-- dump date 20140619_140058 -- class Genbank::misc_feature -- table misc_feature_note -- id note 400668000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 400668000002 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 400668000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400668000004 Walker A motif; other site 400668000005 ATP binding site [chemical binding]; other site 400668000006 Walker B motif; other site 400668000007 arginine finger; other site 400668000008 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 400668000009 DnaA box-binding interface [nucleotide binding]; other site 400668000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 400668000011 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 400668000012 putative DNA binding surface [nucleotide binding]; other site 400668000013 dimer interface [polypeptide binding]; other site 400668000014 beta-clamp/clamp loader binding surface; other site 400668000015 beta-clamp/translesion DNA polymerase binding surface; other site 400668000016 recombination protein F; Reviewed; Region: recF; PRK00064 400668000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000018 Walker A/P-loop; other site 400668000019 ATP binding site [chemical binding]; other site 400668000020 Q-loop/lid; other site 400668000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000022 ABC transporter signature motif; other site 400668000023 Walker B; other site 400668000024 D-loop; other site 400668000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 400668000026 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 400668000027 ATP binding site [chemical binding]; other site 400668000028 Mg2+ binding site [ion binding]; other site 400668000029 G-X-G motif; other site 400668000030 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 400668000031 anchoring element; other site 400668000032 dimer interface [polypeptide binding]; other site 400668000033 ATP binding site [chemical binding]; other site 400668000034 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 400668000035 active site 400668000036 putative metal-binding site [ion binding]; other site 400668000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 400668000038 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 400668000039 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 400668000040 NADP binding site [chemical binding]; other site 400668000041 Predicted transcriptional regulators [Transcription]; Region: COG1733 400668000042 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400668000043 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 400668000044 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 400668000045 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 400668000046 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 400668000047 N-terminal plug; other site 400668000048 ligand-binding site [chemical binding]; other site 400668000049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668000050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668000051 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 400668000052 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 400668000053 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000054 putative substrate translocation pore; other site 400668000055 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 400668000056 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 400668000057 active site 400668000058 motif I; other site 400668000059 motif II; other site 400668000060 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 400668000061 putative deacylase active site [active] 400668000062 Cation transport protein; Region: TrkH; cl17365 400668000063 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 400668000064 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 400668000065 TrkA-N domain; Region: TrkA_N; pfam02254 400668000066 TrkA-C domain; Region: TrkA_C; pfam02080 400668000067 TrkA-N domain; Region: TrkA_N; pfam02254 400668000068 TrkA-C domain; Region: TrkA_C; pfam02080 400668000069 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 400668000070 putative RNA binding site [nucleotide binding]; other site 400668000071 16S rRNA methyltransferase B; Provisional; Region: PRK10901 400668000072 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 400668000073 S-adenosylmethionine binding site [chemical binding]; other site 400668000074 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 400668000075 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 400668000076 putative active site [active] 400668000077 substrate binding site [chemical binding]; other site 400668000078 putative cosubstrate binding site; other site 400668000079 catalytic site [active] 400668000080 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 400668000081 substrate binding site [chemical binding]; other site 400668000082 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 400668000083 active site 400668000084 catalytic residues [active] 400668000085 metal binding site [ion binding]; metal-binding site 400668000086 DNA protecting protein DprA; Region: dprA; TIGR00732 400668000087 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 400668000088 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 400668000089 RNA binding surface [nucleotide binding]; other site 400668000090 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668000091 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 400668000092 active site 400668000093 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 400668000094 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 400668000095 active site 400668000096 catalytic site [active] 400668000097 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 400668000098 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668000099 Walker A/P-loop; other site 400668000100 ATP binding site [chemical binding]; other site 400668000101 Q-loop/lid; other site 400668000102 ABC transporter signature motif; other site 400668000103 Walker B; other site 400668000104 D-loop; other site 400668000105 H-loop/switch region; other site 400668000106 TOBE domain; Region: TOBE_2; pfam08402 400668000107 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668000108 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 400668000109 dimer interface [polypeptide binding]; other site 400668000110 conserved gate region; other site 400668000111 putative PBP binding loops; other site 400668000112 ABC-ATPase subunit interface; other site 400668000113 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668000114 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 400668000115 dimer interface [polypeptide binding]; other site 400668000116 conserved gate region; other site 400668000117 putative PBP binding loops; other site 400668000118 ABC-ATPase subunit interface; other site 400668000119 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668000120 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668000121 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668000122 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668000123 DNA binding site [nucleotide binding] 400668000124 domain linker motif; other site 400668000125 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 400668000126 ligand binding site [chemical binding]; other site 400668000127 dimerization interface [polypeptide binding]; other site 400668000128 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 400668000129 conserved cys residue [active] 400668000130 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668000131 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668000132 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668000133 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668000134 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668000135 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668000136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668000137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668000138 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 400668000139 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 400668000140 dimer interface [polypeptide binding]; other site 400668000141 active site 400668000142 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668000143 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668000144 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668000145 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668000146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000148 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 400668000149 dimerization interface [polypeptide binding]; other site 400668000150 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 400668000151 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668000152 DNA-binding site [nucleotide binding]; DNA binding site 400668000153 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400668000154 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 400668000155 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 400668000156 putative active site pocket [active] 400668000157 putative metal binding site [ion binding]; other site 400668000158 putative oxidoreductase; Provisional; Region: PRK10083 400668000159 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 400668000160 putative NAD(P) binding site [chemical binding]; other site 400668000161 catalytic Zn binding site [ion binding]; other site 400668000162 structural Zn binding site [ion binding]; other site 400668000163 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668000164 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668000165 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668000166 DctM-like transporters; Region: DctM; pfam06808 400668000167 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668000168 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 400668000169 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668000170 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668000171 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668000172 DctM-like transporters; Region: DctM; pfam06808 400668000173 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668000174 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668000175 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000176 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 400668000177 dimerization interface [polypeptide binding]; other site 400668000178 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 400668000179 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 400668000180 inhibitor-cofactor binding pocket; inhibition site 400668000181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668000182 catalytic residue [active] 400668000183 succinic semialdehyde dehydrogenase; Region: PLN02278 400668000184 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668000185 tetramerization interface [polypeptide binding]; other site 400668000186 NAD(P) binding site [chemical binding]; other site 400668000187 catalytic residues [active] 400668000188 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 400668000189 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 400668000190 N-terminal plug; other site 400668000191 ligand-binding site [chemical binding]; other site 400668000192 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400668000193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668000194 DNA-binding site [nucleotide binding]; DNA binding site 400668000195 FCD domain; Region: FCD; pfam07729 400668000196 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 400668000197 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 400668000198 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400668000199 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400668000200 inhibitor site; inhibition site 400668000201 active site 400668000202 dimer interface [polypeptide binding]; other site 400668000203 catalytic residue [active] 400668000204 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 400668000205 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 400668000206 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 400668000207 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668000208 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668000209 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400668000210 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668000211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668000212 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 400668000213 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 400668000214 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400668000215 putative acyl-acceptor binding pocket; other site 400668000216 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 400668000217 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 400668000218 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 400668000219 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 400668000220 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 400668000221 shikimate binding site; other site 400668000222 NAD(P) binding site [chemical binding]; other site 400668000223 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 400668000224 Protein of unknown function, DUF482; Region: DUF482; pfam04339 400668000225 Predicted transcriptional regulator [Transcription]; Region: COG2378 400668000226 HTH domain; Region: HTH_11; pfam08279 400668000227 WYL domain; Region: WYL; pfam13280 400668000228 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668000229 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 400668000230 putative C-terminal domain interface [polypeptide binding]; other site 400668000231 putative GSH binding site (G-site) [chemical binding]; other site 400668000232 putative dimer interface [polypeptide binding]; other site 400668000233 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 400668000234 dimer interface [polypeptide binding]; other site 400668000235 N-terminal domain interface [polypeptide binding]; other site 400668000236 putative substrate binding pocket (H-site) [chemical binding]; other site 400668000237 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 400668000238 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 400668000239 heme-binding site [chemical binding]; other site 400668000240 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 400668000241 FAD binding pocket [chemical binding]; other site 400668000242 FAD binding motif [chemical binding]; other site 400668000243 phosphate binding motif [ion binding]; other site 400668000244 beta-alpha-beta structure motif; other site 400668000245 NAD binding pocket [chemical binding]; other site 400668000246 Heme binding pocket [chemical binding]; other site 400668000247 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 400668000248 GAF domain; Region: GAF; pfam01590 400668000249 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 400668000250 Walker A motif; other site 400668000251 ATP binding site [chemical binding]; other site 400668000252 Walker B motif; other site 400668000253 arginine finger; other site 400668000254 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 400668000255 heme-binding site [chemical binding]; other site 400668000256 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 400668000257 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 400668000258 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 400668000259 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 400668000260 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 400668000261 shikimate binding site; other site 400668000262 NAD(P) binding site [chemical binding]; other site 400668000263 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 400668000264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668000265 DNA-binding site [nucleotide binding]; DNA binding site 400668000266 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400668000267 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 400668000268 FAD binding domain; Region: FAD_binding_4; pfam01565 400668000269 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 400668000270 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 400668000271 active site 400668000272 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 400668000273 dimer interface [polypeptide binding]; other site 400668000274 active site 400668000275 Schiff base residues; other site 400668000276 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668000277 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 400668000278 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 400668000279 DNA binding residues [nucleotide binding] 400668000280 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 400668000281 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 400668000282 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 400668000283 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668000284 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000286 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 400668000287 putative effector binding pocket; other site 400668000288 dimerization interface [polypeptide binding]; other site 400668000289 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 400668000290 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 400668000291 amino acid carrier protein; Region: agcS; TIGR00835 400668000292 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 400668000293 dimer interface [polypeptide binding]; other site 400668000294 motif 1; other site 400668000295 active site 400668000296 motif 2; other site 400668000297 motif 3; other site 400668000298 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 400668000299 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 400668000300 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000301 putative substrate translocation pore; other site 400668000302 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000303 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000304 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 400668000305 dimerization interface [polypeptide binding]; other site 400668000306 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 400668000307 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 400668000308 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668000309 DNA-binding site [nucleotide binding]; DNA binding site 400668000310 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 400668000311 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668000312 homodimer interface [polypeptide binding]; other site 400668000313 catalytic residue [active] 400668000314 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 400668000315 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 400668000316 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 400668000317 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 400668000318 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 400668000319 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 400668000320 D-pathway; other site 400668000321 Putative ubiquinol binding site [chemical binding]; other site 400668000322 Low-spin heme (heme b) binding site [chemical binding]; other site 400668000323 Putative water exit pathway; other site 400668000324 Binuclear center (heme o3/CuB) [ion binding]; other site 400668000325 K-pathway; other site 400668000326 Putative proton exit pathway; other site 400668000327 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 400668000328 Subunit I/III interface [polypeptide binding]; other site 400668000329 Subunit III/IV interface [polypeptide binding]; other site 400668000330 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 400668000331 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 400668000332 UbiA prenyltransferase family; Region: UbiA; pfam01040 400668000333 Tannase and feruloyl esterase; Region: Tannase; pfam07519 400668000334 classical (c) SDRs; Region: SDR_c; cd05233 400668000335 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 400668000336 NAD(P) binding site [chemical binding]; other site 400668000337 active site 400668000338 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668000339 MarR family; Region: MarR_2; pfam12802 400668000340 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 400668000341 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668000342 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668000343 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 400668000344 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 400668000345 putative substrate translocation pore; other site 400668000346 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 400668000347 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 400668000348 putative active site pocket [active] 400668000349 dimerization interface [polypeptide binding]; other site 400668000350 putative catalytic residue [active] 400668000351 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 400668000352 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 400668000353 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 400668000354 S-adenosylmethionine binding site [chemical binding]; other site 400668000355 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668000356 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 400668000357 Acyltransferase family; Region: Acyl_transf_3; pfam01757 400668000358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 400668000359 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 400668000360 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 400668000361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668000362 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668000363 penicillin-binding protein 1C; Provisional; Region: PRK11240 400668000364 Transglycosylase; Region: Transgly; pfam00912 400668000365 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400668000366 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 400668000367 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 400668000368 MG2 domain; Region: A2M_N; pfam01835 400668000369 Alpha-2-macroglobulin family; Region: A2M; pfam00207 400668000370 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 400668000371 surface patch; other site 400668000372 thioester region; other site 400668000373 H+ Antiporter protein; Region: 2A0121; TIGR00900 400668000374 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 400668000375 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668000376 Walker A/P-loop; other site 400668000377 ATP binding site [chemical binding]; other site 400668000378 Q-loop/lid; other site 400668000379 ABC transporter signature motif; other site 400668000380 Walker B; other site 400668000381 D-loop; other site 400668000382 H-loop/switch region; other site 400668000383 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 400668000384 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 400668000385 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668000386 Walker A/P-loop; other site 400668000387 ATP binding site [chemical binding]; other site 400668000388 Q-loop/lid; other site 400668000389 ABC transporter signature motif; other site 400668000390 Walker B; other site 400668000391 D-loop; other site 400668000392 H-loop/switch region; other site 400668000393 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400668000394 dipeptide transporter; Provisional; Region: PRK10913 400668000395 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 400668000396 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 400668000397 dimer interface [polypeptide binding]; other site 400668000398 conserved gate region; other site 400668000399 putative PBP binding loops; other site 400668000400 ABC-ATPase subunit interface; other site 400668000401 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668000402 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 400668000403 dimer interface [polypeptide binding]; other site 400668000404 conserved gate region; other site 400668000405 putative PBP binding loops; other site 400668000406 ABC-ATPase subunit interface; other site 400668000407 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668000408 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 400668000409 peptide binding site [polypeptide binding]; other site 400668000410 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 400668000411 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400668000412 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 400668000413 active site 400668000414 catalytic triad [active] 400668000415 oxyanion hole [active] 400668000416 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 400668000417 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 400668000418 NAD(P) binding site [chemical binding]; other site 400668000419 catalytic residues [active] 400668000420 Cache domain; Region: Cache_1; pfam02743 400668000421 HAMP domain; Region: HAMP; pfam00672 400668000422 dimerization interface [polypeptide binding]; other site 400668000423 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668000424 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000425 dimer interface [polypeptide binding]; other site 400668000426 putative CheW interface [polypeptide binding]; other site 400668000427 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 400668000428 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 400668000429 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668000430 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668000431 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668000432 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 400668000433 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 400668000434 dimer interface [polypeptide binding]; other site 400668000435 conserved gate region; other site 400668000436 putative PBP binding loops; other site 400668000437 ABC-ATPase subunit interface; other site 400668000438 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 400668000439 dimer interface [polypeptide binding]; other site 400668000440 conserved gate region; other site 400668000441 putative PBP binding loops; other site 400668000442 ABC-ATPase subunit interface; other site 400668000443 