other site 652103011260 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 652103011261 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103011262 active site 652103011263 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 652103011264 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011265 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103011266 enoyl-CoA hydratase; Provisional; Region: PRK05862 652103011267 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 652103011268 substrate binding site [chemical binding]; other site 652103011269 oxyanion hole (OAH) forming residues; other site 652103011270 trimer interface [polypeptide binding]; other site 652103011271 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011272 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 652103011273 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 652103011274 active site 652103011275 catalytic site [active] 652103011276 metal binding site [ion binding]; metal-binding site 652103011277 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011278 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 652103011279 Helix-turn-helix domains; Region: HTH; cl00088 652103011280 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103011281 Calx-beta domain; Region: Calx-beta; cl02522 652103011282 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 652103011283 generic binding surface II; other site 652103011284 generic binding surface I; other site 652103011285 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 652103011286 putative catalytic site [active] 652103011287 putative metal binding site [ion binding]; other site 652103011288 putative phosphate binding site [ion binding]; other site 652103011289 Synechococcus sp. strain PCC 7942 PhoA and related proteins, N-terminal metallophosphatase domain; Region: MPP_PhoA_N; cd08162 652103011290 putative active site [active] 652103011291 putative metal binding site [ion binding]; other site 652103011292 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 652103011293 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011294 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 652103011295 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 652103011296 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103011297 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 652103011298 Walker A/P-loop; other site 652103011299 ATP binding site [chemical binding]; other site 652103011300 Q-loop/lid; other site 652103011301 ABC transporter signature motif; other site 652103011302 Walker B; other site 652103011303 D-loop; other site 652103011304 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 652103011305 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103011306 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103011307 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 652103011308 Staphylococcal nuclease homologues; Region: SNc; smart00318 652103011309 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103011310 Catalytic site; other site 652103011311 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103011312 S-adenosylmethionine binding site [chemical binding]; other site 652103011313 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 652103011314 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 652103011315 Ligand Binding Site [chemical binding]; other site 652103011316 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 652103011317 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 652103011318 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 652103011319 FlgD Ig-like domain; Region: FlgD_ig; cl15790 652103011320 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 652103011321 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103011322 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 652103011323 intracellular protease, PfpI family; Region: PfpI; TIGR01382 652103011324 proposed catalytic triad [active] 652103011325 conserved cys residue [active] 652103011326 Cupin domain; Region: Cupin_2; cl09118 652103011327 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 652103011328 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 652103011329 dimer interface [polypeptide binding]; other site 652103011330 active site 652103011331 CoA binding pocket [chemical binding]; other site 652103011332 hypothetical protein; Provisional; Region: PRK06194 652103011333 classical (c) SDRs; Region: SDR_c; cd05233 652103011334 NAD(P) binding site [chemical binding]; other site 652103011335 active site 652103011336 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 652103011337 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103011338 metal binding site [ion binding]; metal-binding site 652103011339 active site 652103011340 I-site; other site 652103011341 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 652103011342 Histidine kinase; Region: HisKA_2; cl06527 652103011343 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 652103011344 ATP binding site [chemical binding]; other site 652103011345 Mg2+ binding site [ion binding]; other site 652103011346 G-X-G motif; other site 652103011347 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 652103011348 salt bridge; other site 652103011349 non-specific DNA binding site [nucleotide binding]; other site 652103011350 sequence-specific DNA binding site [nucleotide binding]; other site 652103011351 YcfA-like protein; Region: YcfA; cl00752 652103011352 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 652103011353 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 652103011354 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 652103011355 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 652103011356 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 652103011357 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 652103011358 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103011359 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 652103011360 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 652103011361 DNA binding residues [nucleotide binding] 652103011362 DNA primase, catalytic core; Region: dnaG; TIGR01391 652103011363 CHC2 zinc finger; Region: zf-CHC2; cl15369 652103011364 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 652103011365 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 652103011366 active site 652103011367 metal binding site [ion binding]; metal-binding site 652103011368 interdomain interaction site; other site 652103011369 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 652103011370 DNA primase; Validated; Region: dnaG; PRK05667 652103011371 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 652103011372 Zn binding site [ion binding]; other site 652103011373 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 652103011374 putative active site pocket [active] 652103011375 dimerization interface [polypeptide binding]; other site 652103011376 putative catalytic residue [active] 652103011377 N-formylglutamate amidohydrolase; Region: FGase; cl01522 652103011378 LysE type translocator; Region: LysE; cl00565 652103011379 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 652103011380 GatB domain; Region: GatB_Yqey; cl11497 652103011381 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 652103011382 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103011383 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 652103011384 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 652103011385 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 652103011386 catalytic site [active] 652103011387 subunit interface [polypeptide binding]; other site 652103011388 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 652103011389 CoenzymeA binding site [chemical binding]; other site 652103011390 subunit interaction site [polypeptide binding]; other site 652103011391 PHB binding site; other site 652103011392 Cupin domain; Region: Cupin_2; cl09118 652103011393 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 652103011394 Ferritin-like domain; Region: Ferritin; pfam00210 652103011395 dimerization interface [polypeptide binding]; other site 652103011396 DPS ferroxidase diiron center [ion binding]; other site 652103011397 ion pore; other site 652103011398 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 652103011399 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103011400 S-adenosylmethionine binding site [chemical binding]; other site 652103011401 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103011402 Family description; Region: UvrD_C_2; cl15862 652103011403 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 652103011404 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 652103011405 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 652103011406 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103011407 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 652103011408 Walker A motif; other site 652103011409 ATP binding site [chemical binding]; other site 652103011410 Walker B motif; other site 652103011411 arginine finger; other site 652103011412 Helix-turn-helix domains; Region: HTH; cl00088 652103011413 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 652103011414 flagellar assembly protein H; Validated; Region: fliH; PRK06032 652103011415 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 652103011416 MgtE intracellular N domain; Region: MgtE_N; cl15244 652103011417 FliG C-terminal domain; Region: FliG_C; pfam01706 652103011418 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 652103011419 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 652103011420 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 652103011421 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 652103011422 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 652103011423 FAD binding domain; Region: FAD_binding_4; pfam01565 652103011424 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 652103011425 Ligand Binding Site [chemical binding]; other site 652103011426 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 652103011427 Ligand Binding Site [chemical binding]; other site 652103011428 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 652103011429 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 652103011430 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 652103011431 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 652103011432 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 652103011433 motif II; other site 652103011434 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 652103011435 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 652103011436 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 652103011437 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 652103011438 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 652103011439 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 652103011440 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011441 Walker A/P-loop; other site 652103011442 ATP binding site [chemical binding]; other site 652103011443 Q-loop/lid; other site 652103011444 ABC transporter signature motif; other site 652103011445 Walker B; other site 652103011446 D-loop; other site 652103011447 H-loop/switch region; other site 652103011448 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 652103011449 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011450 Walker A/P-loop; other site 652103011451 ATP binding site [chemical binding]; other site 652103011452 Q-loop/lid; other site 652103011453 ABC transporter signature motif; other site 652103011454 Walker B; other site 652103011455 D-loop; other site 652103011456 H-loop/switch region; other site 652103011457 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 652103011458 TM-ABC transporter signature motif; other site 652103011459 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 652103011460 TM-ABC transporter signature motif; other site 652103011461 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011462 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 652103011463 putative ligand binding site [chemical binding]; other site 652103011464 Sodium:solute symporter family; Region: SSF; cl00456 652103011465 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 652103011466 dimer interface [polypeptide binding]; other site 652103011467 phosphorylation site [posttranslational modification] 652103011468 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 652103011469 ATP binding site [chemical binding]; other site 652103011470 Mg2+ binding site [ion binding]; other site 652103011471 G-X-G motif; other site 652103011472 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011473 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011474 active site 652103011475 phosphorylation site [posttranslational modification] 652103011476 intermolecular recognition site; other site 652103011477 dimerization interface [polypeptide binding]; other site 652103011478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103011479 Response regulator receiver domain; Region: Response_reg; pfam00072 652103011480 active site 652103011481 phosphorylation site [posttranslational modification] 652103011482 intermolecular recognition site; other site 652103011483 dimerization interface [polypeptide binding]; other site 652103011484 Ethanolamine utilisation protein EutA; Region: EutA; pfam06277 652103011485 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 652103011486 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 652103011487 DNA binding residues [nucleotide binding] 652103011488 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 652103011489 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 652103011490 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 652103011491 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011492 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103011493 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 652103011494 Gram-negative bacterial tonB protein; Region: TonB; cl10048 652103011495 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 652103011496 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 652103011497 enoyl-CoA hydratase; Provisional; Region: PRK08290 652103011498 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 652103011499 substrate binding site [chemical binding]; other site 652103011500 oxyanion hole (OAH) forming residues; other site 652103011501 trimer interface [polypeptide binding]; other site 652103011502 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103011503 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103011504 active site 652103011505 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103011506 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103011507 active site 652103011508 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011509 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 652103011510 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 652103011511 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 652103011512 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 652103011513 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 652103011514 TPP-binding site [chemical binding]; other site 652103011515 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 652103011516 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 652103011517 dimer interface [polypeptide binding]; other site 652103011518 PYR/PP interface [polypeptide binding]; other site 652103011519 TPP binding site [chemical binding]; other site 652103011520 substrate binding site [chemical binding]; other site 652103011521 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 652103011522 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 652103011523 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 652103011524 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 652103011525 putative metal binding site [ion binding]; other site 652103011526 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 652103011527 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 652103011528 mce related protein; Region: MCE; pfam02470 652103011529 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 652103011530 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 652103011531 Walker A/P-loop; other site 652103011532 ATP binding site [chemical binding]; other site 652103011533 Q-loop/lid; other site 652103011534 ABC transporter signature motif; other site 652103011535 Walker B; other site 652103011536 D-loop; other site 652103011537 H-loop/switch region; other site 652103011538 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 652103011539 Permease; Region: Permease; cl00510 652103011540 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 652103011541 active site 652103011542 MFS_1 like family; Region: MFS_1_like; pfam12832 652103011543 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 652103011544 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 652103011545 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 652103011546 tetramer interface [polypeptide binding]; other site 652103011547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103011548 catalytic residue [active] 652103011549 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103011550 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 652103011551 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103011552 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 652103011553 putative active site [active] 652103011554 putative metal binding site [ion binding]; other site 652103011555 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103011556 S-adenosylmethionine binding site [chemical binding]; other site 652103011557 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 652103011558 dimer interface [polypeptide binding]; other site 652103011559 substrate binding site [chemical binding]; other site 652103011560 ATP binding site [chemical binding]; other site 652103011561 Helix-turn-helix domains; Region: HTH; cl00088 652103011562 Cytochrome c; Region: Cytochrom_C; cl11414 652103011563 Cytochrome C'; Region: Cytochrom_C_2; cl01610 652103011564 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103011565 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103011566 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103011567 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 652103011568 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 652103011569 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 652103011570 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 652103011571 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 652103011572 inhibitor-cofactor binding pocket; inhibition site 652103011573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103011574 catalytic residue [active] 652103011575 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 652103011576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011577 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 652103011578 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 652103011579 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 652103011580 putative NAD(P) binding site [chemical binding]; other site 652103011581 active