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668000444 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000445 Walker A/P-loop; other site 400668000446 ATP binding site [chemical binding]; other site 400668000447 Q-loop/lid; other site 400668000448 ABC transporter signature motif; other site 400668000449 Walker B; other site 400668000450 D-loop; other site 400668000451 H-loop/switch region; other site 400668000452 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 400668000453 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 400668000454 catalytic core [active] 400668000455 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 400668000456 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 400668000457 active site 400668000458 catalytic residues [active] 400668000459 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 400668000460 putative active site pocket [active] 400668000461 dimerization interface [polypeptide binding]; other site 400668000462 putative catalytic residue [active] 400668000463 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 400668000464 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 400668000465 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 400668000466 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 400668000467 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 400668000468 DNA binding site [nucleotide binding] 400668000469 active site 400668000470 putative hydrolase; Provisional; Region: PRK11460 400668000471 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 400668000472 Cache domain; Region: Cache_1; pfam02743 400668000473 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 400668000474 dimerization interface [polypeptide binding]; other site 400668000475 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668000476 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000477 dimer interface [polypeptide binding]; other site 400668000478 putative CheW interface [polypeptide binding]; other site 400668000479 hypothetical protein; Provisional; Region: PRK10621 400668000480 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668000481 Amb_all domain; Region: Amb_all; smart00656 400668000482 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000484 metal binding site [ion binding]; metal-binding site 400668000485 active site 400668000486 I-site; other site 400668000487 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 400668000488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000489 active site 400668000490 phosphorylation site [posttranslational modification] 400668000491 intermolecular recognition site; other site 400668000492 dimerization interface [polypeptide binding]; other site 400668000493 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000494 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000495 metal binding site [ion binding]; metal-binding site 400668000496 active site 400668000497 I-site; other site 400668000498 PAS fold; Region: PAS_4; pfam08448 400668000499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668000500 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 400668000501 dimer interface [polypeptide binding]; other site 400668000502 phosphorylation site [posttranslational modification] 400668000503 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 400668000504 ATP binding site [chemical binding]; other site 400668000505 Mg2+ binding site [ion binding]; other site 400668000506 G-X-G motif; other site 400668000507 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000508 Response regulator receiver domain; Region: Response_reg; pfam00072 400668000509 active site 400668000510 phosphorylation site [posttranslational modification] 400668000511 intermolecular recognition site; other site 400668000512 dimerization interface [polypeptide binding]; other site 400668000513 Response regulator receiver domain; Region: Response_reg; pfam00072 400668000514 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000515 active site 400668000516 phosphorylation site [posttranslational modification] 400668000517 intermolecular recognition site; other site 400668000518 dimerization interface [polypeptide binding]; other site 400668000519 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 400668000520 putative binding surface; other site 400668000521 active site 400668000522 Protein of unknown function (DUF917); Region: DUF917; cl17829 400668000523 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 400668000524 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000525 putative substrate translocation pore; other site 400668000526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000528 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 400668000529 dimerization interface [polypeptide binding]; other site 400668000530 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400668000531 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 400668000532 putative active site [active] 400668000533 heme pocket [chemical binding]; other site 400668000534 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 400668000535 putative active site [active] 400668000536 heme pocket [chemical binding]; other site 400668000537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000538 dimer interface [polypeptide binding]; other site 400668000539 putative CheW interface [polypeptide binding]; other site 400668000540 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 400668000541 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000542 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 400668000543 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 400668000544 FAD binding domain; Region: FAD_binding_4; pfam01565 400668000545 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 400668000546 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 400668000547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000549 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 400668000550 dimerization interface [polypeptide binding]; other site 400668000551 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 400668000552 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 400668000553 substrate binding pocket [chemical binding]; other site 400668000554 membrane-bound complex binding site; other site 400668000555 hinge residues; other site 400668000556 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 400668000557 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 400668000558 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 400668000559 dimer interface [polypeptide binding]; other site 400668000560 conserved gate region; other site 400668000561 ABC-ATPase subunit interface; other site 400668000562 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 400668000563 dimer interface [polypeptide binding]; other site 400668000564 conserved gate region; other site 400668000565 putative PBP binding loops; other site 400668000566 ABC-ATPase subunit interface; other site 400668000567 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668000568 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668000569 Walker A/P-loop; other site 400668000570 ATP binding site [chemical binding]; other site 400668000571 Q-loop/lid; other site 400668000572 ABC transporter signature motif; other site 400668000573 Walker B; other site 400668000574 D-loop; other site 400668000575 H-loop/switch region; other site 400668000576 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668000577 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668000578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668000579 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668000580 Coenzyme A binding pocket [chemical binding]; other site 400668000581 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 400668000582 trimer interface [polypeptide binding]; other site 400668000583 active site 400668000584 substrate binding site [chemical binding]; other site 400668000585 CoA binding site [chemical binding]; other site 400668000586 Phosphotransferase enzyme family; Region: APH; pfam01636 400668000587 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 400668000588 active site 400668000589 ATP binding site [chemical binding]; other site 400668000590 substrate binding site [chemical binding]; other site 400668000591 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 400668000592 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668000593 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 400668000594 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000595 Walker A/P-loop; other site 400668000596 ATP binding site [chemical binding]; other site 400668000597 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400668000598 active site 400668000599 metal binding site [ion binding]; metal-binding site 400668000600 amphi-Trp domain; Region: amphi-Trp; TIGR04354 400668000601 CHASE3 domain; Region: CHASE3; cl05000 400668000602 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 400668000603 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668000604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000605 dimer interface [polypeptide binding]; other site 400668000606 putative CheW interface [polypeptide binding]; other site 400668000607 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 400668000608 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 400668000609 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 400668000610 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668000611 Predicted permeases [General function prediction only]; Region: RarD; COG2962 400668000612 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668000613 EamA-like transporter family; Region: EamA; pfam00892 400668000614 EamA-like transporter family; Region: EamA; pfam00892 400668000615 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 400668000616 EamA-like transporter family; Region: EamA; pfam00892 400668000617 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 400668000618 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 400668000619 conserved cys residue [active] 400668000620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668000621 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668000622 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400668000623 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668000624 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 400668000625 putative active site [active] 400668000626 metal binding site [ion binding]; metal-binding site 400668000627 succinic semialdehyde dehydrogenase; Region: PLN02278 400668000628 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668000629 tetramerization interface [polypeptide binding]; other site 400668000630 NAD(P) binding site [chemical binding]; other site 400668000631 catalytic residues [active] 400668000632 PAS fold; Region: PAS_4; pfam08448 400668000633 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 400668000634 putative active site [active] 400668000635 heme pocket [chemical binding]; other site 400668000636 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 400668000637 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 400668000638 Walker A motif; other site 400668000639 ATP binding site [chemical binding]; other site 400668000640 Walker B motif; other site 400668000641 arginine finger; other site 400668000642 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668000643 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 400668000644 putative substrate translocation pore; other site 400668000645 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000646 Uncharacterized conserved protein [Function unknown]; Region: COG0398 400668000647 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 400668000648 mercuric reductase; Validated; Region: PRK06370 400668000649 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668000650 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668000651 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400668000652 Protein of unknown function, DUF547; Region: DUF547; pfam04784 400668000653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000655 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668000656 dimerization interface [polypeptide binding]; other site 400668000657 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668000658 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668000659 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 400668000660 dimer interface [polypeptide binding]; other site 400668000661 conserved gate region; other site 400668000662 putative PBP binding loops; other site 400668000663 ABC-ATPase subunit interface; other site 400668000664 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 400668000665 dimer interface [polypeptide binding]; other site 400668000666 conserved gate region; other site 400668000667 putative PBP binding loops; other site 400668000668 ABC-ATPase subunit interface; other site 400668000669 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668000670 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668000671 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668000672 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000673 Walker A/P-loop; other site 400668000674 ATP binding site [chemical binding]; other site 400668000675 Q-loop/lid; other site 400668000676 ABC transporter signature motif; other site 400668000677 Walker B; other site 400668000678 D-loop; other site 400668000679 H-loop/switch region; other site 400668000680 TOBE domain; Region: TOBE_2; pfam08402 400668000681 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 400668000682 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668000683 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668000684 DNA binding site [nucleotide binding] 400668000685 domain linker motif; other site 400668000686 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 400668000687 putative dimerization interface [polypeptide binding]; other site 400668000688 putative ligand binding site [chemical binding]; other site 400668000689 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668000690 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 400668000691 active site 400668000692 dimerization interface [polypeptide binding]; other site 400668000693 PAS domain; Region: PAS_9; pfam13426 400668000694 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 400668000695 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 400668000696 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000698 metal binding site [ion binding]; metal-binding site 400668000699 active site 400668000700 I-site; other site 400668000701 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 400668000702 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 400668000703 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 400668000704 hypothetical protein; Provisional; Region: PRK11212 400668000705 HPP family; Region: HPP; pfam04982 400668000706 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668000707 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668000708 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 400668000709 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 400668000710 ATP binding site [chemical binding]; other site 400668000711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000713 metal binding site [ion binding]; metal-binding site 400668000714 active site 400668000715 I-site; other site 400668000716 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 400668000717 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000718 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668000719 dimer interface [polypeptide binding]; other site 400668000720 putative CheW interface [polypeptide binding]; other site 400668000721 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 400668000722 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 400668000723 ATP binding site [chemical binding]; other site 400668000724 Mg++ binding site [ion binding]; other site 400668000725 motif III; other site 400668000726 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 400668000727 nucleotide binding region [chemical binding]; other site 400668000728 ATP-binding site [chemical binding]; other site 400668000729 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 400668000730 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 400668000731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000732 active site 400668000733 phosphorylation site [posttranslational modification] 400668000734 intermolecular recognition site; other site 400668000735 dimerization interface [polypeptide binding]; other site 400668000736 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 400668000737 DNA binding site [nucleotide binding] 400668000738 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 400668000739 substrate binding pocket [chemical binding]; other site 400668000740 membrane-bound complex binding site; other site 400668000741 hinge residues; other site 400668000742 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668000743 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 400668000744 dimer interface [polypeptide binding]; other site 400668000745 phosphorylation site [posttranslational modification] 400668000746 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 400668000747 ATP binding site [chemical binding]; other site 400668000748 Mg2+ binding site [ion binding]; other site 400668000749 G-X-G motif; other site 400668000750 Response regulator receiver domain; Region: Response_reg; pfam00072 400668000751 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000752 active site 400668000753 phosphorylation site [posttranslational modification] 400668000754 intermolecular recognition site; other site 400668000755 dimerization interface [polypeptide binding]; other site 400668000756 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668000757 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668000758 ornithine cyclodeaminase; Validated; Region: PRK06141 400668000759 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 400668000760 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668000761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668000762 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000763 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000764 metal binding site [ion binding]; metal-binding site 400668000765 active site 400668000766 I-site; other site 400668000767 DctM-like transporters; Region: DctM; pfam06808 400668000768 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668000769 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668000770 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668000771 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668000772 Predicted kinase [General function prediction only]; Region: COG0645 400668000773 AAA domain; Region: AAA_17; pfam13207 400668000774 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400668000775 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400668000776 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668000777 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 400668000778 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 400668000779 active site 400668000780 intersubunit interface [polypeptide binding]; other site 400668000781 catalytic residue [active] 400668000782 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 400668000783 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 400668000784 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 400668000785 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 400668000786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668000787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668000788 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 400668000789 CHAP domain; Region: CHAP; pfam05257 400668000790 Glutathionylspermidine synthase preATP-grasp; Region: GSP_synth; cl00503 400668000791 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400668000792 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 400668000793 FMN binding site [chemical binding]; other site 400668000794 active site 400668000795 substrate binding site [chemical binding]; other site 400668000796 catalytic residue [active] 400668000797 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 400668000798 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668000799 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668000800 dimer interface [polypeptide binding]; other site 400668000801 putative CheW interface [polypeptide binding]; other site 400668000802 methionine aminotransferase; Validated; Region: PRK09082 400668000803 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 400668000804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668000805 homodimer interface [polypeptide binding]; other site 400668000806 catalytic residue [active] 400668000807 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 400668000808 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668000809 AsnC family; Region: AsnC_trans_reg; pfam01037 400668000810 sensor protein QseC; Provisional; Region: PRK10337 400668000811 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 400668000812 ATP binding site [chemical binding]; other site 400668000813 Mg2+ binding site [ion binding]; other site 400668000814 G-X-G motif; other site 400668000815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668000816 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668000817 active site 400668000818 phosphorylation site [posttranslational modification] 400668000819 intermolecular recognition site; other site 400668000820 dimerization interface [polypeptide binding]; other site 400668000821 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 400668000822 DNA binding site [nucleotide binding] 400668000823 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 400668000824 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400668000825 Flavodoxin; Region: Flavodoxin_1; pfam00258 400668000826 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 400668000827 FAD binding pocket [chemical binding]; other site 400668000828 conserved FAD binding motif [chemical binding]; other site 400668000829 phosphate binding motif [ion binding]; other site 400668000830 beta-alpha-beta structure motif; other site 400668000831 NAD binding pocket [chemical binding]; other site 400668000832 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 400668000833 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 400668000834 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668000835 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668000836 Walker A/P-loop; other site 400668000837 ATP binding site [chemical binding]; other site 400668000838 Q-loop/lid; other site 400668000839 ABC transporter signature motif; other site 400668000840 Walker B; other site 400668000841 D-loop; other site 400668000842 H-loop/switch region; other site 400668000843 TOBE domain; Region: TOBE_2; pfam08402 400668000844 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 400668000845 active site 400668000846 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668000847 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 400668000848 dimer interface [polypeptide binding]; other site 400668000849 conserved gate region; other site 400668000850 putative PBP binding loops; other site 400668000851 ABC-ATPase subunit interface; other site 400668000852 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 400668000853 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 400668000854 putative PBP binding loops; other site 400668000855 ABC-ATPase subunit interface; other site 400668000856 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668000857 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668000858 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668000859 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668000860 DNA binding site [nucleotide binding] 400668000861 domain linker motif; other site 400668000862 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 400668000863 putative dimerization interface [polypeptide binding]; other site 400668000864 putative ligand binding site [chemical binding]; other site 400668000865 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 400668000866 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 400668000867 putative NAD(P) binding site [chemical binding]; other site 400668000868 catalytic Zn binding site [ion binding]; other site 400668000869 structural Zn binding site [ion binding]; other site 400668000870 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668000871 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 400668000872 putative DNA binding site [nucleotide binding]; other site 400668000873 putative Zn2+ binding site [ion binding]; other site 400668000874 AsnC family; Region: AsnC_trans_reg; pfam01037 400668000875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668000876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668000877 metal binding site [ion binding]; metal-binding site 400668000878 active site 400668000879 I-site; other site 400668000880 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 400668000881 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 400668000882 NAD binding site [chemical binding]; other site 400668000883 substrate binding site [chemical binding]; other site 400668000884 catalytic Zn binding site [ion binding]; other site 400668000885 tetramer interface [polypeptide binding]; other site 400668000886 structural Zn binding site [ion binding]; other site 400668000887 myosin-cross-reactive antigen; Provisional; Region: PRK13977 400668000888 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 400668000889 BCCT family transporter; Region: BCCT; pfam02028 400668000890 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 400668000891 hypothetical protein; Provisional; Region: PRK12361 400668000892 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 400668000893 active site 400668000894 catalytic residues [active] 400668000895 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 400668000896 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000898 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 400668000899 dimerization interface [polypeptide binding]; other site 400668000900 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000901 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 400668000902 putative substrate translocation pore; other site 400668000903 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 400668000904 binding surface 400668000905 TPR motif; other site 400668000906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400668000907 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 400668000908 active site 400668000909 nucleotide binding site [chemical binding]; other site 400668000910 HIGH motif; other site 400668000911 KMSKS motif; other site 400668000912 B12 binding domain; Region: B12-binding; pfam02310 400668000913 B12 binding site [chemical binding]; other site 400668000914 Radical SAM superfamily; Region: Radical_SAM; pfam04055 400668000915 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 400668000916 Ligand Binding Site [chemical binding]; other site 400668000917 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 400668000918 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 400668000919 MOFRL family; Region: MOFRL; pfam05161 400668000920 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 400668000921 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 400668000922 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 400668000923 NAD binding site [chemical binding]; other site 400668000924 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 400668000925 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 400668000926 N-terminal plug; other site 400668000927 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 400668000928 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 400668000929 cobalamin binding residues [chemical binding]; other site 400668000930 putative BtuC binding residues; other site 400668000931 dimer interface [polypeptide binding]; other site 400668000932 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668000933 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 400668000934 ABC-ATPase subunit interface; other site 400668000935 dimer interface [polypeptide binding]; other site 400668000936 putative PBP binding regions; other site 400668000937 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668000938 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668000939 Walker A/P-loop; other site 400668000940 ATP binding site [chemical binding]; other site 400668000941 Q-loop/lid; other site 400668000942 ABC transporter signature motif; other site 400668000943 Walker B; other site 400668000944 D-loop; other site 400668000945 H-loop/switch region; other site 400668000946 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 400668000947 Transglycosylase; Region: Transgly; cl17702 400668000948 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 400668000949 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 400668000950 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 400668000951 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668000952 DNA-binding site [nucleotide binding]; DNA binding site 400668000953 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 400668000954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668000955 homodimer interface [polypeptide binding]; other site 400668000956 catalytic residue [active] 400668000957 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400668000958 EamA-like transporter family; Region: EamA; pfam00892 400668000959 Abi-like protein; Region: Abi_2; pfam07751 400668000960 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668000961 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668000962 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 400668000963 putative substrate translocation pore; other site 400668000964 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668000965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000966 Walker A/P-loop; other site 400668000967 ATP binding site [chemical binding]; other site 400668000968 Q-loop/lid; other site 400668000969 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 400668000970 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 400668000971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668000972 Walker A/P-loop; other site 400668000973 ATP binding site [chemical binding]; other site 400668000974 Q-loop/lid; other site 400668000975 ABC transporter signature motif; other site 400668000976 Walker B; other site 400668000977 D-loop; other site 400668000978 H-loop/switch region; other site 400668000979 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668000980 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 400668000981 putative DNA binding site [nucleotide binding]; other site 400668000982 putative Zn2+ binding site [ion binding]; other site 400668000983 Transposase IS200 like; Region: Y1_Tnp; cl00848 400668000984 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-1; cd12808 400668000985 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400668000986 catalytic site [active] 400668000987 DctM-like transporters; Region: DctM; pfam06808 400668000988 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668000989 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668000990 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668000991 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668000992 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668000993 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668000994 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 400668000995 putative dimerization interface [polypeptide binding]; other site 400668000996 LabA_like proteins; Region: LabA_like; cd06167 400668000997 putative metal binding site [ion binding]; other site 400668000998 Fic/DOC family; Region: Fic; pfam02661 400668000999 Transposase; Region: DEDD_Tnp_IS110; pfam01548 400668001000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 400668001001 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 400668001002 DNA polymerase I; Provisional; Region: PRK05755 400668001003 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 400668001004 active site 400668001005 metal binding site 1 [ion binding]; metal-binding site 400668001006 putative 5' ssDNA interaction site; other site 400668001007 metal binding site 3; metal-binding site 400668001008 metal binding site 2 [ion binding]; metal-binding site 400668001009 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 400668001010 putative DNA binding site [nucleotide binding]; other site 400668001011 putative metal binding site [ion binding]; other site 400668001012 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 400668001013 active site 400668001014 catalytic site [active] 400668001015 substrate binding site [chemical binding]; other site 400668001016 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 400668001017 active site 400668001018 DNA binding site [nucleotide binding] 400668001019 catalytic site [active] 400668001020 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 400668001021 active site 400668001022 metal binding site [ion binding]; metal-binding site 400668001023 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668001024 Predicted transcriptional regulator [Transcription]; Region: COG2378 400668001025 HTH domain; Region: HTH_11; pfam08279 400668001026 WYL domain; Region: WYL; pfam13280 400668001027 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668001028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668001029 metal binding site [ion binding]; metal-binding site 400668001030 active site 400668001031 I-site; other site 400668001032 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 400668001033 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 400668001034 putative active site [active] 400668001035 putative substrate binding site [chemical binding]; other site 400668001036 ATP binding site [chemical binding]; other site 400668001037 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 400668001038 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668001039 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668001040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400668001041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668001042 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668001043 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400668001044 Protein export membrane protein; Region: SecD_SecF; cl14618 400668001045 Protein export membrane protein; Region: SecD_SecF; cl14618 400668001046 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 400668001047 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 400668001048 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 400668001049 metal binding site 2 [ion binding]; metal-binding site 400668001050 putative DNA binding helix; other site 400668001051 metal binding site 1 [ion binding]; metal-binding site 400668001052 dimer interface [polypeptide binding]; other site 400668001053 structural Zn2+ binding site [ion binding]; other site 400668001054 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 400668001055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668001056 Walker A/P-loop; other site 400668001057 ATP binding site [chemical binding]; other site 400668001058 Q-loop/lid; other site 400668001059 ABC transporter signature motif; other site 400668001060 Walker B; other site 400668001061 D-loop; other site 400668001062 H-loop/switch region; other site 400668001063 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 400668001064 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 400668001065 dimer interface [polypeptide binding]; other site 400668001066 ABC-ATPase subunit interface; other site 400668001067 putative PBP binding regions; other site 400668001068 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 400668001069 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 400668001070 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 400668001071 Putative Ig domain; Region: He_PIG; pfam05345 400668001072 Outer membrane efflux protein; Region: OEP; pfam02321 400668001073 Outer membrane efflux protein; Region: OEP; pfam02321 400668001074 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 400668001075 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668001076 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668001077 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668001078 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 400668001079 active site 400668001080 putative substrate binding region [chemical binding]; other site 400668001081 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668001082 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668001083 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668001084 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 400668001085 ATP binding site [chemical binding]; other site 400668001086 Mg2+ binding site [ion binding]; other site 400668001087 G-X-G motif; other site 400668001088 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668001089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001090 active site 400668001091 phosphorylation site [posttranslational modification] 400668001092 intermolecular recognition site; other site 400668001093 dimerization interface [polypeptide binding]; other site 400668001094 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 400668001095 DNA binding site [nucleotide binding] 400668001096 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 400668001097 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 400668001098 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 400668001099 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 400668001100 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 400668001101 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 400668001102 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 400668001103 Type IV pili component [Cell motility and secretion]; Region: COG5461 400668001104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 400668001105 active site 400668001106 phosphorylation site [posttranslational modification] 400668001107 intermolecular recognition site; other site 400668001108 dimerization interface [polypeptide binding]; other site 400668001109 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 400668001110 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 400668001111 ATP binding site [chemical binding]; other site 400668001112 Walker A motif; other site 400668001113 hexamer interface [polypeptide binding]; other site 400668001114 Walker B motif; other site 400668001115 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 400668001116 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400668001117 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 400668001118 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400668001119 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 400668001120 binding surface 400668001121 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400668001122 TPR motif; other site 400668001123 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 400668001124 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 400668001125 heme binding pocket [chemical binding]; other site 400668001126 heme ligand [chemical binding]; other site 400668001127 Putative zinc-finger; Region: zf-HC2; pfam13490 400668001128 RNA polymerase sigma factor; Provisional; Region: PRK12544 400668001129 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668001130 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 400668001131 DNA binding residues [nucleotide binding] 400668001132 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 400668001133 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 400668001134 trimer interface [polypeptide binding]; other site 400668001135 putative metal binding site [ion binding]; other site 400668001136 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 400668001137 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 400668001138 active site 400668001139 Zn binding site [ion binding]; other site 400668001140 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 400668001141 HipA-like N-terminal domain; Region: HipA_N; pfam07805 400668001142 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 400668001143 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 400668001144 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 400668001145 active site 400668001146 catalytic site [active] 400668001147 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 400668001148 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 400668001149 dimer interface [polypeptide binding]; other site 400668001150 FMN binding site [chemical binding]; other site 400668001151 serine/threonine transporter SstT; Provisional; Region: PRK13628 400668001152 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400668001153 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 400668001154 H+ Antiporter protein; Region: 2A0121; TIGR00900 400668001155 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 400668001156 putative substrate translocation pore; other site 400668001157 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 400668001158 ACT domain; Region: ACT_6; pfam13740 400668001159 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 400668001160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001162 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 400668001163 putative effector binding pocket; other site 400668001164 dimerization interface [polypeptide binding]; other site 400668001165 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668001166 EamA-like transporter family; Region: EamA; pfam00892 400668001167 EamA-like transporter family; Region: EamA; pfam00892 400668001168 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 400668001169 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 400668001170 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 400668001171 DNA photolyase; Region: DNA_photolyase; pfam00875 400668001172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001174 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 400668001175 dimerization interface [polypeptide binding]; other site 400668001176 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668001177 MAPEG family; Region: MAPEG; cl09190 400668001178 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 400668001179 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 400668001180 PhnA protein; Region: PhnA; pfam03831 400668001181 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 400668001182 HAMP domain; Region: HAMP; pfam00672 400668001183 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668001184 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668001185 dimer interface [polypeptide binding]; other site 400668001186 putative CheW interface [polypeptide binding]; other site 400668001187 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 400668001188 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 400668001189 FAD binding pocket [chemical binding]; other site 400668001190 FAD binding motif [chemical binding]; other site 400668001191 phosphate binding motif [ion binding]; other site 400668001192 NAD binding pocket [chemical binding]; other site 400668001193 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400668001194 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 400668001195 N-terminal plug; other site 400668001196 ligand-binding site [chemical binding]; other site 400668001197 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 400668001198 muropeptide transporter; Validated; Region: ampG; cl17669 400668001199 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668001200 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668001201 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001202 Coenzyme A binding pocket [chemical binding]; other site 400668001203 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 400668001204 Predicted transcriptional regulators [Transcription]; Region: COG1733 400668001205 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 400668001206 SnoaL-like domain; Region: SnoaL_2; pfam12680 400668001207 short chain dehydrogenase; Provisional; Region: PRK06523 400668001208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668001209 NAD(P) binding site [chemical binding]; other site 400668001210 active site 400668001211 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 400668001212 Helix-turn-helix domain; Region: HTH_37; pfam13744 400668001213 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 400668001214 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 400668001215 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 400668001216 catalytic residue [active] 400668001217 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 400668001218 catalytic residues [active] 400668001219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668001220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668001221 peroxiredoxin; Region: AhpC; TIGR03137 400668001222 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 400668001223 dimer interface [polypeptide binding]; other site 400668001224 decamer (pentamer of dimers) interface [polypeptide binding]; other site 400668001225 catalytic triad [active] 400668001226 peroxidatic and resolving cysteines [active] 400668001227 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 400668001228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001229 active site 400668001230 phosphorylation site [posttranslational modification] 400668001231 intermolecular recognition site; other site 400668001232 dimerization interface [polypeptide binding]; other site 400668001233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668001234 Zn2+ binding site [ion binding]; other site 400668001235 Mg2+ binding site [ion binding]; other site 400668001236 PAS domain S-box; Region: sensory_box; TIGR00229 400668001237 PAS domain; Region: PAS_8; pfam13188 400668001238 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 400668001239 dimer interface [polypeptide binding]; other site 400668001240 phosphorylation site [posttranslational modification] 400668001241 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 400668001242 ATP binding site [chemical binding]; other site 400668001243 Mg2+ binding site [ion binding]; other site 400668001244 G-X-G motif; other site 400668001245 Response regulator receiver domain; Region: Response_reg; pfam00072 400668001246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001247 active site 400668001248 phosphorylation site [posttranslational modification] 400668001249 intermolecular recognition site; other site 400668001250 dimerization interface [polypeptide binding]; other site 400668001251 Response regulator receiver domain; Region: Response_reg; pfam00072 400668001252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001253 active site 400668001254 phosphorylation site [posttranslational modification] 400668001255 intermolecular recognition site; other site 400668001256 dimerization interface [polypeptide binding]; other site 400668001257 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 400668001258 putative binding surface; other site 400668001259 active site 400668001260 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 400668001261 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 400668001262 putative ligand binding site [chemical binding]; other site 400668001263 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 400668001264 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 400668001265 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 400668001266 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 400668001267 putative active site [active] 400668001268 Amidase; Region: Amidase; cl11426 400668001269 indole-3-acetamide amidohydrolase; Region: PLN02722 400668001270 Protein of unknown function (DUF502); Region: DUF502; pfam04367 400668001271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668001272 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 400668001273 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 400668001274 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 400668001275 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400668001276 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668001277 ligand binding site [chemical binding]; other site 400668001278 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 400668001279 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 400668001280 Rrf2 family protein; Region: rrf2_super; TIGR00738 400668001281 Transcriptional regulator; Region: Rrf2; pfam02082 400668001282 Predicted transcriptional regulator [Transcription]; Region: COG2378 400668001283 HTH domain; Region: HTH_11; pfam08279 400668001284 WYL domain; Region: WYL; pfam13280 400668001285 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668001286 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_11; cd07261 400668001287 putative dimer interface [polypeptide binding]; other site 400668001288 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 400668001289 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400668001290 putative active site [active] 400668001291 metal binding site [ion binding]; metal-binding site 400668001292 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668001293 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 400668001294 putative C-terminal domain interface [polypeptide binding]; other site 400668001295 putative GSH binding site (G-site) [chemical binding]; other site 400668001296 putative dimer interface [polypeptide binding]; other site 400668001297 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 400668001298 putative N-terminal domain interface [polypeptide binding]; other site 400668001299 putative dimer interface [polypeptide binding]; other site 400668001300 putative substrate binding pocket (H-site) [chemical binding]; other site 400668001301 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668001302 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668001303 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668001304 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 400668001305 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668001306 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 400668001307 dimer interface [polypeptide binding]; other site 400668001308 conserved gate region; other site 400668001309 putative PBP binding loops; other site 400668001310 ABC-ATPase subunit interface; other site 400668001311 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 400668001312 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 400668001313 putative PBP binding loops; other site 400668001314 dimer interface [polypeptide binding]; other site 400668001315 ABC-ATPase subunit interface; other site 400668001316 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 400668001317 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 400668001318 Walker A/P-loop; other site 400668001319 ATP binding site [chemical binding]; other site 400668001320 Q-loop/lid; other site 400668001321 ABC transporter signature motif; other site 400668001322 Walker B; other site 400668001323 D-loop; other site 400668001324 H-loop/switch region; other site 400668001325 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 400668001326 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 400668001327 Walker A/P-loop; other site 400668001328 ATP binding site [chemical binding]; other site 400668001329 Q-loop/lid; other site 400668001330 ABC transporter signature motif; other site 400668001331 Walker B; other site 400668001332 D-loop; other site 400668001333 H-loop/switch region; other site 400668001334 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 400668001335 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 400668001336 Walker A motif; other site 400668001337 ATP binding site [chemical binding]; other site 400668001338 Walker B motif; other site 400668001339 arginine finger; other site 400668001340 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 400668001341 homotrimer interaction site [polypeptide binding]; other site 400668001342 putative active site [active] 400668001343 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001344 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001345 