site 652103011582 putative substrate binding site [chemical binding]; other site 652103011583 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 652103011584 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 652103011585 Mg++ binding site [ion binding]; other site 652103011586 putative catalytic motif [active] 652103011587 putative substrate binding site [chemical binding]; other site 652103011588 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 652103011589 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 652103011590 NAD(P) binding site [chemical binding]; other site 652103011591 homodimer interface [polypeptide binding]; other site 652103011592 substrate binding site [chemical binding]; other site 652103011593 active site 652103011594 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 652103011595 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 652103011596 putative ribose interaction site [chemical binding]; other site 652103011597 putative ADP binding site [chemical binding]; other site 652103011598 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103011599 active site 652103011600 nucleotide binding site [chemical binding]; other site 652103011601 HIGH motif; other site 652103011602 KMSKS motif; other site 652103011603 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 652103011604 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 652103011605 NADP binding site [chemical binding]; other site 652103011606 homopentamer interface [polypeptide binding]; other site 652103011607 substrate binding site [chemical binding]; other site 652103011608 active site 652103011609 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 652103011610 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 652103011611 putative active site [active] 652103011612 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 652103011613 active site 652103011614 dimer interface [polypeptide binding]; other site 652103011615 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 652103011616 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 652103011617 active site 652103011618 motif I; other site 652103011619 motif II; other site 652103011620 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 652103011621 putative active site [active] 652103011622 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 652103011623 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 652103011624 NAD binding site [chemical binding]; other site 652103011625 homodimer interface [polypeptide binding]; other site 652103011626 active site 652103011627 substrate binding site [chemical binding]; other site 652103011628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 652103011629 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103011630 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 652103011631 Walker A/P-loop; other site 652103011632 ATP binding site [chemical binding]; other site 652103011633 Q-loop/lid; other site 652103011634 ABC transporter signature motif; other site 652103011635 Walker B; other site 652103011636 D-loop; other site 652103011637 H-loop/switch region; other site 652103011638 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 652103011639 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 652103011640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011641 NAD(P) binding site [chemical binding]; other site 652103011642 active site 652103011643 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 652103011644 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103011645 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103011646 Family description; Region: UvrD_C_2; cl15862 652103011647 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 652103011648 putative active site [active] 652103011649 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 652103011650 PAS fold; Region: PAS_7; pfam12860 652103011651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103011652 metal binding site [ion binding]; metal-binding site 652103011653 active site 652103011654 I-site; other site 652103011655 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 652103011656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103011657 ATP binding site [chemical binding]; other site 652103011658 putative Mg++ binding site [ion binding]; other site 652103011659 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 652103011660 nucleotide binding region [chemical binding]; other site 652103011661 ATP-binding site [chemical binding]; other site 652103011662 DbpA RNA binding domain; Region: DbpA; pfam03880 652103011663 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103011664 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103011665 active site 652103011666 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 652103011667 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 652103011668 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 652103011669 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 652103011670 DNA binding residues [nucleotide binding] 652103011671 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 652103011672 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 652103011673 ABC-ATPase subunit interface; other site 652103011674 dimer interface [polypeptide binding]; other site 652103011675 putative PBP binding regions; other site 652103011676 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 652103011677 ABC-ATPase subunit interface; other site 652103011678 dimer interface [polypeptide binding]; other site 652103011679 putative PBP binding regions; other site 652103011680 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 652103011681 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 652103011682 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 652103011683 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 652103011684 metal binding site [ion binding]; metal-binding site 652103011685 manganese transport regulator MntR; Provisional; Region: PRK11050 652103011686 Helix-turn-helix domains; Region: HTH; cl00088 652103011687 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 652103011688 Helix-turn-helix domains; Region: HTH; cl00088 652103011689 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 652103011690 dimerization interface [polypeptide binding]; other site 652103011691 macrophage migration inhibition factor-like protein; Provisional; Region: PTZ00397 652103011692 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 652103011693 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 652103011694 active site 1 [active] 652103011695 dimer interface [polypeptide binding]; other site 652103011696 hexamer interface [polypeptide binding]; other site 652103011697 active site 2 [active] 652103011698 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 652103011699 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 652103011700 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 652103011701 oligomerization interface [polypeptide binding]; other site 652103011702 active site 652103011703 NAD+ binding site [chemical binding]; other site 652103011704 S-adenosylmethionine synthetase; Validated; Region: PRK05250 652103011705 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 652103011706 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 652103011707 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 652103011708 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 652103011709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011710 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 652103011711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011712 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011713 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 652103011714 putative ligand binding site [chemical binding]; other site 652103011715 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 652103011716 TM-ABC transporter signature motif; other site 652103011717 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 652103011718 TM-ABC transporter signature motif; other site 652103011719 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 652103011720 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011721 Walker A/P-loop; other site 652103011722 ATP binding site [chemical binding]; other site 652103011723 Q-loop/lid; other site 652103011724 ABC transporter signature motif; other site 652103011725 Walker B; other site 652103011726 D-loop; other site 652103011727 H-loop/switch region; other site 652103011728 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011729 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011730 Walker A/P-loop; other site 652103011731 ATP binding site [chemical binding]; other site 652103011732 Q-loop/lid; other site 652103011733 ABC transporter signature motif; other site 652103011734 Walker B; other site 652103011735 D-loop; other site 652103011736 H-loop/switch region; other site 652103011737 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 652103011738 substrate binding site [chemical binding]; other site 652103011739 THF binding site; other site 652103011740 zinc-binding site [ion binding]; other site 652103011741 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011742 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011743 Walker A/P-loop; other site 652103011744 ATP binding site [chemical binding]; other site 652103011745 Q-loop/lid; other site 652103011746 ABC transporter signature motif; other site 652103011747 Walker B; other site 652103011748 D-loop; other site 652103011749 H-loop/switch region; other site 652103011750 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103011751 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011752 Walker A/P-loop; other site 652103011753 ATP binding site [chemical binding]; other site 652103011754 Q-loop/lid; other site 652103011755 ABC transporter signature motif; other site 652103011756 Walker B; other site 652103011757 D-loop; other site 652103011758 H-loop/switch region; other site 652103011759 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 652103011760 TM-ABC transporter signature motif; other site 652103011761 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 652103011762 TM-ABC transporter signature motif; other site 652103011763 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011764 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 652103011765 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 652103011766 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 652103011767 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 652103011768 putative active site [active] 652103011769 putative substrate binding site [chemical binding]; other site 652103011770 putative cosubstrate binding site; other site 652103011771 catalytic site [active] 652103011772 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 652103011773 active site 652103011774 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 652103011775 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011776 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 652103011777 putative ligand binding site [chemical binding]; other site 652103011778 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 652103011779 TM-ABC transporter signature motif; other site 652103011780 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 652103011781 TM-ABC transporter signature motif; other site 652103011782 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103011783 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011784 Walker A/P-loop; other site 652103011785 ATP binding site [chemical binding]; other site 652103011786 Q-loop/lid; other site 652103011787 ABC transporter signature motif; other site 652103011788 Walker B; other site 652103011789 D-loop; other site 652103011790 H-loop/switch region; other site 652103011791 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011792 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011793 Walker A/P-loop; other site 652103011794 ATP binding site [chemical binding]; other site 652103011795 Q-loop/lid; other site 652103011796 ABC transporter signature motif; other site 652103011797 Walker B; other site 652103011798 D-loop; other site 652103011799 H-loop/switch region; other site 652103011800 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 652103011801 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 652103011802 DNA binding residues [nucleotide binding] 652103011803 putative dimer interface [polypeptide binding]; other site 652103011804 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103011805 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103011806 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103011807 Walker A/P-loop; other site 652103011808 ATP binding site [chemical binding]; other site 652103011809 Q-loop/lid; other site 652103011810 ABC transporter signature motif; other site 652103011811 Walker B; other site 652103011812 D-loop; other site 652103011813 H-loop/switch region; other site 652103011814 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 652103011815 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011816 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 652103011817 TM-ABC transporter signature motif; other site 652103011818 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 652103011819 TM-ABC transporter signature motif; other site 652103011820 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103011821 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 652103011822 putative ligand binding site [chemical binding]; other site 652103011823 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103011824 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103011825 Walker A/P-loop; other site 652103011826 ATP binding site [chemical binding]; other site 652103011827 Q-loop/lid; other site 652103011828 ABC transporter signature motif; other site 652103011829 Walker B; other site 652103011830 D-loop; other site 652103011831 H-loop/switch region; other site 652103011832 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 652103011833 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 652103011834 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 652103011835 substrate binding site; other site 652103011836 tetramer interface; other site 652103011837 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 652103011838 putative ADP-binding pocket [chemical binding]; other site 652103011839 ABC-2 type transporter; Region: ABC2_membrane; cl11417 652103011840 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 652103011841 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 652103011842 Walker A/P-loop; other site 652103011843 ATP binding site [chemical binding]; other site 652103011844 Q-loop/lid; other site 652103011845 ABC transporter signature motif; other site 652103011846 Walker B; other site 652103011847 D-loop; other site 652103011848 H-loop/switch region; other site 652103011849 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 652103011850 putative homodimer interface [polypeptide binding]; other site 652103011851 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 652103011852 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 652103011853 active site 652103011854 homodimer interface [polypeptide binding]; other site 652103011855 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 652103011856 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 652103011857 AMP-binding enzyme; Region: AMP-binding; cl15778 652103011858 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 652103011859 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 652103011860 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 652103011861 NADP binding site [chemical binding]; other site 652103011862 active site 652103011863 putative substrate binding site [chemical binding]; other site 652103011864 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 652103011865 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 652103011866 NAD binding site [chemical binding]; other site 652103011867 substrate binding site [chemical binding]; other site 652103011868 homodimer interface [polypeptide binding]; other site 652103011869 active site 652103011870 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 652103011871 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 652103011872 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 652103011873 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 652103011874 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 652103011875 Cupin domain; Region: Cupin_2; cl09118 652103011876 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 652103011877 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 652103011878 NADP-binding site; other site 652103011879 homotetramer interface [polypeptide binding]; other site 652103011880 substrate binding site [chemical binding]; other site 652103011881 homodimer interface [polypeptide binding]; other site 652103011882 active site 652103011883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103011884 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 652103011885 NAD(P) binding site [chemical binding]; other site 652103011886 active site 652103011887 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 652103011888 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 652103011889 Substrate binding site; other site 652103011890 Cupin domain; Region: Cupin_2; cl09118 652103011891 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 652103011892 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 652103011893 active site 652103011894 substrate binding site [chemical binding]; other site 652103011895 metal binding site [ion binding]; metal-binding site 652103011896 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 652103011897 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 652103011898 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 652103011899 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 652103011900 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103011901 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103011902 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 652103011903 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 652103011904 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103011905 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 652103011906 IMP binding site; other site 652103011907 dimer interface [polypeptide binding]; other site 652103011908 interdomain contacts; other site 652103011909 partial ornithine binding site; other site 652103011910 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 652103011911 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 652103011912 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 652103011913 DoxX; Region: DoxX; cl00976 652103011914 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 652103011915 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 652103011916 putative DNA binding site [nucleotide binding]; other site 652103011917 putative Zn2+ binding site [ion binding]; other site 652103011918 Helix-turn-helix domains; Region: HTH; cl00088 652103011919 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 652103011920 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 