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 400668001346 putative substrate binding pocket [chemical binding]; other site 400668001347 putative dimerization interface [polypeptide binding]; other site 400668001348 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 400668001349 methionine synthase; Provisional; Region: PRK01207 400668001350 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 400668001351 substrate binding site [chemical binding]; other site 400668001352 THF binding site; other site 400668001353 zinc-binding site [ion binding]; other site 400668001354 Cupin; Region: Cupin_6; pfam12852 400668001355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668001356 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 400668001357 LabA_like proteins; Region: LabA_like/DUF88; cl10034 400668001358 putative metal binding site [ion binding]; other site 400668001359 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 400668001360 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cd03873 400668001361 metal binding site [ion binding]; metal-binding site 400668001362 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668001363 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400668001364 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 400668001365 N-terminal plug; other site 400668001366 ligand-binding site [chemical binding]; other site 400668001367 Methyltransferase domain; Region: Methyltransf_23; pfam13489 400668001368 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 400668001369 S-adenosylmethionine binding site [chemical binding]; other site 400668001370 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 400668001371 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668001372 putative substrate translocation pore; other site 400668001373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 400668001374 PAS domain; Region: PAS_9; pfam13426 400668001375 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 400668001376 PAS domain; Region: PAS_9; pfam13426 400668001377 putative active site [active] 400668001378 heme pocket [chemical binding]; other site 400668001379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668001380 dimer interface [polypeptide binding]; other site 400668001381 putative CheW interface [polypeptide binding]; other site 400668001382 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 400668001383 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 400668001384 FeS/SAM binding site; other site 400668001385 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668001386 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668001387 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668001388 2-isopropylmalate synthase; Validated; Region: PRK03739 400668001389 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 400668001390 active site 400668001391 catalytic residues [active] 400668001392 metal binding site [ion binding]; metal-binding site 400668001393 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 400668001394 diguanylate cyclase; Provisional; Region: PRK09894 400668001395 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 400668001396 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668001397 metal binding site [ion binding]; metal-binding site 400668001398 active site 400668001399 I-site; other site 400668001400 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668001401 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 400668001402 dimer interface [polypeptide binding]; other site 400668001403 putative PBP binding regions; other site 400668001404 ABC-ATPase subunit interface; other site 400668001405 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 400668001406 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 400668001407 putative ligand binding residues [chemical binding]; other site 400668001408 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668001409 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668001410 Walker A/P-loop; other site 400668001411 ATP binding site [chemical binding]; other site 400668001412 Q-loop/lid; other site 400668001413 ABC transporter signature motif; other site 400668001414 Walker B; other site 400668001415 D-loop; other site 400668001416 H-loop/switch region; other site 400668001417 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 400668001418 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 400668001419 Walker A motif; other site 400668001420 ATP binding site [chemical binding]; other site 400668001421 Walker B motif; other site 400668001422 arginine finger; other site 400668001423 phage shock protein A; Region: phageshock_pspA; TIGR02977 400668001424 phage shock protein B; Provisional; Region: pspB; PRK09458 400668001425 phage shock protein C; Region: phageshock_pspC; TIGR02978 400668001426 PspC domain; Region: PspC; pfam04024 400668001427 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 400668001428 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668001429 HAMP domain; Region: HAMP; pfam00672 400668001430 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668001431 dimer interface [polypeptide binding]; other site 400668001432 putative CheW interface [polypeptide binding]; other site 400668001433 OsmC-like protein; Region: OsmC; cl00767 400668001434 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668001435 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 400668001436 putative C-terminal domain interface [polypeptide binding]; other site 400668001437 putative GSH binding site (G-site) [chemical binding]; other site 400668001438 putative dimer interface [polypeptide binding]; other site 400668001439 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 400668001440 N-terminal domain interface [polypeptide binding]; other site 400668001441 dimer interface [polypeptide binding]; other site 400668001442 substrate binding pocket (H-site) [chemical binding]; other site 400668001443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001444 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 400668001445 dimerization interface [polypeptide binding]; other site 400668001446 Uncharacterized conserved protein [Function unknown]; Region: COG1359 400668001447 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668001448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001449 Coenzyme A binding pocket [chemical binding]; other site 400668001450 EamA-like transporter family; Region: EamA; pfam00892 400668001451 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400668001452 EamA-like transporter family; Region: EamA; pfam00892 400668001453 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668001454 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 400668001455 putative DNA binding site [nucleotide binding]; other site 400668001456 putative Zn2+ binding site [ion binding]; other site 400668001457 AsnC family; Region: AsnC_trans_reg; pfam01037 400668001458 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668001459 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 400668001460 dimerization interface [polypeptide binding]; other site 400668001461 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 400668001462 ATP binding site [chemical binding]; other site 400668001463 Mg2+ binding site [ion binding]; other site 400668001464 G-X-G motif; other site 400668001465 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668001466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001467 active site 400668001468 phosphorylation site [posttranslational modification] 400668001469 intermolecular recognition site; other site 400668001470 dimerization interface [polypeptide binding]; other site 400668001471 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 400668001472 DNA binding site [nucleotide binding] 400668001473 Predicted membrane protein [Function unknown]; Region: COG3212 400668001474 Transcriptional regulators [Transcription]; Region: MarR; COG1846 400668001475 MarR family; Region: MarR; pfam01047 400668001476 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 400668001477 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 400668001478 aromatic arch; other site 400668001479 DCoH dimer interaction site [polypeptide binding]; other site 400668001480 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 400668001481 DCoH tetramer interaction site [polypeptide binding]; other site 400668001482 substrate binding site [chemical binding]; other site 400668001483 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 400668001484 non-specific DNA binding site [nucleotide binding]; other site 400668001485 salt bridge; other site 400668001486 sequence-specific DNA binding site [nucleotide binding]; other site 400668001487 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668001488 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 400668001489 nucleophilic elbow; other site 400668001490 catalytic triad; other site 400668001491 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668001492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668001493 Predicted membrane protein [Function unknown]; Region: COG3152 400668001494 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001496 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668001497 dimerization interface [polypeptide binding]; other site 400668001498 HPP family; Region: HPP; pfam04982 400668001499 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 400668001500 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668001501 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668001502 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001503 Coenzyme A binding pocket [chemical binding]; other site 400668001504 topology modulation protein; Reviewed; Region: PRK08118 400668001505 AAA domain; Region: AAA_17; pfam13207 400668001506 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668001507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001508 Coenzyme A binding pocket [chemical binding]; other site 400668001509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001510 Coenzyme A binding pocket [chemical binding]; other site 400668001511 hypothetical protein; Provisional; Region: PRK07490 400668001512 intersubunit interface [polypeptide binding]; other site 400668001513 active site 400668001514 Zn2+ binding site [ion binding]; other site 400668001515 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 400668001516 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668001517 substrate binding pocket [chemical binding]; other site 400668001518 membrane-bound complex binding site; other site 400668001519 hinge residues; other site 400668001520 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 400668001521 dimer interface [polypeptide binding]; other site 400668001522 conserved gate region; other site 400668001523 putative PBP binding loops; other site 400668001524 ABC-ATPase subunit interface; other site 400668001525 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668001526 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668001527 Walker A/P-loop; other site 400668001528 ATP binding site [chemical binding]; other site 400668001529 Q-loop/lid; other site 400668001530 ABC transporter signature motif; other site 400668001531 Walker B; other site 400668001532 D-loop; other site 400668001533 H-loop/switch region; other site 400668001534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001536 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 400668001537 putative substrate binding pocket [chemical binding]; other site 400668001538 dimerization interface [polypeptide binding]; other site 400668001539 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 400668001540 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668001541 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 400668001542 homotrimer interaction site [polypeptide binding]; other site 400668001543 putative active site [active] 400668001544 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 400668001545 acetylornithine deacetylase; Provisional; Region: PRK07522 400668001546 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 400668001547 metal binding site [ion binding]; metal-binding site 400668001548 putative dimer interface [polypeptide binding]; other site 400668001549 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668001550 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668001551 Walker A/P-loop; other site 400668001552 ATP binding site [chemical binding]; other site 400668001553 Q-loop/lid; other site 400668001554 ABC transporter signature motif; other site 400668001555 Walker B; other site 400668001556 D-loop; other site 400668001557 H-loop/switch region; other site 400668001558 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668001559 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 400668001560 dimer interface [polypeptide binding]; other site 400668001561 conserved gate region; other site 400668001562 putative PBP binding loops; other site 400668001563 ABC-ATPase subunit interface; other site 400668001564 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 400668001565 dimer interface [polypeptide binding]; other site 400668001566 conserved gate region; other site 400668001567 putative PBP binding loops; other site 400668001568 ABC-ATPase subunit interface; other site 400668001569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668001570 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 400668001571 substrate binding pocket [chemical binding]; other site 400668001572 membrane-bound complex binding site; other site 400668001573 hinge residues; other site 400668001574 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 400668001575 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 400668001576 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 400668001577 putative active site [active] 400668001578 indole-3-acetamide amidohydrolase; Region: PLN02722 400668001579 Amidase; Region: Amidase; cl11426 400668001580 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 400668001581 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 400668001582 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668001583 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 400668001584 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668001585 catalytic residue [active] 400668001586 allantoate amidohydrolase; Reviewed; Region: PRK09290 400668001587 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 400668001588 active site 400668001589 metal binding site [ion binding]; metal-binding site 400668001590 dimer interface [polypeptide binding]; other site 400668001591 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 400668001592 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668001593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668001594 dimer interface [polypeptide binding]; other site 400668001595 putative CheW interface [polypeptide binding]; other site 400668001596 Amino acid permease; Region: AA_permease_2; pfam13520 400668001597 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668001598 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668001599 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 400668001600 homotrimer interaction site [polypeptide binding]; other site 400668001601 putative active site [active] 400668001602 ornithine cyclodeaminase; Validated; Region: PRK06199 400668001603 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 400668001604 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668001605 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668001606 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668001607 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 400668001608 siderophore binding site; other site 400668001609 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668001610 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 400668001611 ABC-ATPase subunit interface; other site 400668001612 dimer interface [polypeptide binding]; other site 400668001613 putative PBP binding regions; other site 400668001614 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668001615 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 400668001616 ABC-ATPase subunit interface; other site 400668001617 dimer interface [polypeptide binding]; other site 400668001618 putative PBP binding regions; other site 400668001619 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668001620 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668001621 Walker A/P-loop; other site 400668001622 ATP binding site [chemical binding]; other site 400668001623 Q-loop/lid; other site 400668001624 ABC transporter signature motif; other site 400668001625 Walker B; other site 400668001626 D-loop; other site 400668001627 H-loop/switch region; other site 400668001628 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 400668001629 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 400668001630 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 400668001631 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 400668001632 N-terminal plug; other site 400668001633 ligand-binding site [chemical binding]; other site 400668001634 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 400668001635 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 400668001636 active site 400668001637 catalytic site [active] 400668001638 tetramer interface [polypeptide binding]; other site 400668001639 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 400668001640 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400668001641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668001642 DNA-binding site [nucleotide binding]; DNA binding site 400668001643 FCD domain; Region: FCD; pfam07729 400668001644 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 400668001645 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 400668001646 Na binding site [ion binding]; other site 400668001647 putative substrate binding site [chemical binding]; other site 400668001648 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 400668001649 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400668001650 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 400668001651 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 400668001652 ethanolamine permease; Region: 2A0305; TIGR00908 400668001653 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 400668001654 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 400668001655 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 400668001656 transcriptional regulator EutR; Provisional; Region: PRK10130 400668001657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668001658 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668001659 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001660 active site 400668001661 phosphorylation site [posttranslational modification] 400668001662 intermolecular recognition site; other site 400668001663 dimerization interface [polypeptide binding]; other site 400668001664 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 400668001665 DNA binding site [nucleotide binding] 400668001666 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 400668001667 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 400668001668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668001669 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 400668001670 dimer interface [polypeptide binding]; other site 400668001671 phosphorylation site [posttranslational modification] 400668001672 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 400668001673 ATP binding site [chemical binding]; other site 400668001674 Mg2+ binding site [ion binding]; other site 400668001675 G-X-G motif; other site 400668001676 haemagglutination activity domain; Region: Haemagg_act; smart00912 400668001677 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 400668001678 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 400668001679 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 400668001680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001682 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 400668001683 putative substrate binding pocket [chemical binding]; other site 400668001684 putative dimerization interface [polypeptide binding]; other site 400668001685 Protein of unknown function, DUF606; Region: DUF606; pfam04657 400668001686 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 400668001687 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 400668001688 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 400668001689 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001690 Coenzyme A binding pocket [chemical binding]; other site 400668001691 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668001692 EamA-like transporter family; Region: EamA; pfam00892 400668001693 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 400668001694 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 400668001695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668001696 Coenzyme A binding pocket [chemical binding]; other site 400668001697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001699 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 400668001700 dimerization interface [polypeptide binding]; other site 400668001701 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 400668001702 galactarate dehydratase; Region: galactar-dH20; TIGR03248 400668001703 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 400668001704 succinic semialdehyde dehydrogenase; Region: PLN02278 400668001705 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668001706 tetramerization interface [polypeptide binding]; other site 400668001707 NAD(P) binding site [chemical binding]; other site 400668001708 catalytic residues [active] 400668001709 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 400668001710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668001711 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668001712 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 400668001713 N-acetyltransferase; Region: Acetyltransf_2; cl00949 400668001714 EamA-like transporter family; Region: EamA; cl17759 400668001715 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 400668001716 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 400668001717 ligand binding site [chemical binding]; other site 400668001718 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 400668001719 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 400668001720 NAD(P) binding site [chemical binding]; other site 400668001721 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 400668001722 active site 400668001723 Activator of aromatic catabolism; Region: XylR_N; pfam06505 400668001724 V4R domain; Region: V4R; pfam02830 400668001725 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 400668001726 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 400668001727 Walker A motif; other site 400668001728 ATP binding site [chemical binding]; other site 400668001729 Walker B motif; other site 400668001730 arginine finger; other site 400668001731 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668001732 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668001733 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 400668001734 NAD(P) binding site [chemical binding]; other site 400668001735 catalytic residues [active] 400668001736 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001737 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668001738 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001739 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668001740 dimerization interface [polypeptide binding]; other site 400668001741 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 400668001742 tetramer interface [polypeptide binding]; other site 400668001743 dimer interface [polypeptide binding]; other site 400668001744 active site 400668001745 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 400668001746 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400668001747 active site 400668001748 metal binding site [ion binding]; metal-binding site 400668001749 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400668001750 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; cd00531 400668001751 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668001752 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668001753 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668001754 DctM-like transporters; Region: DctM; pfam06808 400668001755 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668001756 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 400668001757 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 400668001758 catalytic residues [active] 400668001759 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 400668001760 classical (c) SDRs; Region: SDR_c; cd05233 400668001761 NAD(P) binding site [chemical binding]; other site 400668001762 active site 400668001763 succinic semialdehyde dehydrogenase; Region: PLN02278 400668001764 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668001765 tetramerization interface [polypeptide binding]; other site 400668001766 NAD(P) binding site [chemical binding]; other site 400668001767 catalytic residues [active] 400668001768 dihydroxy-acid dehydratase; Validated; Region: PRK06131 400668001769 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 400668001770 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668001771 DctM-like transporters; Region: DctM; pfam06808 400668001772 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668001773 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668001774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668001775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668001776 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 400668001777 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400668001778 active site 400668001779 catalytic tetrad [active] 400668001780 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400668001781 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668001782 DNA-binding site [nucleotide binding]; DNA binding site 400668001783 UTRA domain; Region: UTRA; pfam07702 400668001784 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668001785 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668001786 