652103011921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103011922 Helix-turn-helix domains; Region: HTH; cl00088 652103011923 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 652103011924 putative effector binding pocket; other site 652103011925 dimerization interface [polypeptide binding]; other site 652103011926 AAA domain; Region: AAA_31; pfam13614 652103011927 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 652103011928 P-loop; other site 652103011929 Magnesium ion binding site [ion binding]; other site 652103011930 Phasin protein; Region: Phasin_2; cl11491 652103011931 Phasin protein; Region: Phasin_2; cl11491 652103011932 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 652103011933 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 652103011934 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103011935 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 652103011936 putative active site [active] 652103011937 heme pocket [chemical binding]; other site 652103011938 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 652103011939 dimer interface [polypeptide binding]; other site 652103011940 phosphorylation site [posttranslational modification] 652103011941 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 652103011942 ATP binding site [chemical binding]; other site 652103011943 Mg2+ binding site [ion binding]; other site 652103011944 G-X-G motif; other site 652103011945 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 652103011946 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 652103011947 putative active site [active] 652103011948 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103011949 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 652103011950 ligand binding site [chemical binding]; other site 652103011951 flexible hinge region; other site 652103011952 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 652103011953 putative switch regulator; other site 652103011954 non-specific DNA interactions [nucleotide binding]; other site 652103011955 DNA binding site [nucleotide binding] 652103011956 sequence specific DNA binding site [nucleotide binding]; other site 652103011957 putative cAMP binding site [chemical binding]; other site 652103011958 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 652103011959 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 652103011960 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103011961 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 652103011962 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 652103011963 thymidine phosphorylase; Provisional; Region: PRK04350 652103011964 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 652103011965 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 652103011966 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 652103011967 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 652103011968 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 652103011969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103011970 active site 652103011971 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 652103011972 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103011973 Beta-Casp domain; Region: Beta-Casp; cl12567 652103011974 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 652103011975 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 652103011976 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 652103011977 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 652103011978 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 652103011979 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 652103011980 putative PBP binding loops; other site 652103011981 ABC-ATPase subunit interface; other site 652103011982 pyrimidine utilization protein D; Region: RutD; TIGR03611 652103011983 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103011984 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103011985 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103011986 Walker A/P-loop; other site 652103011987 ATP binding site [chemical binding]; other site 652103011988 Q-loop/lid; other site 652103011989 ABC transporter signature motif; other site 652103011990 Walker B; other site 652103011991 D-loop; other site 652103011992 H-loop/switch region; other site 652103011993 pyrimidine utilization protein D; Region: RutD; TIGR03611 652103011994 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 652103011995 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 652103011996 homotrimer interaction site [polypeptide binding]; other site 652103011997 putative active site [active] 652103011998 Isochorismatase family; Region: Isochorismatase; pfam00857 652103011999 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 652103012000 catalytic triad [active] 652103012001 conserved cis-peptide bond; other site 652103012002 NMT1/THI5 like; Region: NMT1; pfam09084 652103012003 NMT1-like family; Region: NMT1_2; cl15260 652103012004 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103012005 Helix-turn-helix domains; Region: HTH; cl00088 652103012006 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 652103012007 dimerization interface [polypeptide binding]; other site 652103012008 FtsH Extracellular; Region: FtsH_ext; pfam06480 652103012009 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 652103012010 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 652103012011 Walker A motif; other site 652103012012 ATP binding site [chemical binding]; other site 652103012013 Walker B motif; other site 652103012014 arginine finger; other site 652103012015 Peptidase family M41; Region: Peptidase_M41; pfam01434 652103012016 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103012017 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103012018 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 652103012019 AsmA-like C-terminal region; Region: AsmA_2; cl15864 652103012020 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 652103012021 dimer interface [polypeptide binding]; other site 652103012022 conserved gate region; other site 652103012023 putative PBP binding loops; other site 652103012024 ABC-ATPase subunit interface; other site 652103012025 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 652103012026 dimer interface [polypeptide binding]; other site 652103012027 conserved gate region; other site 652103012028 putative PBP binding loops; other site 652103012029 ABC-ATPase subunit interface; other site 652103012030 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 652103012031 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012032 Walker A/P-loop; other site 652103012033 ATP binding site [chemical binding]; other site 652103012034 Q-loop/lid; other site 652103012035 ABC transporter signature motif; other site 652103012036 Walker B; other site 652103012037 D-loop; other site 652103012038 H-loop/switch region; other site 652103012039 TOBE domain; Region: TOBE_2; cl01440 652103012040 Predicted transcriptional regulators [Transcription]; Region: COG1378 652103012041 Helix-turn-helix domains; Region: HTH; cl00088 652103012042 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 652103012043 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 652103012044 dimer interface [polypeptide binding]; other site 652103012045 conserved gate region; other site 652103012046 putative PBP binding loops; other site 652103012047 ABC-ATPase subunit interface; other site 652103012048 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 652103012049 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 652103012050 Walker A/P-loop; other site 652103012051 ATP binding site [chemical binding]; other site 652103012052 Q-loop/lid; other site 652103012053 ABC transporter signature motif; other site 652103012054 Walker B; other site 652103012055 D-loop; other site 652103012056 H-loop/switch region; other site 652103012057 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 652103012058 NMT1-like family; Region: NMT1_2; cl15260 652103012059 Flavin Reductases; Region: FlaRed; cl00801 652103012060 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 652103012061 putative active site [active] 652103012062 catalytic triad [active] 652103012063 putative dimer interface [polypeptide binding]; other site 652103012064 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 652103012065 PAS fold; Region: PAS_7; pfam12860 652103012066 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 652103012067 PAS fold; Region: PAS_4; pfam08448 652103012068 PAS fold; Region: PAS_4; pfam08448 652103012069 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103012070 metal binding site [ion binding]; metal-binding site 652103012071 active site 652103012072 I-site; other site 652103012073 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 652103012074 Predicted dehydrogenase [General function prediction only]; Region: COG0579 652103012075 Protein of unknown function (DUF465); Region: DUF465; cl01070 652103012076 Protein of unknown function (DUF465); Region: DUF465; cl01070 652103012077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103012078 metal binding site [ion binding]; metal-binding site 652103012079 active site 652103012080 I-site; other site 652103012081 AIR carboxylase; Region: AIRC; cl00310 652103012082 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 652103012083 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103012084 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 652103012085 Cupin domain; Region: Cupin_2; cl09118 652103012086 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 652103012087 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 652103012088 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 652103012089 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 652103012090 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 652103012091 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 652103012092 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 652103012093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012095 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 652103012096 Fic/DOC family; Region: Fic; cl00960 652103012097 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 652103012098 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 652103012099 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 652103012100 active site 652103012101 Zn binding site [ion binding]; other site 652103012102 Integral membrane protein TerC family; Region: TerC; cl10468 652103012103 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 652103012104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012105 active site 652103012106 phosphorylation site [posttranslational modification] 652103012107 intermolecular recognition site; other site 652103012108 dimerization interface [polypeptide binding]; other site 652103012109 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 652103012110 Walker A motif; other site 652103012111 ATP binding site [chemical binding]; other site 652103012112 Walker B motif; other site 652103012113 arginine finger; other site 652103012114 Helix-turn-helix domains; Region: HTH; cl00088 652103012115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 652103012116 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103012117 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103012118 Peptidase M15; Region: Peptidase_M15_3; cl01194 652103012119 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 652103012120 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 652103012121 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 652103012122 pyruvate kinase; Provisional; Region: PRK06247 652103012123 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103012124 domain interfaces; other site 652103012125 active site 652103012126 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 652103012127 OsmC-like protein; Region: OsmC; cl00767 652103012128 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 652103012129 binding surface 652103012130 TPR repeat; Region: TPR_11; pfam13414 652103012131 TPR motif; other site 652103012132 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 652103012133 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 652103012134 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 652103012135 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 652103012136 motif II; other site 652103012137 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 652103012138 putative deacylase active site [active] 652103012139 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 652103012140 DctM-like transporters; Region: DctM; pfam06808 652103012141 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103012142 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 652103012143 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 652103012144 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103012145 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012146 dimer interface [polypeptide binding]; other site 652103012147 putative CheW interface [polypeptide binding]; other site 652103012148 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 652103012149 PAS fold; Region: PAS_3; pfam08447 652103012150 putative active site [active] 652103012151 heme pocket [chemical binding]; other site 652103012152 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 652103012153 MatE; Region: MatE; cl10513 652103012154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012155 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 652103012156 NAD(P) binding site [chemical binding]; other site 652103012157 active site 652103012158 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 652103012159 Patatin phospholipase; Region: DUF3734; pfam12536 652103012160 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 652103012161 glutamine synthetase; Region: PLN02284 652103012162 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 652103012163 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 652103012164 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 652103012165 Glutaminase; Region: Glutaminase; cl00907 652103012166 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 652103012167 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 652103012168 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103012169 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 652103012170 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 652103012171 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 652103012172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012174 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 652103012175 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 652103012176 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 652103012177 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 652103012178 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103012179 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 652103012180 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 652103012181 dimer interface [polypeptide binding]; other site 652103012182 conserved gate region; other site 652103012183 putative PBP binding loops; other site 652103012184 ABC-ATPase subunit interface; other site 652103012185 sulfate transport protein; Provisional; Region: cysT; CHL00187 652103012186 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 652103012187 dimer interface [polypeptide binding]; other site 652103012188 conserved gate region; other site 652103012189 putative PBP binding loops; other site 652103012190 ABC-ATPase subunit interface; other site 652103012191 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103012192 active site 652103012193 CsbD-like; Region: CsbD; cl15799 652103012194 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103012195 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103012196 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 652103012197 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 652103012198 two-component response regulator; Provisional; Region: PRK09191 652103012199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012200 active site 652103012201 phosphorylation site [posttranslational modification] 652103012202 intermolecular recognition site; other site 652103012203 dimerization interface [polypeptide binding]; other site 652103012204 RNA polymerase sigma factor; Provisional; Region: PRK12540 652103012205 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103012206 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 652103012207 DNA binding residues [nucleotide binding] 652103012208 CHASE domain; Region: CHASE; cl01369 652103012209 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 652103012210 Histidine kinase; Region: HisKA_2; cl06527 652103012211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012212 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 652103012213 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 652103012214 putative [4Fe-4S] binding site [ion binding]; other site 652103012215 putative molybdopterin cofactor binding site [chemical binding]; other site 652103012216 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 652103012217 putative molybdopterin cofactor binding site; other site 652103012218 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 652103012219 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103012220 ligand binding site [chemical binding]; other site 652103012221 flexible hinge region; other site 652103012222 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 652103012223 putative switch regulator; other site 652103012224 non-specific DNA interactions [nucleotide binding]; other site 652103012225 DNA binding site [nucleotide binding] 652103012226 sequence specific DNA binding site [nucleotide binding]; other site 652103012227 putative cAMP binding site [chemical binding]; other site 652103012228 Cytochrome c; Region: Cytochrom_C; cl11414 652103012229 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 652103012230 mce related protein; Region: MCE; pfam02470 652103012231 Protein of unknown function (DUF330); Region: DUF330; cl01135 652103012232 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 652103012233 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 652103012234 Walker A/P-loop; other site 652103012235 ATP binding site [chemical binding]; other site 652103012236 Q-loop/lid; other site 652103012237 ABC transporter signature motif; other site 652103012238 Walker B; other site 652103012239 D-loop; other site 652103012240 H-loop/switch region; other site 652103012241 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 652103012242 Permease; Region: Permease; cl00510 652103012243 IncA protein; Region: IncA; pfam04156 652103012244 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 652103012245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012246 CoA-ligase; Region: Ligase_CoA; cl02894 652103012247 ATP-grasp domain; Region: ATP-grasp_4; cl03087 652103012248 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 652103012249 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 652103012250 FOG: CBS domain [General function prediction only]; Region: COG0517 652103012251 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 652103012252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 652103012253 Predicted kinase [General function prediction only]; Region: COG0645 652103012254 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012255 active site 652103012256 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 652103012257 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 652103012258 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 652103012259 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 652103012260 Ligand Binding Site [chemical binding]; other site 652103012261 FOG: CBS domain [General function prediction only]; Region: COG0517 652103012262 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 652103012263 BON domain; Region: BON; cl02771 652103012264 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 652103012265 hypothetical protein; Provisional; Region: PRK13560 652103012266 PAS domain S-box; Region: sensory_box; TIGR00229 652103012267 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 652103012268 putative active site [active] 652103012269 heme pocket [chemical binding]; other site 652103012270 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 652103012271 dimer interface [polypeptide binding]; other site 652103012272 phosphorylation site [posttranslational modification] 652103012273 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 652103012274 ATP binding site [chemical binding]; other site 652103012275 Mg2+ binding site [ion binding]; other site 652103012276 G-X-G motif; other site 652103012277 response regulator FixJ; Provisional; Region: fixJ; PRK09390 652103012278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012279 active site 652103012280 phosphorylation site [posttranslational modification] 652103012281 intermolecular recognition site; other site 652103012282 dimerization interface [polypeptide binding]; other site 652103012283 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 652103012284 DNA binding residues [nucleotide binding] 652103012285 dimerization interface [polypeptide binding]; other site 652103012286 Response regulator receiver domain; Region: Response_reg; pfam00072 652103012287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012288 active site 652103012289 phosphorylation site [posttranslational modification] 652103012290 intermolecular recognition site; other site 652103012291 dimerization interface [polypeptide binding]; other site 652103012292 transcriptional regulator FixK; Provisional; Region: fixK; PRK09391 652103012293 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 652103012294 ligand binding site [chemical binding]; other site 652103012295 flexible hinge region; other site 652103012296 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 652103012297 putative switch regulator; other site 652103012298 non-specific DNA interactions [nucleotide binding]; other site 652103012299 DNA binding site [nucleotide binding] 652103012300 sequence specific DNA binding site [nucleotide binding]; other site 652103012301 putative cAMP binding site [chemical binding]; other site 652103012302 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 652103012303 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 652103012304 homodimer interface [polypeptide binding]; other site 652103012305 substrate-cofactor binding pocket; other site 652103012306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012307 catalytic residue [active] 652103012308 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 652103012309 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103012310 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103012311 NADH dehydrogenase subunit 5; Provisional; Region: ND5; MTH00095 652103012312 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 652103012313 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 652103012314 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 652103012315 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 652103012316 4Fe-4S binding domain; Region: Fer4; cl02805 652103012317 4Fe-4S binding domain; Region: Fer4; cl02805 652103012318 NADH dehydrogenase; Region: NADHdh; cl00469 652103012319 NADH dehydrogenase subunit G; Validated; Region: PRK08166 652103012320 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 652103012321 catalytic loop [active] 652103012322 iron binding site [ion binding]; other site 652103012323 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 652103012324 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 652103012325 [4Fe-4S] binding site [ion binding]; other site 652103012326 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 652103012327 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 652103012328 SLBB domain; Region: SLBB; pfam10531 652103012329 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 652103012330 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 652103012331 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 652103012332 putative dimer interface [polypeptide binding]; other site 652103012333 [2Fe-2S] cluster binding site [ion binding]; other site 652103012334 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 652103012335 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 652103012336 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 652103012337 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 652103012338 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 652103012339 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 652103012340 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 652103012341 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 652103012342 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012343 Walker A/P-loop; other site 652103012344 ATP binding site [chemical binding]; other site 652103012345 Q-loop/lid; other site 652103012346 ABC transporter signature motif; other site 652103012347 Walker B; other site 652103012348 D-loop; other site 652103012349 H-loop/switch region; other site 652103012350 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 652103012351 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 652103012352 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 652103012353 AMP-binding enzyme; Region: AMP-binding; cl15778 652103012354 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103012355 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 652103012356 catalytic triad [active] 652103012357 dimer interface [polypeptide binding]; other site 652103012358 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 652103012359 RNA/DNA hybrid binding site [nucleotide binding]; other site 652103012360 active site 652103012361 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 652103012362 Phosphotransferase enzyme family; Region: APH; pfam01636 652103012363 putative active site [active] 652103012364 putative substrate binding site [chemical binding]; other site 652103012365 ATP binding site [chemical binding]; other site 652103012366 LytB protein; Region: LYTB; cl00507 652103012367 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 652103012368 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 652103012369 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 652103012370 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 652103012371 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 652103012372 oligomeric interface; other site 652103012373 putative active site [active] 652103012374 homodimer interface [polypeptide binding]; other site 652103012375 Sensors of blue-light using FAD; Region: BLUF; cl04855 652103012376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 652103012377 Helix-turn-helix domains; Region: HTH; cl00088 652103012378 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 652103012379 dimerization interface [polypeptide binding]; other site 652103012380 YceI-like domain; Region: YceI; cl01001 652103012381 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 652103012382 putative FMN binding site [chemical binding]; other site 652103012383 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103012384 S-adenosylmethionine binding site [chemical binding]; other site 652103012385 HipA-like N-terminal domain; Region: HipA_N; pfam07805 652103012386 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 652103012387 Phosphate-starvation-inducible E; Region: PsiE; cl01264 652103012388 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103012389 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 652103012390 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 652103012391 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 652103012392 GDP-binding site [chemical binding]; other site 652103012393 ACT binding site; other site 652103012394 IMP binding site; other site 652103012395 PilZ domain; Region: PilZ; cl01260 652103012396 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 652103012397 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 652103012398 active site 652103012399 catalytic tetrad [active] 652103012400 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 652103012401 putative deacylase active site [active] 652103012402 EamA-like transporter family; Region: EamA; cl01037 652103012403 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103012404 EamA-like transporter family; Region: EamA; cl01037 652103012405 EamA-like transporter family; Region: EamA; cl01037 652103012406 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 652103012407 EamA-like transporter family; Region: EamA; cl01037 652103012408 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 652103012409 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012410 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012411 Cache domain; Region: Cache_1; pfam02743 652103012412 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 652103012413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012414 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103012415 dimer interface [polypeptide binding]; other site 652103012416 putative CheW interface [polypeptide binding]; other site 652103012417 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 652103012418 diiron binding motif [ion binding]; other site 652103012419 Uncharacterized conserved protein [Function unknown]; Region: COG1633 652103012420 CCC1-related family of proteins; Region: CCC1_like; cl00278 652103012421 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 652103012422 Cache domain; Region: Cache_2; cl07034 652103012423 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 652103012424 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012425 dimer interface [polypeptide binding]; other site 652103012426 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103012427 putative CheW interface [polypeptide binding]; other site 652103012428 Cache domain; Region: Cache_2; cl07034 652103012429 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 652103012430 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 652103012431 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103012432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012433 dimer interface [polypeptide binding]; other site 652103012434 putative CheW interface [polypeptide binding]; other site 652103012435 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 652103012436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012437 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 652103012438 putative L-serine binding site [chemical binding]; other site 652103012439 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 652103012440 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103012441 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 652103012442 catalytic residue [active] 652103012443 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 652103012444 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 652103012445 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012446 dimer interface [polypeptide binding]; other site 652103012447 putative CheW interface [polypeptide binding]; other site 652103012448 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 652103012449 PAS fold; Region: PAS_3; pfam08447 652103012450 putative active site [active] 652103012451 heme pocket [chemical binding]; other site 652103012452 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 652103012453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 652103012454 Coenzyme A binding pocket [chemical binding]; other site 652103012455 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103012456 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 652103012457 putative C-terminal domain interface [polypeptide binding]; other site 652103012458 putative GSH binding site (G-site) [chemical binding]; other site 652103012459 putative dimer interface [polypeptide binding]; other site 652103012460 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 652103012461 N-terminal domain interface [polypeptide binding]; other site 652103012462 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103012463 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103012464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 652103012465 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 652103012466 putative substrate translocation pore; other site 652103012467 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 652103012468 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 652103012469 active site 652103012470 substrate binding site [chemical binding]; other site 652103012471 metal binding site [ion binding]; metal-binding site 652103012472 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 652103012473 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 652103012474 phosphate binding site [ion binding]; other site 652103012475 enoyl-CoA hydratase; Provisional; Region: PRK09245 652103012476 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 652103012477 substrate binding site [chemical binding]; other site 652103012478 oxyanion hole (OAH) forming residues; other site 652103012479 trimer interface [polypeptide binding]; other site 652103012480 Predicted membrane protein [Function unknown]; Region: COG2860 652103012481 UPF0126 domain; Region: UPF0126; pfam03458 652103012482 UPF0126 domain; Region: UPF0126; pfam03458 652103012483 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 652103012484 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 652103012485 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 652103012486 shikimate binding site; other site 652103012487 NAD(P) binding site [chemical binding]; other site 652103012488 putative transporter; Provisional; Region: PRK11660 652103012489 Sulfate transporter family; Region: Sulfate_transp; cl15842 652103012490 Sulfate transporter family; Region: Sulfate_transp; cl15842 652103012491 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 652103012492 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103012493 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 652103012494 elongation factor G; Reviewed; Region: PRK12740 652103012495 G1 box; other site 652103012496 putative GEF interaction site [polypeptide binding]; other site 652103012497 GTP/Mg2+ binding site [chemical binding]; other site 652103012498 Switch I region; other site 652103012499 G2 box; other site 652103012500 G3 box; other site 652103012501 Switch II region; other site 652103012502 G4 box; other site 652103012503 G5 box; other site 652103012504 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 652103012505 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 652103012506 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 652103012507 Protein of unknown function (DUF992); Region: DUF992; pfam06186 652103012508 Protein of unknown function (DUF992); Region: DUF992; pfam06186 652103012509 aspartate aminotransferase; Provisional; Region: PRK05764 652103012510 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 652103012511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012512 homodimer interface [polypeptide binding]; other site 652103012513 catalytic residue [active] 652103012514 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103012515 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 652103012516 putative C-terminal domain interface [polypeptide binding]; other site 652103012517 putative GSH binding site (G-site) [chemical binding]; other site 652103012518 putative dimer interface [polypeptide binding]; other site 652103012519 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 652103012520 dimer interface [polypeptide binding]; other site 652103012521 N-terminal domain interface [polypeptide binding]; other site 652103012522 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 652103012523 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 652103012524 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 652103012525 putative acyl-acceptor binding pocket; other site 652103012526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012527 Walker A motif; other site 652103012528 ATP binding site [chemical binding]; other site 652103012529 Walker B motif; other site 652103012530 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 652103012531 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 652103012532 active site 652103012533 catalytic tetrad [active] 652103012534 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 652103012535 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 652103012536 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 652103012537 motif II; other site 652103012538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103012539 Helix-turn-helix domains; Region: HTH; cl00088 652103012540 enoyl-CoA hydratase; Provisional; Region: PRK05980 652103012541 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 652103012542 substrate binding site [chemical binding]; other site 652103012543 oxyanion hole (OAH) forming residues; other site 652103012544 trimer interface [polypeptide binding]; other site 652103012545 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 652103012546 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 652103012547 putative C-terminal domain interface [polypeptide binding]; other site 652103012548 putative GSH binding site (G-site) [chemical binding]; other site 652103012549 putative dimer interface [polypeptide binding]; other site 652103012550 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 652103012551 putative N-terminal domain interface [polypeptide binding]; other site 652103012552 putative dimer interface [polypeptide binding]; other site 652103012553 putative substrate binding pocket (H-site) [chemical binding]; other site 652103012554 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 652103012555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103012556 SCP-2 sterol transfer family; Region: SCP2; cl01225 652103012557 excinuclease ABC subunit B; Provisional; Region: PRK05298 652103012558 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 652103012559 ATP binding site [chemical binding]; other site 652103012560 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 652103012561 nucleotide binding region [chemical binding]; other site 652103012562 ATP-binding site [chemical binding]; other site 652103012563 