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668001787 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 400668001788 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 400668001789 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668001790 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 400668001791 dimerization interface [polypeptide binding]; other site 400668001792 substrate binding pocket [chemical binding]; other site 400668001793 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668001794 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668001795 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668001796 Predicted permeases [General function prediction only]; Region: COG0679 400668001797 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 400668001798 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 400668001799 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 400668001800 hypothetical protein; Validated; Region: PRK00228 400668001801 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 400668001802 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668001803 active site 400668001804 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 400668001805 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 400668001806 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 400668001807 dihydroorotase; Validated; Region: pyrC; PRK09357 400668001808 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 400668001809 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 400668001810 active site 400668001811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668001812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668001813 metal binding site [ion binding]; metal-binding site 400668001814 active site 400668001815 I-site; other site 400668001816 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 400668001817 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668001818 catalytic residue [active] 400668001819 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 400668001820 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 400668001821 YGGT family; Region: YGGT; pfam02325 400668001822 YGGT family; Region: YGGT; pfam02325 400668001823 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 400668001824 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 400668001825 active site 400668001826 (T/H)XGH motif; other site 400668001827 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 400668001828 potassium/proton antiporter; Reviewed; Region: PRK05326 400668001829 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 400668001830 TrkA-C domain; Region: TrkA_C; pfam02080 400668001831 Transporter associated domain; Region: CorC_HlyC; smart01091 400668001832 Ion channel; Region: Ion_trans_2; pfam07885 400668001833 TrkA-N domain; Region: TrkA_N; pfam02254 400668001834 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 400668001835 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 400668001836 active site 400668001837 DNA binding site [nucleotide binding] 400668001838 Int/Topo IB signature motif; other site 400668001839 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668001840 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 400668001841 DNA binding residues [nucleotide binding] 400668001842 dimerization interface [polypeptide binding]; other site 400668001843 KilA-N domain; Region: KilA-N; pfam04383 400668001844 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668001845 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 400668001846 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668001847 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668001848 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 400668001849 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668001850 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 400668001851 Baseplate J-like protein; Region: Baseplate_J; pfam04865 400668001852 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 400668001853 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 400668001854 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 400668001855 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 400668001856 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 400668001857 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 400668001858 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 400668001859 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 400668001860 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 400668001861 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 400668001862 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 400668001863 terminase ATPase subunit; Provisional; Region: P; PHA02535 400668001864 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 400668001865 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 400668001866 Phage-related protein [Function unknown]; Region: COG4695; cl01923 400668001867 Phage portal protein; Region: Phage_portal; pfam04860 400668001868 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 400668001869 DNA binding site [nucleotide binding] 400668001870 Nucleoid-associated protein [General function prediction only]; Region: COG3081 400668001871 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 400668001872 Ion transport protein; Region: Ion_trans; pfam00520 400668001873 Ion channel; Region: Ion_trans_2; pfam07885 400668001874 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 400668001875 active site 400668001876 MASE1; Region: MASE1; pfam05231 400668001877 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 400668001878 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 400668001879 dimer interface [polypeptide binding]; other site 400668001880 phosphorylation site [posttranslational modification] 400668001881 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 400668001882 ATP binding site [chemical binding]; other site 400668001883 Mg2+ binding site [ion binding]; other site 400668001884 G-X-G motif; other site 400668001885 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668001886 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001887 active site 400668001888 phosphorylation site [posttranslational modification] 400668001889 intermolecular recognition site; other site 400668001890 dimerization interface [polypeptide binding]; other site 400668001891 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668001892 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400668001893 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 400668001894 dimer interface [polypeptide binding]; other site 400668001895 conserved gate region; other site 400668001896 putative PBP binding loops; other site 400668001897 ABC-ATPase subunit interface; other site 400668001898 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668001899 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 400668001900 dimer interface [polypeptide binding]; other site 400668001901 conserved gate region; other site 400668001902 putative PBP binding loops; other site 400668001903 ABC-ATPase subunit interface; other site 400668001904 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668001905 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668001906 Walker A/P-loop; other site 400668001907 ATP binding site [chemical binding]; other site 400668001908 Q-loop/lid; other site 400668001909 ABC transporter signature motif; other site 400668001910 Walker B; other site 400668001911 D-loop; other site 400668001912 H-loop/switch region; other site 400668001913 TOBE domain; Region: TOBE_2; pfam08402 400668001914 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 400668001915 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 400668001916 putative active site [active] 400668001917 catalytic site [active] 400668001918 putative metal binding site [ion binding]; other site 400668001919 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 400668001920 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 400668001921 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668001922 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 400668001923 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 400668001924 active site 400668001925 motif I; other site 400668001926 motif II; other site 400668001927 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400668001928 Protein of unknown function (DUF808); Region: DUF808; pfam05661 400668001929 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400668001930 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400668001931 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668001932 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 400668001933 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 400668001934 phosphate binding site [ion binding]; other site 400668001935 putative substrate binding pocket [chemical binding]; other site 400668001936 dimer interface [polypeptide binding]; other site 400668001937 Response regulator receiver domain; Region: Response_reg; pfam00072 400668001938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668001939 active site 400668001940 phosphorylation site [posttranslational modification] 400668001941 intermolecular recognition site; other site 400668001942 dimerization interface [polypeptide binding]; other site 400668001943 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 400668001944 CheC-like family; Region: CheC; pfam04509 400668001945 PAS fold; Region: PAS; pfam00989 400668001946 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668001947 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668001948 metal binding site [ion binding]; metal-binding site 400668001949 active site 400668001950 I-site; other site 400668001951 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 400668001952 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 400668001953 active site 400668001954 phosphate binding residues; other site 400668001955 catalytic residues [active] 400668001956 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 400668001957 putative active site [active] 400668001958 putative catalytic site [active] 400668001959 putative DNA binding site [nucleotide binding]; other site 400668001960 putative phosphate binding site [ion binding]; other site 400668001961 metal binding site A [ion binding]; metal-binding site 400668001962 putative AP binding site [nucleotide binding]; other site 400668001963 putative metal binding site B [ion binding]; other site 400668001964 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668001965 active site 400668001966 division inhibitor protein; Provisional; Region: slmA; PRK09480 400668001967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668001968 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 400668001969 feedback inhibition sensing region; other site 400668001970 homohexameric interface [polypeptide binding]; other site 400668001971 nucleotide binding site [chemical binding]; other site 400668001972 N-acetyl-L-glutamate binding site [chemical binding]; other site 400668001973 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 400668001974 trimer interface [polypeptide binding]; other site 400668001975 active site 400668001976 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 400668001977 Flavoprotein; Region: Flavoprotein; pfam02441 400668001978 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 400668001979 hypothetical protein; Reviewed; Region: PRK00024 400668001980 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 400668001981 MPN+ (JAMM) motif; other site 400668001982 Zinc-binding site [ion binding]; other site 400668001983 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 400668001984 non-specific DNA binding site [nucleotide binding]; other site 400668001985 salt bridge; other site 400668001986 sequence-specific DNA binding site [nucleotide binding]; other site 400668001987 putative transposase OrfB; Reviewed; Region: PHA02517 400668001988 HTH-like domain; Region: HTH_21; pfam13276 400668001989 Integrase core domain; Region: rve; pfam00665 400668001990 Integrase core domain; Region: rve_3; pfam13683 400668001991 Transposase; Region: HTH_Tnp_1; pfam01527 400668001992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668001993 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 400668001994 HipA N-terminal domain; Region: Couple_hipA; cl11853 400668001995 HipA-like N-terminal domain; Region: HipA_N; pfam07805 400668001996 HipA-like C-terminal domain; Region: HipA_C; pfam07804 400668001997 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 400668001998 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 400668001999 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 400668002000 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 400668002001 DNA binding site [nucleotide binding] 400668002002 catalytic residue [active] 400668002003 H2TH interface [polypeptide binding]; other site 400668002004 putative catalytic residues [active] 400668002005 turnover-facilitating residue; other site 400668002006 intercalation triad [nucleotide binding]; other site 400668002007 8OG recognition residue [nucleotide binding]; other site 400668002008 putative reading head residues; other site 400668002009 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 400668002010 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 400668002011 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 400668002012 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 400668002013 ligand binding site [chemical binding]; other site 400668002014 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 400668002015 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668002016 Walker A/P-loop; other site 400668002017 ATP binding site [chemical binding]; other site 400668002018 Q-loop/lid; other site 400668002019 ABC transporter signature motif; other site 400668002020 Walker B; other site 400668002021 D-loop; other site 400668002022 H-loop/switch region; other site 400668002023 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668002024 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668002025 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 400668002026 TM-ABC transporter signature motif; other site 400668002027 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668002028 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 400668002029 TM-ABC transporter signature motif; other site 400668002030 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 400668002031 active site 400668002032 catalytic motif [active] 400668002033 Zn binding site [ion binding]; other site 400668002034 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 400668002035 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 400668002036 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 400668002037 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 400668002038 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 400668002039 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 400668002040 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 400668002041 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 400668002042 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668002043 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668002044 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 400668002045 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 400668002046 putative active site [active] 400668002047 Zn binding site [ion binding]; other site 400668002048 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 400668002049 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 400668002050 motif II; other site 400668002051 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668002052 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668002053 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668002054 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668002055 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668002056 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668002057 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668002058 DctM-like transporters; Region: DctM; pfam06808 400668002059 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668002060 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 400668002061 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 400668002062 conserved cys residue [active] 400668002063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668002064 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 400668002065 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 400668002066 Walker A/P-loop; other site 400668002067 ATP binding site [chemical binding]; other site 400668002068 Q-loop/lid; other site 400668002069 ABC transporter signature motif; other site 400668002070 Walker B; other site 400668002071 D-loop; other site 400668002072 H-loop/switch region; other site 400668002073 TOBE-like domain; Region: TOBE_3; pfam12857 400668002074 sulfate transport protein; Provisional; Region: cysT; CHL00187 400668002075 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 400668002076 dimer interface [polypeptide binding]; other site 400668002077 conserved gate region; other site 400668002078 putative PBP binding loops; other site 400668002079 ABC-ATPase subunit interface; other site 400668002080 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 400668002081 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 400668002082 dimer interface [polypeptide binding]; other site 400668002083 conserved gate region; other site 400668002084 putative PBP binding loops; other site 400668002085 ABC-ATPase subunit interface; other site 400668002086 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400668002087 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400668002088 FeoA domain; Region: FeoA; pfam04023 400668002089 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 400668002090 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 400668002091 G1 box; other site 400668002092 GTP/Mg2+ binding site [chemical binding]; other site 400668002093 Switch I region; other site 400668002094 G2 box; other site 400668002095 G3 box; other site 400668002096 Switch II region; other site 400668002097 G4 box; other site 400668002098 Nucleoside recognition; Region: Gate; pfam07670 400668002099 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 400668002100 Nucleoside recognition; Region: Gate; pfam07670 400668002101 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668002102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668002103 metal binding site [ion binding]; metal-binding site 400668002104 active site 400668002105 I-site; other site 400668002106 Cupin domain; Region: Cupin_2; cl17218 400668002107 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 400668002108 binding surface 400668002109 TPR motif; other site 400668002110 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400668002111 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 400668002112 binding surface 400668002113 TPR motif; other site 400668002114 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400668002115 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 400668002116 non-specific DNA binding site [nucleotide binding]; other site 400668002117 salt bridge; other site 400668002118 sequence-specific DNA binding site [nucleotide binding]; other site 400668002119 Trp repressor protein; Region: Trp_repressor; cl17266 400668002120 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 400668002121 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 400668002122 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400668002123 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 400668002124 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 400668002125 glutamine binding [chemical binding]; other site 400668002126 catalytic triad [active] 400668002127 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 400668002128 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 400668002129 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 400668002130 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 400668002131 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 400668002132 non-specific DNA binding site [nucleotide binding]; other site 400668002133 salt bridge; other site 400668002134 sequence-specific DNA binding site [nucleotide binding]; other site 400668002135 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 400668002136 diiron binding motif [ion binding]; other site 400668002137 Uncharacterized conserved protein [Function unknown]; Region: COG1434 400668002138 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 400668002139 putative active site [active] 400668002140 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668002141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668002142 Coenzyme A binding pocket [chemical binding]; other site 400668002143 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 400668002144 active site 400668002145 catalytic triad [active] 400668002146 oxyanion hole [active] 400668002147 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 400668002148 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668002149 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 400668002150 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 400668002151 DctM-like transporters; Region: DctM; pfam06808 400668002152 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 400668002153 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 400668002154 Histidine kinase; Region: HisKA_3; pfam07730 400668002155 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 400668002156 ATP binding site [chemical binding]; other site 400668002157 Mg2+ binding site [ion binding]; other site 400668002158 G-X-G motif; other site 400668002159 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668002160 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668002161 active site 400668002162 phosphorylation site [posttranslational modification] 400668002163 intermolecular recognition site; other site 400668002164 dimerization interface [polypeptide binding]; other site 400668002165 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 400668002166 DNA binding site [nucleotide binding] 400668002167 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 400668002168 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 400668002169 dimer interface [polypeptide binding]; other site 400668002170 phosphorylation site [posttranslational modification] 400668002171 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 400668002172 ATP binding site [chemical binding]; other site 400668002173 Mg2+ binding site [ion binding]; other site 400668002174 G-X-G motif; other site 400668002175 putative metal dependent hydrolase; Provisional; Region: PRK11598 400668002176 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 400668002177 Sulfatase; Region: Sulfatase; pfam00884 400668002178 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 400668002179 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668002180 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668002181 active site 400668002182 phosphorylation site [posttranslational modification] 400668002183 intermolecular recognition site; other site 400668002184 dimerization interface [polypeptide binding]; other site 400668002185 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 400668002186 DNA binding residues [nucleotide binding] 400668002187 dimerization interface [polypeptide binding]; other site 400668002188 diaminopimelate epimerase; Provisional; Region: PRK13577 400668002189 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400668002190 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400668002191 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 400668002192 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 400668002193 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 400668002194 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 400668002195 potential catalytic triad [active] 400668002196 conserved cys residue [active] 400668002197 transcriptional regulator; Provisional; Region: PRK10632 400668002198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002199 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 400668002200 putative effector binding pocket; other site 400668002201 dimerization interface [polypeptide binding]; other site 400668002202 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668002203 HAMP domain; Region: HAMP; pfam00672 400668002204 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668002205 dimer interface [polypeptide binding]; other site 400668002206 putative CheW interface [polypeptide binding]; other site 400668002207 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668002208 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668002209 dimer interface [polypeptide binding]; other site 400668002210 putative CheW interface [polypeptide binding]; other site 400668002211 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 400668002212 Isochorismatase family; Region: Isochorismatase; pfam00857 400668002213 catalytic triad [active] 400668002214 conserved cis-peptide bond; other site 400668002215 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 400668002216 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 400668002217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668002218 homodimer interface [polypeptide binding]; other site 400668002219 catalytic residue [active] 400668002220 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 400668002221 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668002222 Walker A/P-loop; other site 400668002223 ATP binding site [chemical binding]; other site 400668002224 Q-loop/lid; other site 400668002225 ABC transporter signature motif; other site 400668002226 Walker B; other site 400668002227 D-loop; other site 400668002228 H-loop/switch region; other site 400668002229 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668002230 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 400668002231 ABC-ATPase subunit interface; other site 400668002232 dimer interface [polypeptide binding]; other site 400668002233 putative PBP binding regions; other site 400668002234 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668002235 