Ultra-violet resistance protein B; Region: UvrB; pfam12344 652103012564 UvrB/uvrC motif; Region: UVR; pfam02151 652103012565 MT-A70; Region: MT-A70; cl01947 652103012566 baseplate subunit; Provisional; Region: 48; PHA02613 652103012567 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 652103012568 oligomeric interface; other site 652103012569 putative active site [active] 652103012570 homodimer interface [polypeptide binding]; other site 652103012571 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103012572 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 652103012573 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 652103012574 dimer interface [polypeptide binding]; other site 652103012575 active site 652103012576 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 652103012577 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 652103012578 putative active site [active] 652103012579 putative catalytic site [active] 652103012580 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 652103012581 putative active site [active] 652103012582 putative catalytic site [active] 652103012583 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 652103012584 GTP-binding protein YchF; Reviewed; Region: PRK09601 652103012585 YchF GTPase; Region: YchF; cd01900 652103012586 G1 box; other site 652103012587 GTP/Mg2+ binding site [chemical binding]; other site 652103012588 Switch I region; other site 652103012589 G2 box; other site 652103012590 Switch II region; other site 652103012591 G3 box; other site 652103012592 G4 box; other site 652103012593 G5 box; other site 652103012594 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 652103012595 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 652103012596 putative active site [active] 652103012597 catalytic residue [active] 652103012598 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 652103012599 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 652103012600 5S rRNA interface [nucleotide binding]; other site 652103012601 CTC domain interface [polypeptide binding]; other site 652103012602 L16 interface [polypeptide binding]; other site 652103012603 Membrane fusogenic activity; Region: BMFP; cl01115 652103012604 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 652103012605 Uncharacterized conserved protein [Function unknown]; Region: COG1565 652103012606 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 652103012607 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 652103012608 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 652103012609 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 652103012610 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 652103012611 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103012612 active site 652103012613 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 652103012614 active site 652103012615 homopentamer interface [polypeptide binding]; other site 652103012616 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 652103012617 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 652103012618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103012620 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 652103012621 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 652103012622 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 652103012623 ATP binding site [chemical binding]; other site 652103012624 Mg2+ binding site [ion binding]; other site 652103012625 G-X-G motif; other site 652103012626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012627 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 652103012628 active site 652103012629 phosphorylation site [posttranslational modification] 652103012630 intermolecular recognition site; other site 652103012631 dimerization interface [polypeptide binding]; other site 652103012632 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 652103012633 DNA binding site [nucleotide binding] 652103012634 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103012635 Helix-turn-helix domains; Region: HTH; cl00088 652103012636 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 652103012637 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 652103012638 homodimer interface [polypeptide binding]; other site 652103012639 substrate-cofactor binding pocket; other site 652103012640 catalytic residue [active] 652103012641 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 652103012642 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 652103012643 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 652103012644 ATP binding site [chemical binding]; other site 652103012645 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 652103012646 RF-1 domain; Region: RF-1; cl02875 652103012647 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103012648 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103012649 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103012650 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 652103012651 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 652103012652 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 652103012653 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 652103012654 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 652103012655 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103012656 active site 652103012657 HIGH motif; other site 652103012658 nucleotide binding site [chemical binding]; other site 652103012659 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 652103012660 active site 652103012661 KMSKS motif; other site 652103012662 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 652103012663 tRNA binding surface [nucleotide binding]; other site 652103012664 anticodon binding site; other site 652103012665 maltose O-acetyltransferase; Provisional; Region: PRK10092 652103012666 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 652103012667 active site 652103012668 substrate binding site [chemical binding]; other site 652103012669 trimer interface [polypeptide binding]; other site 652103012670 CoA binding site [chemical binding]; other site 652103012671 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 652103012672 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 652103012673 active site 652103012674 Riboflavin kinase; Region: Flavokinase; cl03312 652103012675 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 652103012676 B1 nucleotide binding pocket [chemical binding]; other site 652103012677 B2 nucleotide binding pocket [chemical binding]; other site 652103012678 CAS motifs; other site 652103012679 active site 652103012680 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 652103012681 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; cl00284 652103012682 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; cl00284 652103012683 Predicted acetyltransferase [General function prediction only]; Region: COG3153 652103012684 Mechanosensitive ion channel; Region: MS_channel; pfam00924 652103012685 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 652103012686 nudix motif; other site 652103012687 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 652103012688 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 652103012689 putative active site [active] 652103012690 putative metal binding site [ion binding]; other site 652103012691 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 652103012692 tetramer interface [polypeptide binding]; other site 652103012693 active site 652103012694 Mg2+/Mn2+ binding site [ion binding]; other site 652103012695 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 652103012696 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 652103012697 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 652103012698 non-specific DNA binding site [nucleotide binding]; other site 652103012699 salt bridge; other site 652103012700 sequence-specific DNA binding site [nucleotide binding]; other site 652103012701 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 652103012702 Domain of unknown function (DUF955); Region: DUF955; cl01076 652103012703 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 652103012704 lytic murein transglycosylase; Region: MltB_2; TIGR02283 652103012705 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 652103012706 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 652103012707 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103012708 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 652103012709 putative ligand binding site [chemical binding]; other site 652103012710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 652103012711 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 652103012712 Walker A/P-loop; other site 652103012713 ATP binding site [chemical binding]; other site 652103012714 Q-loop/lid; other site 652103012715 ABC transporter signature motif; other site 652103012716 Walker B; other site 652103012717 D-loop; other site 652103012718 H-loop/switch region; other site 652103012719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 652103012720 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 652103012721 Walker A/P-loop; other site 652103012722 ATP binding site [chemical binding]; other site 652103012723 Q-loop/lid; other site 652103012724 ABC transporter signature motif; other site 652103012725 Walker B; other site 652103012726 D-loop; other site 652103012727 H-loop/switch region; other site 652103012728 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 652103012729 TM-ABC transporter signature motif; other site 652103012730 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 652103012731 TM-ABC transporter signature motif; other site 652103012732 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 652103012733 FMN binding site [chemical binding]; other site 652103012734 active site 652103012735 substrate binding site [chemical binding]; other site 652103012736 catalytic residue [active] 652103012737 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 652103012738 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 652103012739 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 652103012740 dimer interface [polypeptide binding]; other site 652103012741 conserved gate region; other site 652103012742 putative PBP binding loops; other site 652103012743 ABC-ATPase subunit interface; other site 652103012744 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 652103012745 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 652103012746 dimer interface [polypeptide binding]; other site 652103012747 conserved gate region; other site 652103012748 putative PBP binding loops; other site 652103012749 ABC-ATPase subunit interface; other site 652103012750 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 652103012751 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 652103012752 Walker A/P-loop; other site 652103012753 ATP binding site [chemical binding]; other site 652103012754 Q-loop/lid; other site 652103012755 ABC transporter signature motif; other site 652103012756 Walker B; other site 652103012757 D-loop; other site 652103012758 H-loop/switch region; other site 652103012759 TOBE domain; Region: TOBE_2; cl01440 652103012760 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 652103012761 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 652103012762 Walker A/P-loop; other site 652103012763 ATP binding site [chemical binding]; other site 652103012764 Q-loop/lid; other site 652103012765 ABC transporter signature motif; other site 652103012766 Walker B; other site 652103012767 D-loop; other site 652103012768 H-loop/switch region; other site 652103012769 TOBE domain; Region: TOBE_2; cl01440 652103012770 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 652103012771 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 652103012772 Helix-turn-helix domains; Region: HTH; cl00088 652103012773 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 652103012774 Flavin Reductases; Region: FlaRed; cl00801 652103012775 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 652103012776 Helix-turn-helix domains; Region: HTH; cl00088 652103012777 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103012778 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103012779 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103012780 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103012781 sensory histidine kinase AtoS; Provisional; Region: PRK11360 652103012782 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 652103012783 dimer interface [polypeptide binding]; other site 652103012784 phosphorylation site [posttranslational modification] 652103012785 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 652103012786 ATP binding site [chemical binding]; other site 652103012787 Mg2+ binding site [ion binding]; other site 652103012788 G-X-G motif; other site 652103012789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012790 active site 652103012791 phosphorylation site [posttranslational modification] 652103012792 intermolecular recognition site; other site 652103012793 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 652103012794 CsbD-like; Region: CsbD; cl15799 652103012795 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 652103012796 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 652103012797 SlyX; Region: SlyX; cl01090 652103012798 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103012799 AMP-binding enzyme; Region: AMP-binding; cl15778 652103012800 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103012801 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 652103012802 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 652103012803 ligand binding site [chemical binding]; other site 652103012804 flexible hinge region; other site 652103012805 Helix-turn-helix domains; Region: HTH; cl00088 652103012806 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 652103012807 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103012808 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 652103012809 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 652103012810 putative glutathione S-transferase; Provisional; Region: PRK10357 652103012811 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 652103012812 putative C-terminal domain interface [polypeptide binding]; other site 652103012813 putative GSH binding site (G-site) [chemical binding]; other site 652103012814 putative dimer interface [polypeptide binding]; other site 652103012815 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 652103012816 N-terminal domain interface [polypeptide binding]; other site 652103012817 dimer interface [polypeptide binding]; other site 652103012818 putative substrate binding pocket (H-site) [chemical binding]; other site 652103012819 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103012820 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 652103012821 DNA binding site [nucleotide binding] 652103012822 active site 652103012823 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 652103012824 Peptidase family M23; Region: Peptidase_M23; pfam01551 652103012825 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 652103012826 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 652103012827 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 652103012828 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 652103012829 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 652103012830 Clp amino terminal domain; Region: Clp_N; pfam02861 652103012831 Clp amino terminal domain; Region: Clp_N; pfam02861 652103012832 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 652103012833 Walker A motif; other site 652103012834 ATP binding site [chemical binding]; other site 652103012835 Walker B motif; other site 652103012836 arginine finger; other site 652103012837 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 652103012838 Walker A motif; other site 652103012839 ATP binding site [chemical binding]; other site 652103012840 Walker B motif; other site 652103012841 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 652103012842 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 652103012843 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 652103012844 MOSC domain; Region: MOSC; pfam03473 652103012845 NlpC/P60 family; Region: NLPC_P60; cl11438 652103012846 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 652103012847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103012848 S-adenosylmethionine binding site [chemical binding]; other site 652103012849 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103012850 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 652103012851 hypothetical protein; Provisional; Region: PRK06034 652103012852 Chorismate mutase type II; Region: CM_2; cl00693 652103012853 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 652103012854 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 652103012855 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103012856 homodimer interface [polypeptide binding]; other site 652103012857 catalytic residue [active] 652103012858 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 652103012859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012860 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 652103012861 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 652103012862 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103012863 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 652103012864 putative acyl-CoA synthetase; Provisional; Region: PRK06018 652103012865 AMP-binding enzyme; Region: AMP-binding; cl15778 652103012866 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103012867 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 652103012868 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 652103012869 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 652103012870 RNA polymerase sigma factor; Reviewed; Region: PRK05602 652103012871 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103012872 Cache domain; Region: Cache_2; cl07034 652103012873 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 652103012874 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012875 dimer interface [polypeptide binding]; other site 652103012876 putative CheW interface [polypeptide binding]; other site 652103012877 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 652103012878 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 652103012879 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 652103012880 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103012881 catalytic residue [active] 652103012882 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 652103012883 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 652103012884 putative active site [active] 652103012885 metal binding site [ion binding]; metal-binding site 652103012886 homodimer binding site [polypeptide binding]; other site 652103012887 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 652103012888 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 652103012889 active site 652103012890 catalytic residue [active] 652103012891 Phospholipid methyltransferase; Region: PEMT; cl00763 652103012892 Nitrogen regulatory protein P-II; Region: P-II; cl00412 652103012893 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 652103012894 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103012895 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 652103012896 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103012897 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012898 dimer interface [polypeptide binding]; other site 652103012899 putative CheW interface [polypeptide binding]; other site 652103012900 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 652103012901 PAS fold; Region: PAS_3; pfam08447 652103012902 putative active site [active] 652103012903 heme pocket [chemical binding]; other site 652103012904 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103012905 dimer interface [polypeptide binding]; other site 652103012906 putative CheW interface [polypeptide binding]; other site 652103012907 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 652103012908 PAS fold; Region: PAS_3; pfam08447 652103012909 putative active site [active] 652103012910 heme pocket [chemical binding]; other site 652103012911 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 652103012912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 652103012913 minor groove reading motif; other site 652103012914 helix-hairpin-helix signature motif; other site 652103012915 substrate binding pocket [chemical binding]; other site 652103012916 active site 652103012917 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 652103012918 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 652103012919 DNA binding and oxoG recognition site [nucleotide binding] 652103012920 Protein of unknown function (DUF721); Region: DUF721; cl02324 652103012921 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 652103012922 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 652103012923 Domain of unknown function (DUF955); Region: DUF955; cl01076 652103012924 Beta protein; Region: Beta_protein; pfam14350 652103012925 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 652103012926 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 652103012927 Walker A/P-loop; other site 652103012928 ATP binding site [chemical binding]; other site 652103012929 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 652103012930 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 652103012931 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 652103012932 ABC transporter signature motif; other site 652103012933 Walker B; other site 652103012934 D-loop; other site 652103012935 H-loop/switch region; other site 652103012936 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103012937 LemA family; Region: LemA; cl00742 652103012938 Peptidase family M48; Region: Peptidase_M48; cl12018 652103012939 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103012940 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 652103012941 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 652103012942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103012943 active site 652103012944 anthranilate synthase; Provisional; Region: PRK13566 652103012945 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 652103012946 chorismate binding enzyme; Region: Chorismate_bind; cl10555 652103012947 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 652103012948 glutamine binding [chemical binding]; other site 652103012949 catalytic triad [active] 652103012950 YcfA-like protein; Region: YcfA; cl00752 652103012951 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 652103012952 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that 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 652103012953 S-adenosylmethionine binding site [chemical binding]; other site 652103012954 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 652103012955 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103012956 PhnA protein; Region: PhnA; pfam03831 652103012957 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103012958 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 652103012959 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 652103012960 AMP-binding enzyme; Region: AMP-binding; cl15778 652103012961 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103012962 lipoprotein NlpI; Provisional; Region: PRK11189 652103012963 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 652103012964 TPR motif; other site 652103012965 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103012966 classical (c) SDRs; Region: SDR_c; cd05233 652103012967 NAD(P) binding site [chemical binding]; other site 652103012968 active site 652103012969 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 652103012970 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 652103012971 Radical SAM superfamily; Region: Radical_SAM; pfam04055 652103012972 FeS/SAM binding site; other site 652103012973 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 652103012974 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 652103012975 DctM-like transporters; Region: DctM; pfam06808 652103012976 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 652103012977 NMT1-like family; Region: NMT1_2; cl15260 652103012978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103012979 active site 652103012980 phosphorylation site [posttranslational modification] 652103012981 intermolecular recognition site; other site 652103012982 PAS fold; Region: PAS_4; pfam08448 652103012983 hypothetical protein; Provisional; Region: PRK13559 652103012984 Histidine kinase; Region: HisKA_2; cl06527 652103012985 PhoD-like phosphatase; Region: PhoD; pfam09423 652103012986 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 652103012987 putative active site [active] 652103012988 putative metal binding site [ion binding]; other site 652103012989 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 652103012990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 652103012991 NMT1-like family; Region: NMT1_2; cl15260 652103012992 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103012993 active site 652103012994 phosphorylation site [posttranslational modification] 652103012995 intermolecular recognition site; other site 652103012996 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 652103012997 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 652103012998 putative active site [active] 652103012999 putative CoA binding site [chemical binding]; other site 652103013000 nudix motif; other site 652103013001 metal binding site [ion binding]; metal-binding site 652103013002 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 652103013003 CoenzymeA binding site [chemical binding]; other site 652103013004 subunit interaction site [polypeptide binding]; other site 652103013005 PHB binding site; other site 652103013006 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 652103013007 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103013008 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 652103013009 motif II; other site 652103013010 Response regulator receiver domain; Region: Response_reg; pfam00072 652103013011 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013012 active site 652103013013 phosphorylation site [posttranslational modification] 652103013014 intermolecular recognition site; other site 652103013015 dimerization interface [polypeptide binding]; other site 652103013016 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 652103013017 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 652103013018 ATP binding site [chemical binding]; other site 652103013019 Mg2+ binding site [ion binding]; other site 652103013020 G-X-G motif; other site 652103013021 Domain of unknown function (DUF329); Region: DUF329; cl01144 652103013022 Maf-like protein; Region: Maf; pfam02545 652103013023 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 652103013024 active site 652103013025 dimer interface [polypeptide binding]; other site 652103013026 Predicted ATPase [General function prediction only]; Region: COG4637 652103013027 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 652103013028 Low molecular weight phosphatase family; Region: LMWPc; cd00115 652103013029 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 652103013030 active site 652103013031 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 652103013032 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 652103013033 histidinol dehydrogenase; Region: hisD; TIGR00069 652103013034 NAD binding site [chemical binding]; other site 652103013035 dimerization interface [polypeptide binding]; other site 652103013036 product binding site; other site 652103013037 substrate binding site [chemical binding]; other site 652103013038 zinc binding site [ion binding]; other site 652103013039 catalytic residues [active] 652103013040 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 652103013041 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 652103013042 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 652103013043 hinge; other site 652103013044 active site 652103013045 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103013046 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 652103013047 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 652103013048 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103013049 active site 652103013050 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 652103013051 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 652103013052 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 652103013053 active site 652103013054 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 652103013055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013056 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 652103013057 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 652103013058 Catalytic site; other site 652103013059 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 652103013060 CoenzymeA binding site [chemical binding]; other site 652103013061 subunit interaction site [polypeptide binding]; other site 652103013062 PHB binding site; other site 652103013063 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 652103013064 CoenzymeA binding site [chemical binding]; other site 652103013065 subunit interaction site [polypeptide binding]; other site 652103013066 PHB binding site; other site 652103013067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 652103013068 metal binding site [ion binding]; metal-binding site 652103013069 active site 652103013070 I-site; other site 652103013071 Acetokinase family; Region: Acetate_kinase; cl01029 652103013072 propionate/acetate kinase; Provisional; Region: PRK12379 652103013073 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 652103013074 (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 652103013075 dimer interaction site [polypeptide binding]; other site 652103013076 substrate-binding tunnel; other site 652103013077 active site 652103013078 catalytic site [active] 652103013079 substrate binding site [chemical binding]; other site 652103013080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 652103013081 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 652103013082 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 652103013083 NAD binding site [chemical binding]; other site 652103013084 homotetramer interface [polypeptide binding]; other site 652103013085 homodimer interface [polypeptide binding]; other site 652103013086 substrate binding site [chemical binding]; other site 652103013087 active site 652103013088 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 652103013089 BA14K-like protein; Region: BA14K; pfam07886 652103013090 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 652103013091 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 652103013092 active site 652103013093 homotetramer interface [polypeptide binding]; other site 652103013094 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 652103013095 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 652103013096 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 652103013097 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 652103013098 protein binding site [polypeptide binding]; other site 652103013099 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 652103013100 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 652103013101 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 652103013102 Walker A/P-loop; other site 652103013103 ATP binding site [chemical binding]; other site 652103013104 Q-loop/lid; other site 652103013105 ABC transporter signature motif; other site 652103013106 Walker B; other site 652103013107 D-loop; other site 652103013108 H-loop/switch region; other site 652103013109 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 652103013110 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 652103013111 TM-ABC transporter signature motif; other site 652103013112 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 652103013113 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 652103013114 TM-ABC transporter signature motif; other site 652103013115 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 652103013116 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 652103013117 putative ligand binding site [chemical binding]; other site 652103013118 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 652103013119 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 652103013120 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 652103013121 protein binding site [polypeptide binding]; other site 652103013122 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 652103013123 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 652103013124 NAD binding site [chemical binding]; other site 652103013125 homodimer interface [polypeptide binding]; other site 652103013126 active site 652103013127 substrate binding site [chemical binding]; other site 652103013128 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 652103013129 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 652103013130 O-Antigen ligase; Region: Wzy_C; cl04850 652103013131 chain length determinant protein EpsF; Region: EpsF; TIGR03017 652103013132 Chain length determinant protein; Region: Wzz; cl15801 652103013133 Protein of unknown function (DUF2869); Region: DUF2869; pfam11068 652103013134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 652103013135 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 652103013136 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 652103013137 MatE; Region: MatE; cl10513 652103013138 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 652103013139 conserved cys residue [active] 652103013140 Cupin domain; Region: Cupin_2; cl09118 652103013141 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013142 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 652103013143 oxidoreductase; Provisional; Region: PRK10015 652103013144 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 652103013145 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 652103013146 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 652103013147 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 652103013148 Ligand binding site [chemical binding]; other site 652103013149 Electron transfer flavoprotein domain; Region: ETF; pfam01012 652103013150 Nitrogen fixation protein NifW; Region: NifW; cl03935 652103013151 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 652103013152 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 652103013153 active site 652103013154 catalytic residues [active] 652103013155 metal binding site [ion binding]; metal-binding site 652103013156 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 652103013157 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 652103013158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 652103013159 catalytic residue [active] 652103013160 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 652103013161 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 652103013162 trimerization site [polypeptide binding]; other site 652103013163 active site 652103013164 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 652103013165 NifU-like domain; Region: NifU; cl00484 652103013166 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 652103013167 NifQ; Region: NifQ; pfam04891 652103013168 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 652103013169 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 652103013170 Rop-like; Region: Rop-like; cl02247 652103013171 Protein of unknown function, DUF269; Region: DUF269; cl03973 652103013172 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 652103013173 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 652103013174 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 652103013175 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 652103013176 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 652103013177 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 652103013178 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 652103013179 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 652103013180 MoFe protein beta/alpha subunit interactions; other site 652103013181 Beta subunit P cluster binding residues; other site 652103013182 MoFe protein beta subunit/Fe protein contacts; other site 652103013183 MoFe protein dimer/ dimer interactions; other site 652103013184 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 652103013185 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 652103013186 MoFe protein alpha/beta subunit interactions; other site 652103013187 Alpha subunit P cluster binding residues; other site 652103013188 FeMoco binding residues [chemical binding]; other site 652103013189 MoFe protein alpha subunit/Fe protein contacts; other site 652103013190 MoFe protein dimer/ dimer interactions; other site 652103013191 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 652103013192 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 652103013193 Nucleotide-binding sites [chemical binding]; other site 652103013194 Walker A motif; other site 652103013195 Switch I region of nucleotide binding site; other site 652103013196 Fe4S4 binding sites [ion binding]; other site 652103013197 Switch II region of nucleotide binding site; other site 652103013198 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 652103013199 NifT/FixU protein; Region: NifT; cl02351 652103013200 NifZ domain; Region: NifZ; pfam04319 652103013201 NifZ domain; Region: NifZ; pfam04319 652103013202 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 652103013203 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 652103013204 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 652103013205 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 652103013206 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 652103013207 FeS/SAM binding site; other site 652103013208 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 652103013209 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 652103013210 Nif-specific regulatory protein; Region: nifA; TIGR01817 652103013211 GAF domain; Region: GAF; cl15785 652103013212 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 652103013213 Walker A motif; other site 652103013214 ATP binding site [chemical binding]; other site 652103013215 Walker B motif; other site 652103013216 arginine finger; other