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 400668002236 ABC-ATPase subunit interface; other site 400668002237 dimer interface [polypeptide binding]; other site 400668002238 putative PBP binding regions; other site 400668002239 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668002240 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 400668002241 siderophore binding site; other site 400668002242 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 400668002243 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668002244 DNA binding site [nucleotide binding] 400668002245 domain linker motif; other site 400668002246 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 400668002247 putative ligand binding site [chemical binding]; other site 400668002248 putative dimerization interface [polypeptide binding]; other site 400668002249 Shikimate kinase; Region: SKI; pfam01202 400668002250 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 400668002251 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668002252 DctM-like transporters; Region: DctM; pfam06808 400668002253 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 400668002254 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668002255 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668002256 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 400668002257 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 400668002258 ligand binding site [chemical binding]; other site 400668002259 flexible hinge region; other site 400668002260 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 400668002261 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400668002262 metal binding triad; other site 400668002263 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 400668002264 active site 400668002265 catalytic site [active] 400668002266 substrate binding site [chemical binding]; other site 400668002267 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 400668002268 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; cl00246 400668002269 FAD binding site [chemical binding]; other site 400668002270 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 400668002271 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 400668002272 putative active site [active] 400668002273 putative metal binding site [ion binding]; other site 400668002274 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 400668002275 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 400668002276 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668002277 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668002278 metal binding site [ion binding]; metal-binding site 400668002279 active site 400668002280 I-site; other site 400668002281 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 400668002282 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 400668002283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668002284 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 400668002285 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668002286 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 400668002287 SEC-C motif; Region: SEC-C; pfam02810 400668002288 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668002289 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668002290 DctM-like transporters; Region: DctM; pfam06808 400668002291 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668002292 LPP20 lipoprotein; Region: LPP20; pfam02169 400668002293 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 400668002294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 400668002295 preprotein translocase subunit SecB; Validated; Region: PRK05751 400668002296 SecA binding site; other site 400668002297 Preprotein binding site; other site 400668002298 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 400668002299 GSH binding site [chemical binding]; other site 400668002300 catalytic residues [active] 400668002301 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 400668002302 active site residue [active] 400668002303 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 400668002304 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668002305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002306 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 400668002307 dimerization interface [polypeptide binding]; other site 400668002308 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 400668002309 aldehyde dehydrogenase family 7 member; Region: PLN02315 400668002310 tetrameric interface [polypeptide binding]; other site 400668002311 NAD binding site [chemical binding]; other site 400668002312 catalytic residues [active] 400668002313 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668002314 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668002315 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668002316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002317 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 400668002318 dimerization interface [polypeptide binding]; other site 400668002319 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 400668002320 phosphoglyceromutase; Provisional; Region: PRK05434 400668002321 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 400668002322 Haemolysin XhlA; Region: XhlA; pfam10779 400668002323 Peptidase family M23; Region: Peptidase_M23; pfam01551 400668002324 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 400668002325 C-terminal peptidase (prc); Region: prc; TIGR00225 400668002326 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 400668002327 protein binding site [polypeptide binding]; other site 400668002328 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 400668002329 Catalytic dyad [active] 400668002330 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 400668002331 NodB motif; other site 400668002332 putative active site [active] 400668002333 putative catalytic site [active] 400668002334 Zn binding site [ion binding]; other site 400668002335 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 400668002336 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 400668002337 dimerization interface [polypeptide binding]; other site 400668002338 ligand binding site [chemical binding]; other site 400668002339 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668002340 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 400668002341 TM-ABC transporter signature motif; other site 400668002342 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 400668002343 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 400668002344 TM-ABC transporter signature motif; other site 400668002345 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 400668002346 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 400668002347 Walker A/P-loop; other site 400668002348 ATP binding site [chemical binding]; other site 400668002349 Q-loop/lid; other site 400668002350 ABC transporter signature motif; other site 400668002351 Walker B; other site 400668002352 D-loop; other site 400668002353 H-loop/switch region; other site 400668002354 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 400668002355 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 400668002356 Walker A/P-loop; other site 400668002357 ATP binding site [chemical binding]; other site 400668002358 Q-loop/lid; other site 400668002359 ABC transporter signature motif; other site 400668002360 Walker B; other site 400668002361 D-loop; other site 400668002362 H-loop/switch region; other site 400668002363 Branched-chain amino acid ATP-binding cassette transporter; Region: BCA_ABC_TP_C; pfam12399 400668002364 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 400668002365 Protein of unknown function (DUF3461); Region: DUF3461; pfam11944 400668002366 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 400668002367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668002368 active site 400668002369 phosphorylation site [posttranslational modification] 400668002370 intermolecular recognition site; other site 400668002371 dimerization interface [polypeptide binding]; other site 400668002372 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 400668002373 Walker A motif; other site 400668002374 ATP binding site [chemical binding]; other site 400668002375 Walker B motif; other site 400668002376 arginine finger; other site 400668002377 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668002378 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 400668002379 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 400668002380 dimer interface [polypeptide binding]; other site 400668002381 phosphorylation site [posttranslational modification] 400668002382 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 400668002383 ATP binding site [chemical binding]; other site 400668002384 Mg2+ binding site [ion binding]; other site 400668002385 G-X-G motif; other site 400668002386 glutamine synthetase; Provisional; Region: glnA; PRK09469 400668002387 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 400668002388 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400668002389 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 400668002390 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 400668002391 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 400668002392 Ligand Binding Site [chemical binding]; other site 400668002393 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 400668002394 active site residue [active] 400668002395 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 400668002396 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 400668002397 G1 box; other site 400668002398 putative GEF interaction site [polypeptide binding]; other site 400668002399 GTP/Mg2+ binding site [chemical binding]; other site 400668002400 Switch I region; other site 400668002401 G2 box; other site 400668002402 G3 box; other site 400668002403 Switch II region; other site 400668002404 G4 box; other site 400668002405 G5 box; other site 400668002406 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 400668002407 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 400668002408 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 400668002409 putative active site [active] 400668002410 dimerization interface [polypeptide binding]; other site 400668002411 putative tRNAtyr binding site [nucleotide binding]; other site 400668002412 putative pectinesterase; Region: PLN02432; cl01911 400668002413 Pectinesterase; Region: Pectinesterase; pfam01095 400668002414 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 400668002415 active site 400668002416 catalytic triad [active] 400668002417 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 400668002418 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 400668002419 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 400668002420 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 400668002421 metal binding site [ion binding]; metal-binding site 400668002422 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 400668002423 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 400668002424 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 400668002425 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 400668002426 S-adenosylmethionine binding site [chemical binding]; other site 400668002427 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668002428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668002429 metal binding site [ion binding]; metal-binding site 400668002430 active site 400668002431 I-site; other site 400668002432 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 400668002433 catalytic residues [active] 400668002434 hinge region; other site 400668002435 alpha helical domain; other site 400668002436 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 400668002437 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 400668002438 G1 box; other site 400668002439 GTP/Mg2+ binding site [chemical binding]; other site 400668002440 Switch I region; other site 400668002441 G2 box; other site 400668002442 G3 box; other site 400668002443 Switch II region; other site 400668002444 G4 box; other site 400668002445 G5 box; other site 400668002446 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 400668002447 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 400668002448 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 400668002449 substrate binding site [chemical binding]; other site 400668002450 glutamase interaction surface [polypeptide binding]; other site 400668002451 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 400668002452 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 400668002453 putative active site [active] 400668002454 oxyanion strand; other site 400668002455 catalytic triad [active] 400668002456 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 400668002457 putative active site pocket [active] 400668002458 4-fold oligomerization interface [polypeptide binding]; other site 400668002459 metal binding residues [ion binding]; metal-binding site 400668002460 3-fold/trimer interface [polypeptide binding]; other site 400668002461 AsmA family; Region: AsmA; pfam05170 400668002462 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 400668002463 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 400668002464 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 400668002465 minor groove reading motif; other site 400668002466 helix-hairpin-helix signature motif; other site 400668002467 substrate binding pocket [chemical binding]; other site 400668002468 active site 400668002469 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 400668002470 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 400668002471 DNA binding and oxoG recognition site [nucleotide binding] 400668002472 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 400668002473 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 400668002474 Chromate transporter; Region: Chromate_transp; pfam02417 400668002475 putative transposase OrfB; Reviewed; Region: PHA02517 400668002476 HTH-like domain; Region: HTH_21; pfam13276 400668002477 Integrase core domain; Region: rve; pfam00665 400668002478 Integrase core domain; Region: rve_3; pfam13683 400668002479 Transposase; Region: HTH_Tnp_1; pfam01527 400668002480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668002481 Bacterial Fe(2+) trafficking; Region: Iron_traffic; pfam04362 400668002482 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 400668002483 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 400668002484 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 400668002485 FOG: WD40 repeat [General function prediction only]; Region: COG2319 400668002486 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 400668002487 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 400668002488 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 400668002489 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400668002490 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 400668002491 S-adenosylmethionine binding site [chemical binding]; other site 400668002492 H-NS histone family; Region: Histone_HNS; pfam00816 400668002493 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 400668002494 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 400668002495 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 400668002496 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 400668002497 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 400668002498 RNA binding site [nucleotide binding]; other site 400668002499 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400668002500 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668002501 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668002502 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002503 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 400668002504 dimerization interface [polypeptide binding]; other site 400668002505 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 400668002506 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 400668002507 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 400668002508 Substrate binding site; other site 400668002509 Mg++ binding site; other site 400668002510 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 400668002511 active site 400668002512 substrate binding site [chemical binding]; other site 400668002513 CoA binding site [chemical binding]; other site 400668002514 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 400668002515 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 400668002516 glutaminase active site [active] 400668002517 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 400668002518 dimer interface [polypeptide binding]; other site 400668002519 active site 400668002520 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 400668002521 dimer interface [polypeptide binding]; other site 400668002522 active site 400668002523 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 400668002524 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400668002525 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668002526 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 400668002527 dimer interface [polypeptide binding]; other site 400668002528 conserved gate region; other site 400668002529 putative PBP binding loops; other site 400668002530 ABC-ATPase subunit interface; other site 400668002531 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668002532 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 400668002533 dimer interface [polypeptide binding]; other site 400668002534 conserved gate region; other site 400668002535 putative PBP binding loops; other site 400668002536 ABC-ATPase subunit interface; other site 400668002537 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668002538 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668002539 Walker A/P-loop; other site 400668002540 ATP binding site [chemical binding]; other site 400668002541 Q-loop/lid; other site 400668002542 ABC transporter signature motif; other site 400668002543 Walker B; other site 400668002544 D-loop; other site 400668002545 H-loop/switch region; other site 400668002546 TOBE domain; Region: TOBE_2; pfam08402 400668002547 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668002548 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668002549 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 400668002550 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 400668002551 NADP binding site [chemical binding]; other site 400668002552 homodimer interface [polypeptide binding]; other site 400668002553 active site 400668002554 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 400668002555 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400668002556 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668002557 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 400668002558 hypothetical protein; Provisional; Region: PRK09273 400668002559 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 400668002560 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 400668002561 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 400668002562 DNA binding residues [nucleotide binding] 400668002563 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668002564 dimerization interface [polypeptide binding]; other site 400668002565 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 400668002566 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 400668002567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668002568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668002569 Walker A/P-loop; other site 400668002570 ATP binding site [chemical binding]; other site 400668002571 Q-loop/lid; other site 400668002572 ABC transporter signature motif; other site 400668002573 Walker B; other site 400668002574 D-loop; other site 400668002575 H-loop/switch region; other site 400668002576 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 400668002577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668002578 Peptidase family S64; Region: Peptidase_S64; pfam08192 400668002579 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668002580 Transposase IS200 like; Region: Y1_Tnp; pfam01797 400668002581 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 400668002582 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 400668002583 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 400668002584 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 400668002585 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 400668002586 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 400668002587 SLBB domain; Region: SLBB; pfam10531 400668002588 SLBB domain; Region: SLBB; pfam10531 400668002589 SLBB domain; Region: SLBB; pfam10531 400668002590 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 400668002591 Chain length determinant protein; Region: Wzz; pfam02706 400668002592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 400668002593 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 400668002594 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400668002595 Beta-Casp domain; Region: Beta-Casp; smart01027 400668002596 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 400668002597 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668002598 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 400668002599 putative DNA binding site [nucleotide binding]; other site 400668002600 putative Zn2+ binding site [ion binding]; other site 400668002601 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400668002602 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 400668002603 putative NAD(P) binding site [chemical binding]; other site 400668002604 active site 400668002605 putative substrate binding site [chemical binding]; other site 400668002606 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 400668002607 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 400668002608 NAD(P) binding site [chemical binding]; other site 400668002609 LDH/MDH dimer interface [polypeptide binding]; other site 400668002610 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400668002611 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400668002612 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 400668002613 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 400668002614 active site 400668002615 homodimer interface [polypeptide binding]; other site 400668002616 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 400668002617 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400668002618 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400668002619 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 400668002620 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 400668002621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668002622 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 400668002623 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 400668002624 putative active site [active] 400668002625 putative metal binding site [ion binding]; other site 400668002626 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668002627 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 400668002628 putative NAD(P) binding site [chemical binding]; other site 400668002629 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 400668002630 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668002631 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668002632 Putative oxidoreductase C terminal; Region: ox_reductase_C; pfam08635 400668002633 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668002634 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 400668002635 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668002636 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 400668002637 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400668002638 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 400668002639 putative NAD(P) binding site [chemical binding]; other site 400668002640 active site 400668002641 putative substrate binding site [chemical binding]; other site 400668002642 Bacterial sugar transferase; Region: Bac_transf; pfam02397 400668002643 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 400668002644 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400668002645 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 400668002646 NAD(P) binding site [chemical binding]; other site 400668002647 homodimer interface [polypeptide binding]; other site 400668002648 substrate binding site [chemical binding]; other site 400668002649 active site 400668002650 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 400668002651 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400668002652 Walker A motif; other site 400668002653 ATP binding site [chemical binding]; other site 400668002654 Walker B motif; other site 400668002655 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 400668002656 UDP-glucose 4-epimerase; Region: PLN02240 400668002657 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 400668002658 NAD binding site [chemical binding]; other site 400668002659 homodimer interface [polypeptide binding]; other site 400668002660 active site 400668002661 substrate binding site [chemical binding]; other site 400668002662 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 400668002663 active site 400668002664 NTP binding site [chemical binding]; other site 400668002665 metal binding triad [ion binding]; metal-binding site 400668002666 antibiotic binding site [chemical binding]; other site 400668002667 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 400668002668 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 400668002669 Substrate binding site; other site 400668002670 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 400668002671 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 400668002672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668002673 NAD(P) binding site [chemical binding]; other site 400668002674 active site 400668002675 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400668002676 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400668002677 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668002678 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668002679 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668002680 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 400668002681 putative trimer interface [polypeptide binding]; other site 400668002682 putative CoA binding site [chemical binding]; other site 400668002683 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 400668002684 putative trimer interface [polypeptide binding]; other site 400668002685 putative active site [active] 400668002686 putative substrate binding site [chemical binding]; other site 400668002687 putative CoA binding site [chemical binding]; other site 400668002688 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 400668002689 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 400668002690 inhibitor-cofactor binding pocket; inhibition site 400668002691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668002692 catalytic residue [active] 400668002693 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 400668002694 4-alpha-L-fucosyltransferase; Provisional; Region: PRK02797 400668002695 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 400668002696 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 400668002697 putative trimer interface [polypeptide binding]; other site 400668002698 putative CoA binding site [chemical binding]; other site 400668002699 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 400668002700 active site 400668002701 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 400668002702 WbqC-like protein family; Region: WbqC; pfam08889 400668002703 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 400668002704 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 400668002705 inhibitor-cofactor binding pocket; inhibition site 400668002706 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668002707 catalytic residue [active] 400668002708 Acyltransferase family; Region: Acyl_transf_3; pfam01757 400668002709 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 400668002710 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 400668002711 active site 400668002712 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 400668002713 homodimer interface [polypeptide binding]; other site 400668002714 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 400668002715 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 400668002716 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 400668002717 NAD binding site [chemical binding]; other site 400668002718 substrate binding site [chemical binding]; other site 400668002719 homodimer interface [polypeptide binding]; other site 400668002720 active site 400668002721 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 400668002722 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 400668002723 substrate binding site; other site 400668002724 tetramer interface; other site 400668002725 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 400668002726 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 400668002727 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 400668002728 NADP binding site [chemical binding]; other site 400668002729 active site 400668002730 putative substrate binding site [chemical binding]; other site 400668002731 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 400668002732 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 400668002733 active site 400668002734 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 400668002735 Bacterial sugar transferase; Region: Bac_transf; pfam02397 400668002736 O-Antigen ligase; Region: Wzy_C; pfam04932 400668002737 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 400668002738 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 400668002739 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 400668002740 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668002741 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 400668002742 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668002743 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 400668002744 putative ADP-binding pocket [chemical binding]; other site 400668002745 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 400668002746 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 400668002747 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 400668002748 multidrug efflux protein; Reviewed; Region: PRK01766 400668002749 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 400668002750 cation binding site [ion binding]; other site 400668002751 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 400668002752 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668002753 Walker A/P-loop; other site 400668002754 ATP binding site [chemical binding]; other site 400668002755 Q-loop/lid; other site 400668002756 ABC transporter signature motif; other site 400668002757 Walker B; other site 400668002758 D-loop; other site 400668002759 H-loop/switch region; other site 400668002760 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668002761 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 400668002762 ABC-ATPase subunit interface; other site 400668002763 dimer interface [polypeptide binding]; other site 400668002764 putative PBP binding regions; other site 400668002765 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 400668002766 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 400668002767 intersubunit interface [polypeptide binding]; other site 400668002768 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 400668002769 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 400668002770 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 400668002771 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 400668002772 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 400668002773 N-terminal plug; other site 400668002774 ligand-binding site [chemical binding]; other site 400668002775 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 400668002776 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668002777 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668002778 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668002779 DctM-like transporters; Region: DctM; pfam06808 400668002780 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668002781 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 400668002782 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 400668002783 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668002784 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668002785 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002786 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 400668002787 putative dimerization interface [polypeptide binding]; other site 400668002788 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400668002789 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400668002790 dimer interface [polypeptide binding]; other site 400668002791 NADP binding site [chemical binding]; other site 400668002792 catalytic residues [active] 400668002793 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400668002794 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 400668002795 NAD binding site [chemical binding]; other site 400668002796 homotetramer interface [polypeptide binding]; other site 400668002797 homodimer interface [polypeptide binding]; other site 400668002798 active site 400668002799 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 400668002800 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668002801 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 400668002802 high affinity sulphate transporter 1; Region: sulP; TIGR00815 400668002803 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400668002804 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 400668002805 Putative phosphatase (DUF442); Region: DUF442; cl17385 400668002806 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400668002807 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 400668002808 PAS fold; Region: PAS_4; pfam08448 400668002809 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 400668002810 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 400668002811 Walker B motif; other site 400668002812 arginine finger; other site 400668002813 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 400668002814 substrate binding site [chemical binding]; other site 400668002815 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668002816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668002817 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 400668002818 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 400668002819 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 400668002820 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 400668002821 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 400668002822 Walker A/P-loop; other site 400668002823 ATP binding site [chemical binding]; other site 400668002824 Q-loop/lid; other site 400668002825 ABC transporter signature motif; other site 400668002826 Walker B; other site 400668002827 D-loop; other site 400668002828 H-loop/switch region; other site 400668002829 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668002830 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 400668002831 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668002832 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668002833 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668002834 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 400668002835 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 400668002836 dimerization interface [polypeptide binding]; other site 400668002837 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668002838 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668002839 dimer interface [polypeptide binding]; other site 400668002840 putative CheW interface [polypeptide binding]; other site 400668002841 short chain dehydrogenase; Provisional; Region: PRK05993 400668002842 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 400668002843 NADP binding site [chemical binding]; other site 400668002844 active site 400668002845 steroid binding site; other site 400668002846 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400668002847 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 400668002848 Transcriptional activator HlyU; Region: HlyU; pfam10115 400668002849 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668002850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668002851 DNA binding site [nucleotide binding] 400668002852 domain linker motif; other site 400668002853 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 400668002854 dimerization interface (closed form) [polypeptide binding]; other site 400668002855 ligand binding site [chemical binding]; other site 400668002856 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668002857 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668002858 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 400668002859 dimer interface [polypeptide binding]; other site 400668002860 conserved gate region; other site 400668002861 putative PBP binding loops; other site 400668002862 ABC-ATPase subunit interface; other site 400668002863 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668002864 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 400668002865 dimer interface [polypeptide binding]; other site 400668002866 conserved gate region; other site 400668002867 putative PBP binding loops; other site 400668002868 ABC-ATPase subunit interface; other site 400668002869 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 400668002870 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668002871 Walker A/P-loop; other site 400668002872 ATP binding site [chemical binding]; other site 400668002873 Q-loop/lid; other site 400668002874 ABC transporter signature motif; other site 400668002875 Walker B; other site 400668002876 D-loop; other site 400668002877 H-loop/switch region; other site 400668002878 TOBE domain; Region: TOBE_2; pfam08402 400668002879 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 400668002880 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668002881 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668002882 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668002883 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 400668002884 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 400668002885 Metal-binding active site; metal-binding site 400668002886 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 400668002887 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668002888 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668002889 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668002890 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 400668002891 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668002892 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668002893 metal binding site [ion binding]; metal-binding site 400668002894 active site 400668002895 I-site; other site 400668002896 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668002897 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668002898 metal binding site [ion binding]; metal-binding site 400668002899 active site 400668002900 I-site; other site 400668002901 Uncharacterized conserved protein [Function unknown]; Region: COG1432 400668002902 LabA_like proteins; Region: LabA; cd10911 400668002903 putative metal binding site [ion binding]; other site 400668002904 Predicted membrane protein [Function unknown]; Region: COG3671 400668002905 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 400668002906 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 400668002907 active site 400668002908 putative substrate binding pocket [chemical binding]; other site 400668002909 conserved hypothetical protein; Region: MG423; TIGR00649 400668002910 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 400668002911 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 400668002912 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 400668002913 Radical SAM superfamily; Region: Radical_SAM; pfam04055 400668002914 FeS/SAM binding site; other site 400668002915 elongation factor P; Validated; Region: PRK00529 400668002916 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 400668002917 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 400668002918 RNA binding site [nucleotide binding]; other site 400668002919 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 400668002920 RNA binding site [nucleotide binding]; other site 400668002921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668002922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668002923 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 400668002924 putative effector binding pocket; other site 400668002925 putative dimerization interface [polypeptide binding]; other site 400668002926 Agrobacterium tumefaciens protein Atu4866; Region: Atu4866; pfam11512 400668002927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668002928 Coenzyme A binding pocket [chemical binding]; other site 400668002929 Beta-lactamase; Region: Beta-lactamase; pfam00144 400668002930 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 400668002931 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 400668002932 DNA binding residues [nucleotide binding] 400668002933 dimerization interface [polypeptide binding]; other site 400668002934 Predicted membrane protein [Function unknown]; Region: COG2259 400668002935 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 400668002936 classical (c) SDRs; Region: SDR_c; cd05233 400668002937 NAD(P) binding site [chemical binding]; other site 400668002938 active site 400668002939 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 400668002940 Prostaglandin dehydrogenases; Region: PGDH; cd05288 400668002941 NAD(P) binding site [chemical binding]; other site 400668002942 substrate binding site [chemical binding]; other site 400668002943 dimer interface [polypeptide binding]; other site 400668002944 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 400668002945 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668002946 DNA-binding site [nucleotide binding]; DNA binding site 400668002947 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 400668002948 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668002949 homodimer interface [polypeptide binding]; other site 400668002950 catalytic residue [active] 400668002951 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 400668002952 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668002953 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 400668002954 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 400668002955 motif 1; other site 400668002956 dimer interface [polypeptide binding]; other site 400668002957 active site 400668002958 motif 2; other site 400668002959 motif 3; other site 400668002960 PAS fold; Region: PAS; pfam00989 400668002961 PAS domain; Region: PAS; smart00091 400668002962 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 400668002963 dimer interface [polypeptide binding]; other site 400668002964 phosphorylation site [posttranslational modification] 400668002965 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 400668002966 ATP binding site [chemical binding]; other site 400668002967 G-X-G motif; other site 400668002968 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668002969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668002970 active site 400668002971 phosphorylation site [posttranslational modification] 400668002972 intermolecular recognition site; other site 400668002973 dimerization interface [polypeptide binding]; other site 400668002974 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 400668002975 Walker A motif; other site 400668002976 ATP binding site [chemical binding]; other site 400668002977 Walker B motif; other site 400668002978 arginine finger; other site 400668002979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668002980 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 400668002981 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 400668002982 DctM-like transporters; Region: DctM; pfam06808 400668002983 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668002984 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668002985 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668002986 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668002987 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668002988 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 400668002989 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 400668002990 Helicase; Region: Helicase_RecD; pfam05127 400668002991 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 400668002992 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 400668002993 HAMP domain; Region: HAMP; pfam00672 400668002994 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668002995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668002996 dimer interface [polypeptide binding]; other site 400668002997 putative CheW interface [polypeptide binding]; other site 400668002998 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 400668002999 HAMP domain; Region: HAMP; pfam00672 400668003000 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668003001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668003002 dimer interface [polypeptide binding]; other site 400668003003 putative CheW interface [polypeptide binding]; other site 400668003004 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 400668003005 2-methylcitrate dehydratase; Region: prpD; TIGR02330 400668003006 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 400668003007 dimer interface [polypeptide binding]; other site 400668003008 Citrate synthase; Region: Citrate_synt; pfam00285 400668003009 active site 400668003010 citrylCoA binding site [chemical binding]; other site 400668003011 oxalacetate/citrate binding site [chemical binding]; other site 400668003012 coenzyme A binding site [chemical binding]; other site 400668003013 catalytic triad [active] 400668003014 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 400668003015 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 400668003016 tetramer interface [polypeptide binding]; other site 400668003017 active site 400668003018 Mg2+/Mn2+ binding site [ion binding]; other site 400668003019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400668003020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668003021 DNA-binding site [nucleotide binding]; DNA binding site 400668003022 FCD domain; Region: FCD; pfam07729 400668003023 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668003024 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 400668003025 putative DNA binding site [nucleotide binding]; other site 400668003026 putative Zn2+ binding site [ion binding]; other site 400668003027 AsnC family; Region: AsnC_trans_reg; pfam01037 400668003028 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 400668003029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668003030 NAD(P) binding site [chemical binding]; other site 400668003031 active site 400668003032 Protein of unknown function, DUF393; Region: DUF393; pfam04134 400668003033 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 400668003034 glycyl-tRNA synthetase; Provisional; Region: PRK04173 400668003035 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 400668003036 dimer interface [polypeptide binding]; other site 400668003037 motif 1; other site 400668003038 active site 400668003039 motif 2; other site 400668003040 motif 3; other site 400668003041 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 400668003042 anticodon binding site; other site 400668003043 putative outer membrane receptor; Provisional; Region: PRK13513 400668003044 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 400668003045 N-terminal plug; other site 400668003046 ligand-binding site [chemical binding]; other site 400668003047 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668003048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668003049 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 400668003050 dimerization interface [polypeptide binding]; other site 400668003051 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 400668003052 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 400668003053 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003054 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 400668003055 Coenzyme A binding pocket [chemical binding]; other site 400668003056 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 400668003057 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 400668003058 transcriptional activator TtdR; Provisional; Region: PRK09801 400668003059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668003060 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 400668003061 putative effector binding pocket; other site 400668003062 dimerization interface [polypeptide binding]; other site 400668003063 Predicted transcriptional regulator [Transcription]; Region: COG2378 400668003064 HTH domain; Region: HTH_11; pfam08279 400668003065 WYL domain; Region: WYL; pfam13280 400668003066 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 400668003067 Predicted permease [General function prediction only]; Region: COG2056 400668003068 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 400668003069 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 400668003070 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 400668003071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003072 Coenzyme A binding pocket [chemical binding]; other site 400668003073 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 400668003074 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668003075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668003076 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 400668003077 dimerization interface [polypeptide binding]; other site 400668003078 Protein of unknown function (DUF2806); Region: DUF2806; pfam10987 400668003079 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 400668003080 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 400668003081 putative ligand binding site [chemical binding]; other site 400668003082 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 400668003083 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668003084 TM-ABC transporter signature motif; other site 400668003085 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 400668003086 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 400668003087 TM-ABC transporter signature motif; other site 400668003088 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 400668003089 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 400668003090 Walker A/P-loop; other site 400668003091 ATP binding site [chemical binding]; other site 400668003092 Q-loop/lid; other site 400668003093 ABC transporter signature motif; other site 400668003094 Walker B; other site 400668003095 D-loop; other site 400668003096 H-loop/switch region; other site 400668003097 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 400668003098 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 400668003099 Walker A/P-loop; other site 400668003100 ATP binding site [chemical binding]; other site 400668003101 Q-loop/lid; other site 400668003102 ABC transporter signature motif; other site 400668003103 Walker B; other site 400668003104 D-loop; other site 400668003105 H-loop/switch region; other site 400668003106 UreD urease accessory protein; Region: UreD; pfam01774 400668003107 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 400668003108 alpha-gamma subunit interface [polypeptide binding]; other site 400668003109 beta-gamma subunit interface [polypeptide binding]; other site 400668003110 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 400668003111 gamma-beta subunit interface [polypeptide binding]; other site 400668003112 alpha-beta subunit interface [polypeptide binding]; other site 400668003113 urease subunit alpha; Reviewed; Region: ureC; PRK13207 400668003114 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 400668003115 subunit interactions [polypeptide binding]; other site 400668003116 active site 400668003117 flap region; other site 400668003118 urease accessory protein UreE; Provisional; Region: PRK14113 400668003119 