site 652103013217 Helix-turn-helix domains; Region: HTH; cl00088 652103013218 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 652103013219 classical (c) SDRs; Region: SDR_c; cd05233 652103013220 NAD(P) binding site [chemical binding]; other site 652103013221 active site 652103013222 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 652103013223 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 652103013224 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 652103013225 G1 box; other site 652103013226 GTP/Mg2+ binding site [chemical binding]; other site 652103013227 Switch I region; other site 652103013228 G2 box; other site 652103013229 G3 box; other site 652103013230 Switch II region; other site 652103013231 G4 box; other site 652103013232 G5 box; other site 652103013233 Nucleoside recognition; Region: Gate; cl00486 652103013234 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 652103013235 Nucleoside recognition; Region: Gate; cl00486 652103013236 FeoA domain; Region: FeoA; cl00838 652103013237 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 652103013238 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 652103013239 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013240 dimer interface [polypeptide binding]; other site 652103013241 putative CheW interface [polypeptide binding]; other site 652103013242 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 652103013243 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 652103013244 dimer interface [polypeptide binding]; other site 652103013245 active site 652103013246 catalytic residue [active] 652103013247 metal binding site [ion binding]; metal-binding site 652103013248 hypothetical protein; Provisional; Region: PRK08185 652103013249 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 652103013250 intersubunit interface [polypeptide binding]; other site 652103013251 active site 652103013252 zinc binding site [ion binding]; other site 652103013253 Na+ binding site [ion binding]; other site 652103013254 transketolase; Reviewed; Region: PRK05899 652103013255 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 652103013256 TPP-binding site [chemical binding]; other site 652103013257 dimer interface [polypeptide binding]; other site 652103013258 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 652103013259 PYR/PP interface [polypeptide binding]; other site 652103013260 dimer interface [polypeptide binding]; other site 652103013261 TPP binding site [chemical binding]; other site 652103013262 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 652103013263 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013264 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 652103013265 metal binding site [ion binding]; metal-binding site 652103013266 active site 652103013267 Esterase/lipase [General function prediction only]; Region: COG1647 652103013268 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103013269 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 652103013270 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 652103013271 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 652103013272 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 652103013273 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 652103013274 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 652103013275 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 652103013276 FlgD Ig-like domain; Region: FlgD_ig; cl15790 652103013277 Flagellar protein FliS; Region: FliS; cl00654 652103013278 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 652103013279 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 652103013280 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 652103013281 flagellin; Provisional; Region: PRK12802 652103013282 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 652103013283 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 652103013284 RNA polymerase sigma factor; Provisional; Region: PRK12538 652103013285 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103013286 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 652103013287 DNA binding residues [nucleotide binding] 652103013288 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 652103013289 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 652103013290 active site 652103013291 homotetramer interface [polypeptide binding]; other site 652103013292 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 652103013293 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 652103013294 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 652103013295 putative substrate translocation pore; other site 652103013296 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 652103013297 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 652103013298 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 652103013299 dimerization interface [polypeptide binding]; other site 652103013300 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013301 dimer interface [polypeptide binding]; other site 652103013302 putative CheW interface [polypeptide binding]; other site 652103013303 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 652103013304 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 652103013305 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 652103013306 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 652103013307 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 652103013308 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 652103013309 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 652103013310 FAD binding domain; Region: FAD_binding_4; pfam01565 652103013311 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 652103013312 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 652103013313 CoA-transferase family III; Region: CoA_transf_3; pfam02515 652103013314 fumarylacetoacetase; Region: PLN02856 652103013315 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 652103013316 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 652103013317 maleylacetoacetate isomerase; Region: maiA; TIGR01262 652103013318 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 652103013319 C-terminal domain interface [polypeptide binding]; other site 652103013320 GSH binding site (G-site) [chemical binding]; other site 652103013321 putative dimer interface [polypeptide binding]; other site 652103013322 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 652103013323 dimer interface [polypeptide binding]; other site 652103013324 N-terminal domain interface [polypeptide binding]; other site 652103013325 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 652103013326 Cupin domain; Region: Cupin_2; cl09118 652103013327 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 652103013328 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 652103013329 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 652103013330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013331 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013332 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 652103013333 Helix-turn-helix domains; Region: HTH; cl00088 652103013334 Helix-turn-helix domains; Region: HTH; cl00088 652103013335 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 652103013336 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 652103013337 binding surface 652103013338 TPR repeat; Region: TPR_11; pfam13414 652103013339 TPR motif; other site 652103013340 TPR repeat; Region: TPR_11; pfam13414 652103013341 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103013342 ligand binding site [chemical binding]; other site 652103013343 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 652103013344 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103013345 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103013346 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 652103013347 Protein export membrane protein; Region: SecD_SecF; cl14618 652103013348 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 652103013349 AsmA-like C-terminal region; Region: AsmA_2; cl15864 652103013350 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 652103013351 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 652103013352 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 652103013353 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 652103013354 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103013355 active site 652103013356 nucleotide binding site [chemical binding]; other site 652103013357 HIGH motif; other site 652103013358 KMSKS motif; other site 652103013359 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 652103013360 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 652103013361 substrate binding pocket [chemical binding]; other site 652103013362 membrane-bound complex binding site; other site 652103013363 hinge residues; other site 652103013364 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 652103013365 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 652103013366 active site 652103013367 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 652103013368 Cu(I) binding site [ion binding]; other site 652103013369 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 652103013370 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 652103013371 dimer interface [polypeptide binding]; other site 652103013372 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 652103013373 putative CheW interface [polypeptide binding]; other site 652103013374 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 652103013375 active site 652103013376 FMN binding site [chemical binding]; other site 652103013377 substrate binding site [chemical binding]; other site 652103013378 homotetramer interface [polypeptide binding]; other site 652103013379 catalytic residue [active] 652103013380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 652103013381 NMT1-like family; Region: NMT1_2; cl15260 652103013382 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 652103013383 Helix-turn-helix domains; Region: HTH; cl00088 652103013384 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 652103013385 putative dimerization interface [polypeptide binding]; other site 652103013386 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 652103013387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 652103013388 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 652103013389 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 652103013390 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 652103013391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013392 Domain of unknown function (DUF1932); Region: DUF1932; pfam09130 652103013393 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 652103013394 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 652103013395 active site 652103013396 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 652103013397 tetramer interface [polypeptide binding]; other site 652103013398 dimer interface [polypeptide binding]; other site 652103013399 active site 652103013400 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 652103013401 active site 652103013402 Fe(II) binding site [ion binding]; other site 652103013403 dimer interface [polypeptide binding]; other site 652103013404 tetramer interface [polypeptide binding]; other site 652103013405 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 652103013406 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013407 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 652103013408 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 652103013409 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 652103013410 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 652103013411 FMN binding site [chemical binding]; other site 652103013412 substrate binding site [chemical binding]; other site 652103013413 putative catalytic residue [active] 652103013414 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 652103013415 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 652103013416 TolB amino-terminal domain; Region: TolB_N; cl00639 652103013417 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 652103013418 TPR motif; other site 652103013419 binding surface 652103013420 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 652103013421 TPR motif; other site 652103013422 TPR repeat; Region: TPR_11; pfam13414 652103013423 binding surface 652103013424 Tetratricopeptide repeat; Region: TPR_16; pfam13432 652103013425 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 652103013426 active site 652103013427 catalytic residues [active] 652103013428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013429 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 652103013430 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013431 Walker A/P-loop; other site 652103013432 ATP binding site [chemical binding]; other site 652103013433 Q-loop/lid; other site 652103013434 ABC transporter signature motif; other site 652103013435 Walker B; other site 652103013436 D-loop; other site 652103013437 H-loop/switch region; other site 652103013438 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 652103013439 dimer interface [polypeptide binding]; other site 652103013440 conserved gate region; other site 652103013441 putative PBP binding loops; other site 652103013442 ABC-ATPase subunit interface; other site 652103013443 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 652103013444 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 652103013445 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 652103013446 Helix-turn-helix domains; Region: HTH; cl00088 652103013447 TOBE domain; Region: TOBE_2; cl01440 652103013448 TOBE domain; Region: TOBE_2; cl01440 652103013449 TOBE domain; Region: TOBE_2; cl01440 652103013450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013451 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 652103013452 dimer interface [polypeptide binding]; other site 652103013453 PYR/PP interface [polypeptide binding]; other site 652103013454 TPP binding site [chemical binding]; other site 652103013455 substrate binding site [chemical binding]; other site 652103013456 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 652103013457 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 652103013458 4Fe-4S binding domain; Region: Fer4; cl02805 652103013459 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 652103013460 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 652103013461 dimer interface [polypeptide binding]; other site 652103013462 TPP-binding site [chemical binding]; other site 652103013463 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional; Region: PRK12779 652103013464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013466 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 652103013467 FAD binding pocket [chemical binding]; other site 652103013468 FAD binding motif [chemical binding]; other site 652103013469 phosphate binding motif [ion binding]; other site 652103013470 beta-alpha-beta structure motif; other site 652103013471 NAD binding pocket [chemical binding]; other site 652103013472 Iron coordination center [ion binding]; other site 652103013473 5'-3' exonuclease; Region: 53EXOc; smart00475 652103013474 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 652103013475 active site 652103013476 metal binding site 1 [ion binding]; metal-binding site 652103013477 putative 5' ssDNA interaction site; other site 652103013478 metal binding site 3; metal-binding site 652103013479 metal binding site 2 [ion binding]; metal-binding site 652103013480 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 652103013481 putative DNA binding site [nucleotide binding]; other site 652103013482 putative metal binding site [ion binding]; other site 652103013483 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 652103013484 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 652103013485 active site 652103013486 catalytic site [active] 652103013487 substrate binding site [chemical binding]; other site 652103013488 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 652103013489 active site 652103013490 DNA binding site [nucleotide binding] 652103013491 catalytic site [active] 652103013492 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 652103013493 active site 652103013494 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 652103013495 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 652103013496 homodimer interface [polypeptide binding]; other site 652103013497 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 652103013498 active site pocket [active] 652103013499 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 652103013500 Arginase family; Region: Arginase; cl00306 652103013501 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 652103013502 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103013503 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103013504 ABC transporter; Region: ABC_tran_2; pfam12848 652103013505 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 652103013506 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 652103013507 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 652103013508 putative active site pocket [active] 652103013509 dimerization interface [polypeptide binding]; other site 652103013510 putative catalytic residue [active] 652103013511 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 652103013512 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 652103013513 putative acyl-acceptor binding pocket; other site 652103013514 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 652103013515 putative active site [active] 652103013516 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 652103013517 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 652103013518 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 652103013519 Walker A/P-loop; other site 652103013520 ATP binding site [chemical binding]; other site 652103013521 Q-loop/lid; other site 652103013522 ABC transporter signature motif; other site 652103013523 Walker B; other site 652103013524 D-loop; other site 652103013525 H-loop/switch region; other site 652103013526 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 652103013527 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 652103013528 Response regulator receiver domain; Region: Response_reg; pfam00072 652103013529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013530 active site 652103013531 phosphorylation site [posttranslational modification] 652103013532 intermolecular recognition site; other site 652103013533 dimerization interface [polypeptide binding]; other site 652103013534 TIGR02302 family protein; Region: aProt_lowcomp 652103013535 Pex19 protein family; Region: Pex19; pfam04614 652103013536 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103013537 diaminopimelate decarboxylase; Region: lysA; TIGR01048 652103013538 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 652103013539 active site 652103013540 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 652103013541 substrate binding site [chemical binding]; other site 652103013542 catalytic residues [active] 652103013543 dimer interface [polypeptide binding]; other site 652103013544 argininosuccinate lyase; Provisional; Region: PRK00855 652103013545 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 652103013546 active sites [active] 652103013547 tetramer interface [polypeptide binding]; other site 652103013548 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 652103013549 catalytic residues [active] 652103013550 Protein of unknown function (DUF1428); Region: DUF1428; cl02319 652103013551 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 652103013552 Helix-turn-helix domains; Region: HTH; cl00088 652103013553 LysR family transcriptional regulator; Provisional; Region: PRK14997 652103013554 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 652103013555 putative effector binding pocket; other site 652103013556 dimerization interface [polypeptide binding]; other site 652103013557 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 652103013558 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013559 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 652103013560 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 652103013561 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 652103013562 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 652103013563 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 652103013564 Ligand binding site [chemical binding]; other site 652103013565 Electron transfer flavoprotein domain; Region: ETF; pfam01012 652103013566 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 652103013567 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 652103013568 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 652103013569 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 652103013570 dimer interface [polypeptide binding]; other site 652103013571 phosphorylation site [posttranslational modification] 652103013572 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 652103013573 ATP binding site [chemical binding]; other site 652103013574 Mg2+ binding site [ion binding]; other site 652103013575 G-X-G motif; other site 652103013576 Response regulator receiver domain; Region: Response_reg; pfam00072 652103013577 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013578 active site 652103013579 phosphorylation site [posttranslational modification] 652103013580 intermolecular recognition site; other site 652103013581 dimerization interface [polypeptide binding]; other site 652103013582 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103013583 active site 652103013584 HIGH motif; other site 652103013585 nucleotide binding site [chemical binding]; other site 652103013586 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 652103013587 active site 652103013588 KMSKS motif; other site 652103013589 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 652103013590 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 652103013591 nickel responsive regulator; Provisional; Region: PRK02967 652103013592 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 652103013593 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 652103013594 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 652103013595 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103013596 N-terminal plug; other site 652103013597 ligand-binding site [chemical binding]; other site 652103013598 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 652103013599 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 652103013600 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 652103013601 active site 652103013602 catalytic site [active] 652103013603 Transposase domain (DUF772); Region: DUF772; cl15789 652103013604 Transposase domain (DUF772); Region: DUF772; cl15789 652103013605 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 652103013606 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 652103013607 DNA binding site [nucleotide binding] 652103013608 active site 652103013609 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 652103013610 MatE; Region: MatE; cl10513 652103013611 MatE; Region: MatE; cl10513 652103013612 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 652103013613 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 652103013614 putative active site [active] 652103013615 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 652103013616 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 652103013617 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 652103013618 trimer interface [polypeptide binding]; other site 652103013619 active site 652103013620 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 652103013621 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 652103013622 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 652103013623 homodimer interface [polypeptide binding]; other site 652103013624 substrate-cofactor binding pocket; other site 652103013625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103013626 catalytic residue [active] 652103013627 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 652103013628 dimer interface [polypeptide binding]; other site 652103013629 phosphorylation site [posttranslational modification] 652103013630 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 652103013631 ATP binding site [chemical binding]; other site 652103013632 Mg2+ binding site [ion binding]; other site 652103013633 G-X-G motif; other site 652103013634 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 652103013635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013636 active site 652103013637 phosphorylation site [posttranslational modification] 652103013638 intermolecular recognition site; other site 652103013639 dimerization interface [polypeptide binding]; other site 652103013640 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 652103013641 DNA binding site [nucleotide binding] 652103013642 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 652103013643 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 652103013644 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 652103013645 DsbD alpha interface [polypeptide binding]; other site 652103013646 catalytic residues [active] 652103013647 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 652103013648 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 652103013649 catalytic residues [active] 652103013650 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103013651 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 652103013652 active site 652103013653 oxyanion hole [active] 652103013654 catalytic triad [active] 652103013655 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 652103013656 active site 652103013657 oxyanion hole [active] 652103013658 OpgC protein; Region: OpgC_C; cl00792 652103013659 Protein of unknown function (DUF525); Region: DUF525; cl01119 652103013660 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 652103013661 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 652103013662 dimerization interface [polypeptide binding]; other site 652103013663 domain crossover interface; other site 652103013664 redox-dependent activation switch; other site 652103013665 ornithine carbamoyltransferase; Provisional; Region: PRK00779 652103013666 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 652103013667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013668 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 652103013669 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 652103013670 inhibitor-cofactor binding pocket; inhibition site 652103013671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 652103013672 catalytic residue [active] 652103013673 GcrA cell cycle regulator; Region: GcrA; cl11564 652103013674 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 652103013675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013676 active site 652103013677 phosphorylation site [posttranslational modification] 652103013678 intermolecular recognition site; other site 652103013679 dimerization interface [polypeptide binding]; other site 652103013680 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 652103013681 DNA binding site [nucleotide binding] 652103013682 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 652103013683 PhoU domain; Region: PhoU; pfam01895 652103013684 PhoU domain; Region: PhoU; pfam01895 652103013685 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 652103013686 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 652103013687 Walker A/P-loop; other site 652103013688 ATP binding site [chemical binding]; other site 652103013689 Q-loop/lid; other site 652103013690 ABC transporter signature motif; other site 652103013691 Walker B; other site 652103013692 D-loop; other site 652103013693 H-loop/switch region; other site 652103013694 Protein of unknown function (DUF962); Region: DUF962; cl01879 652103013695 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 652103013696 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 652103013697 dimer interface [polypeptide binding]; other site 652103013698 conserved gate region; other site 652103013699 putative PBP binding loops; other site 652103013700 ABC-ATPase subunit interface; other site 652103013701 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 652103013702 dimer interface [polypeptide binding]; other site 652103013703 conserved gate region; other site 652103013704 putative PBP binding loops; other site 652103013705 ABC-ATPase subunit interface; other site 652103013706 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 652103013707 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 652103013708 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 652103013709 dimer interface [polypeptide binding]; other site 652103013710 phosphorylation site [posttranslational modification] 652103013711 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 652103013712 ATP binding site [chemical binding]; other site 652103013713 Mg2+ binding site [ion binding]; other site 652103013714 G-X-G motif; other site 652103013715 Predicted integral membrane protein [Function unknown]; Region: COG0392 652103013716 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 652103013717 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 652103013718 ligand binding site [chemical binding]; other site 652103013719 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 652103013720 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103013721 putative metal binding site [ion binding]; other site 652103013722 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 652103013723 putative active site [active] 652103013724 putative metal binding site [ion binding]; other site 652103013725 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 652103013726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013727 NAD(P) binding site [chemical binding]; other site 652103013728 active site 652103013729 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 652103013730 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 652103013731 non-specific DNA binding site [nucleotide binding]; other site 652103013732 salt bridge; other site 652103013733 sequence-specific DNA binding site [nucleotide binding]; other site 652103013734 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 652103013735 ADP binding site [chemical binding]; other site 652103013736 magnesium binding site [ion binding]; other site 652103013737 putative shikimate binding site; other site 652103013738 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 652103013739 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 652103013740 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103013741 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 652103013742 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 652103013743 ATP binding site [chemical binding]; other site 652103013744 Mg2+ binding site [ion binding]; other site 652103013745 G-X-G motif; other site 652103013746 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 652103013747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 652103013748 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 652103013749 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103013750 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 652103013751 dimer interface [polypeptide binding]; other site 652103013752 phosphorylation site [posttranslational modification] 652103013753 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 652103013754 ATP binding site [chemical binding]; other site 652103013755 Mg2+ binding site [ion binding]; other site 652103013756 G-X-G motif; other site 652103013757 osmolarity response regulator; Provisional; Region: ompR; PRK09468 652103013758 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013759 active site 652103013760 phosphorylation site [posttranslational modification] 652103013761 intermolecular recognition site; other site 652103013762 dimerization interface [polypeptide binding]; other site 652103013763 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 652103013764 DNA binding site [nucleotide binding] 652103013765 RNA polymerase sigma factor; Provisional; Region: PRK12515 652103013766 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 652103013767 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 652103013768 DNA binding residues [nucleotide binding] 652103013769 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 652103013770 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 652103013771 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 652103013772 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 652103013773 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 652103013774 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 652103013775 substrate binding pocket [chemical binding]; other site 652103013776 membrane-bound complex binding site; other site 652103013777 hinge residues; other site 652103013778 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 652103013779 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 652103013780 active site 652103013781 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 652103013782 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 652103013783 active site 652103013784 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 652103013785 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 652103013786 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 652103013787 putative substrate translocation pore; other site 652103013788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 652103013789 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 652103013790 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 652103013791 N-terminal plug; other site 652103013792 ligand-binding site [chemical binding]; other site 652103013793 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 652103013794 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103013795 putative ligand binding site [chemical binding]; other site 652103013796 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 652103013797 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 652103013798 Walker A/P-loop; other site 652103013799 ATP binding site [chemical binding]; other site 652103013800 Q-loop/lid; other site 652103013801 ABC transporter signature motif; other site 652103013802 Walker B; other site 652103013803 D-loop; other site 652103013804 H-loop/switch region; other site 652103013805 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 652103013806 FtsX-like permease family; Region: FtsX; cl15850 652103013807 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 652103013808 MAPEG family; Region: MAPEG; cl09190 652103013809 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 652103013810 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 652103013811 putative ligand binding site [chemical binding]; other site 652103013812 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 652103013813 heat shock protein 90; Provisional; Region: PRK05218 652103013814 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 652103013815 ATP binding site [chemical binding]; other site 652103013816 Mg2+ binding site [ion binding]; other site 652103013817 G-X-G motif; other site 652103013818 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 652103013819 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 652103013820 ATP binding site [chemical binding]; other site 652103013821 Mg2+ binding site [ion binding]; other site 652103013822 G-X-G motif; other site 652103013823 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 652103013824 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013825 active site 652103013826 phosphorylation site [posttranslational modification] 652103013827 intermolecular recognition site; other site 652103013828 dimerization interface [polypeptide binding]; other site 652103013829 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 652103013830 DNA binding site [nucleotide binding] 652103013831 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 652103013832 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 652103013833 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 652103013834 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 652103013835 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 652103013836 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 652103013837 active site 652103013838 dimer interface [polypeptide binding]; other site 652103013839 metal binding site [ion binding]; metal-binding site 652103013840 acyl-CoA synthetase; Provisional; Region: PRK13391 652103013841 AMP-binding enzyme; Region: AMP-binding; cl15778 652103013842 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 652103013843 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 652103013844 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 652103013845 ATP binding site [chemical binding]; other site 652103013846 putative Mg++ binding site [ion binding]; other site 652103013847 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 652103013848 nucleotide binding region [chemical binding]; other site 652103013849 ATP-binding site [chemical binding]; other site 652103013850 RQC domain; Region: RQC; cl09632 652103013851 HRDC domain; Region: HRDC; cl02578 652103013852 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 652103013853 Protein of unknown function (DUF3551); Region: DUF3551; pfam12071 652103013854 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 652103013855 AMP-binding enzyme; Region: AMP-binding; cl15778 652103013856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 652103013857 active site 652103013858 phosphorylation site [posttranslational modification] 652103013859 intermolecular recognition site; other site 652103013860 dimerization interface [polypeptide binding]; other site 652103013861 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 652103013862 Zn2+ binding site [ion binding]; other site 652103013863 Mg2+ binding site [ion binding]; other site 652103013864 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 652103013865 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 652103013866 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 652103013867 SLBB domain; Region: SLBB; pfam10531 652103013868 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 652103013869 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384