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 400668003120 dimer interface [polypeptide binding]; other site 400668003121 catalytic residues [active] 400668003122 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 400668003123 UreF; Region: UreF; pfam01730 400668003124 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 400668003125 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 400668003126 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 400668003127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668003128 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 400668003129 dimer interface [polypeptide binding]; other site 400668003130 phosphorylation site [posttranslational modification] 400668003131 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 400668003132 ATP binding site [chemical binding]; other site 400668003133 Mg2+ binding site [ion binding]; other site 400668003134 G-X-G motif; other site 400668003135 Response regulator receiver domain; Region: Response_reg; pfam00072 400668003136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003137 active site 400668003138 phosphorylation site [posttranslational modification] 400668003139 intermolecular recognition site; other site 400668003140 dimerization interface [polypeptide binding]; other site 400668003141 Response regulator receiver domain; Region: Response_reg; pfam00072 400668003142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003143 active site 400668003144 phosphorylation site [posttranslational modification] 400668003145 intermolecular recognition site; other site 400668003146 dimerization interface [polypeptide binding]; other site 400668003147 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 400668003148 DNA binding residues [nucleotide binding] 400668003149 dimerization interface [polypeptide binding]; other site 400668003150 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 400668003151 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668003152 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 400668003153 substrate binding site [chemical binding]; other site 400668003154 dimerization interface [polypeptide binding]; other site 400668003155 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 400668003156 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 400668003157 Walker A/P-loop; other site 400668003158 ATP binding site [chemical binding]; other site 400668003159 Q-loop/lid; other site 400668003160 ABC transporter signature motif; other site 400668003161 Walker B; other site 400668003162 D-loop; other site 400668003163 H-loop/switch region; other site 400668003164 TOBE-like domain; Region: TOBE_3; pfam12857 400668003165 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 400668003166 dimer interface [polypeptide binding]; other site 400668003167 conserved gate region; other site 400668003168 putative PBP binding loops; other site 400668003169 ABC-ATPase subunit interface; other site 400668003170 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 400668003171 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 400668003172 dimer interface [polypeptide binding]; other site 400668003173 conserved gate region; other site 400668003174 putative PBP binding loops; other site 400668003175 ABC-ATPase subunit interface; other site 400668003176 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400668003177 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 400668003178 substrate binding pocket [chemical binding]; other site 400668003179 membrane-bound complex binding site; other site 400668003180 hinge residues; other site 400668003181 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003182 Coenzyme A binding pocket [chemical binding]; other site 400668003183 Cache domain; Region: Cache_1; pfam02743 400668003184 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 400668003185 dimerization interface [polypeptide binding]; other site 400668003186 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668003187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668003188 dimer interface [polypeptide binding]; other site 400668003189 putative CheW interface [polypeptide binding]; other site 400668003190 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 400668003191 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 400668003192 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 400668003193 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 400668003194 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 400668003195 active site 400668003196 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400668003197 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668003198 DNA-binding site [nucleotide binding]; DNA binding site 400668003199 UTRA domain; Region: UTRA; pfam07702 400668003200 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 400668003201 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 400668003202 conserved cys residue [active] 400668003203 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003204 Isochorismatase family; Region: Isochorismatase; pfam00857 400668003205 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 400668003206 catalytic triad [active] 400668003207 conserved cis-peptide bond; other site 400668003208 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 400668003209 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 400668003210 molybdenum-pterin binding domain; Region: Mop; TIGR00638 400668003211 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 400668003212 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 400668003213 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668003214 Walker A/P-loop; other site 400668003215 ATP binding site [chemical binding]; other site 400668003216 Q-loop/lid; other site 400668003217 ABC transporter signature motif; other site 400668003218 Walker B; other site 400668003219 D-loop; other site 400668003220 H-loop/switch region; other site 400668003221 TOBE domain; Region: TOBE; pfam03459 400668003222 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 400668003223 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 400668003224 putative PBP binding loops; other site 400668003225 dimer interface [polypeptide binding]; other site 400668003226 ABC-ATPase subunit interface; other site 400668003227 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400668003228 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400668003229 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 400668003230 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668003231 substrate binding pocket [chemical binding]; other site 400668003232 membrane-bound complex binding site; other site 400668003233 hinge residues; other site 400668003234 HAMP domain; Region: HAMP; pfam00672 400668003235 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668003236 Zn2+ binding site [ion binding]; other site 400668003237 Mg2+ binding site [ion binding]; other site 400668003238 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668003239 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 400668003240 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400668003241 Nitrate and nitrite sensing; Region: NIT; pfam08376 400668003242 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668003243 HAMP domain; Region: HAMP; pfam00672 400668003244 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668003245 dimer interface [polypeptide binding]; other site 400668003246 putative CheW interface [polypeptide binding]; other site 400668003247 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 400668003248 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 400668003249 ATP binding site [chemical binding]; other site 400668003250 Mg++ binding site [ion binding]; other site 400668003251 motif III; other site 400668003252 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 400668003253 nucleotide binding region [chemical binding]; other site 400668003254 ATP-binding site [chemical binding]; other site 400668003255 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 400668003256 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 400668003257 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 400668003258 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 400668003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 400668003260 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 400668003261 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 400668003262 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 400668003263 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 400668003264 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 400668003265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 400668003266 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 400668003267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 400668003268 Uncharacterized conserved protein [Function unknown]; Region: COG2308 400668003269 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 400668003270 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668003271 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 400668003272 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 400668003273 Trp docking motif [polypeptide binding]; other site 400668003274 putative active site [active] 400668003275 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 400668003276 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668003277 EamA-like transporter family; Region: EamA; pfam00892 400668003278 EamA-like transporter family; Region: EamA; pfam00892 400668003279 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 400668003280 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668003281 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 400668003282 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400668003283 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668003284 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668003285 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400668003286 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 400668003287 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 400668003288 dimer interface [polypeptide binding]; other site 400668003289 conserved gate region; other site 400668003290 ABC-ATPase subunit interface; other site 400668003291 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 400668003292 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 400668003293 dimer interface [polypeptide binding]; other site 400668003294 conserved gate region; other site 400668003295 ABC-ATPase subunit interface; other site 400668003296 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 400668003297 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 400668003298 Walker A/P-loop; other site 400668003299 ATP binding site [chemical binding]; other site 400668003300 Q-loop/lid; other site 400668003301 ABC transporter signature motif; other site 400668003302 Walker B; other site 400668003303 D-loop; other site 400668003304 H-loop/switch region; other site 400668003305 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 400668003306 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 400668003307 substrate binding pocket [chemical binding]; other site 400668003308 membrane-bound complex binding site; other site 400668003309 hinge residues; other site 400668003310 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668003311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003312 active site 400668003313 phosphorylation site [posttranslational modification] 400668003314 intermolecular recognition site; other site 400668003315 dimerization interface [polypeptide binding]; other site 400668003316 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 400668003317 Walker A motif; other site 400668003318 ATP binding site [chemical binding]; other site 400668003319 Walker B motif; other site 400668003320 arginine finger; other site 400668003321 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668003322 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 400668003323 HAMP domain; Region: HAMP; pfam00672 400668003324 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 400668003325 ATP binding site [chemical binding]; other site 400668003326 Mg2+ binding site [ion binding]; other site 400668003327 G-X-G motif; other site 400668003328 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 400668003329 putative FMN binding site [chemical binding]; other site 400668003330 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400668003331 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 400668003332 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 400668003333 N-terminal plug; other site 400668003334 ligand-binding site [chemical binding]; other site 400668003335 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 400668003336 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 400668003337 Walker A/P-loop; other site 400668003338 ATP binding site [chemical binding]; other site 400668003339 Q-loop/lid; other site 400668003340 ABC transporter signature motif; other site 400668003341 Walker B; other site 400668003342 D-loop; other site 400668003343 H-loop/switch region; other site 400668003344 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668003345 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 400668003346 ABC-ATPase subunit interface; other site 400668003347 dimer interface [polypeptide binding]; other site 400668003348 putative PBP binding regions; other site 400668003349 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 400668003350 ABC-ATPase subunit interface; other site 400668003351 dimer interface [polypeptide binding]; other site 400668003352 putative PBP binding regions; other site 400668003353 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668003354 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 400668003355 siderophore binding site; other site 400668003356 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 400668003357 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668003358 Walker A/P-loop; other site 400668003359 ATP binding site [chemical binding]; other site 400668003360 Q-loop/lid; other site 400668003361 ABC transporter signature motif; other site 400668003362 Walker B; other site 400668003363 D-loop; other site 400668003364 H-loop/switch region; other site 400668003365 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 400668003366 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 400668003367 G1 box; other site 400668003368 putative GEF interaction site [polypeptide binding]; other site 400668003369 GTP/Mg2+ binding site [chemical binding]; other site 400668003370 Switch I region; other site 400668003371 G2 box; other site 400668003372 G3 box; other site 400668003373 Switch II region; other site 400668003374 G4 box; other site 400668003375 G5 box; other site 400668003376 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 400668003377 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 400668003378 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 400668003379 dimerization interface [polypeptide binding]; other site 400668003380 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 400668003381 dimer interface [polypeptide binding]; other site 400668003382 phosphorylation site [posttranslational modification] 400668003383 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 400668003384 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 400668003385 ATP binding site [chemical binding]; other site 400668003386 Mg2+ binding site [ion binding]; other site 400668003387 G-X-G motif; other site 400668003388 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668003389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003390 active site 400668003391 phosphorylation site [posttranslational modification] 400668003392 intermolecular recognition site; other site 400668003393 dimerization interface [polypeptide binding]; other site 400668003394 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 400668003395 DNA binding site [nucleotide binding] 400668003396 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 400668003397 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668003398 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668003399 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 400668003400 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 400668003401 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 400668003402 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 400668003403 S-adenosylmethionine binding site [chemical binding]; other site 400668003404 FtsH Extracellular; Region: FtsH_ext; pfam06480 400668003405 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 400668003406 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 400668003407 Walker A motif; other site 400668003408 ATP binding site [chemical binding]; other site 400668003409 Walker B motif; other site 400668003410 arginine finger; other site 400668003411 Peptidase family M41; Region: Peptidase_M41; pfam01434 400668003412 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 400668003413 dihydropteroate synthase; Region: DHPS; TIGR01496 400668003414 substrate binding pocket [chemical binding]; other site 400668003415 dimer interface [polypeptide binding]; other site 400668003416 inhibitor binding site; inhibition site 400668003417 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 400668003418 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 400668003419 active site 400668003420 substrate binding site [chemical binding]; other site 400668003421 metal binding site [ion binding]; metal-binding site 400668003422 triosephosphate isomerase; Provisional; Region: PRK14567 400668003423 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 400668003424 substrate binding site [chemical binding]; other site 400668003425 dimer interface [polypeptide binding]; other site 400668003426 catalytic triad [active] 400668003427 Preprotein translocase SecG subunit; Region: SecG; cl09123 400668003428 ribosome maturation protein RimP; Reviewed; Region: PRK00092 400668003429 Sm and related proteins; Region: Sm_like; cl00259 400668003430 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 400668003431 putative oligomer interface [polypeptide binding]; other site 400668003432 putative RNA binding site [nucleotide binding]; other site 400668003433 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 400668003434 NusA N-terminal domain; Region: NusA_N; pfam08529 400668003435 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 400668003436 RNA binding site [nucleotide binding]; other site 400668003437 homodimer interface [polypeptide binding]; other site 400668003438 NusA-like KH domain; Region: KH_5; pfam13184 400668003439 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 400668003440 G-X-X-G motif; other site 400668003441 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 400668003442 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 400668003443 translation initiation factor IF-2; Validated; Region: infB; PRK05306 400668003444 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 400668003445 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 400668003446 G1 box; other site 400668003447 putative GEF interaction site [polypeptide binding]; other site 400668003448 GTP/Mg2+ binding site [chemical binding]; other site 400668003449 Switch I region; other site 400668003450 G2 box; other site 400668003451 G3 box; other site 400668003452 Switch II region; other site 400668003453 G4 box; other site 400668003454 G5 box; other site 400668003455 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 400668003456 Translation-initiation factor 2; Region: IF-2; pfam11987 400668003457 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 400668003458 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 400668003459 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 400668003460 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 400668003461 RNA binding site [nucleotide binding]; other site 400668003462 active site 400668003463 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 400668003464 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 400668003465 16S/18S rRNA binding site [nucleotide binding]; other site 400668003466 S13e-L30e interaction site [polypeptide binding]; other site 400668003467 25S rRNA binding site [nucleotide binding]; other site 400668003468 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 400668003469 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 400668003470 RNase E interface [polypeptide binding]; other site 400668003471 trimer interface [polypeptide binding]; other site 400668003472 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 400668003473 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 400668003474 RNase E interface [polypeptide binding]; other site 400668003475 trimer interface [polypeptide binding]; other site 400668003476 active site 400668003477 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 400668003478 putative nucleic acid binding region [nucleotide binding]; other site 400668003479 G-X-X-G motif; other site 400668003480 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 400668003481 RNA binding site [nucleotide binding]; other site 400668003482 domain interface; other site 400668003483 LPP20 lipoprotein; Region: LPP20; pfam02169 400668003484 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 400668003485 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 400668003486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668003487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668003488 metal binding site [ion binding]; metal-binding site 400668003489 active site 400668003490 I-site; other site 400668003491 glucokinase, proteobacterial type; Region: glk; TIGR00749 400668003492 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 400668003493 nucleotide binding site [chemical binding]; other site 400668003494 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 400668003495 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 400668003496 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 400668003497 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 400668003498 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 400668003499 active site 400668003500 intersubunit interface [polypeptide binding]; other site 400668003501 catalytic residue [active] 400668003502 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 400668003503 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 400668003504 putative active site [active] 400668003505 PhoH-like protein; Region: PhoH; pfam02562 400668003506 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 400668003507 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 400668003508 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 400668003509 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 400668003510 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668003511 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 400668003512 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 400668003513 DNA binding residues [nucleotide binding] 400668003514 DNA primase, catalytic core; Region: dnaG; TIGR01391 400668003515 CHC2 zinc finger; Region: zf-CHC2; pfam01807 400668003516 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 400668003517 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 400668003518 active site 400668003519 metal binding site [ion binding]; metal-binding site 400668003520 interdomain interaction site; other site 400668003521 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 400668003522 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 400668003523 Yqey-like protein; Region: YqeY; pfam09424 400668003524 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 400668003525 UGMP family protein; Validated; Region: PRK09604 400668003526 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 400668003527 Dihydroneopterin aldolase; Region: FolB; smart00905 400668003528 active site 400668003529 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 400668003530 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 400668003531 active site 400668003532 NTP binding site [chemical binding]; other site 400668003533 metal binding triad [ion binding]; metal-binding site 400668003534 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 400668003535 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 400668003536 active site residue [active] 400668003537 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 400668003538 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 400668003539 active site 400668003540 metal binding site [ion binding]; metal-binding site 400668003541 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 400668003542 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 400668003543 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 400668003544 S-adenosylmethionine binding site [chemical binding]; other site 400668003545 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 400668003546 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 400668003547 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 400668003548 SurA N-terminal domain; Region: SurA_N; pfam09312 400668003549 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 400668003550 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 400668003551 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 400668003552 Organic solvent tolerance protein; Region: OstA_C; pfam04453 400668003553 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 400668003554 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 400668003555 putative metal binding site [ion binding]; other site 400668003556 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 400668003557 HSP70 interaction site [polypeptide binding]; other site 400668003558 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 400668003559 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 400668003560 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 400668003561 substrate binding site [chemical binding]; other site 400668003562 hexamer interface [polypeptide binding]; other site 400668003563 metal binding site [ion binding]; metal-binding site 400668003564 phosphoglycolate phosphatase; Provisional; Region: PRK13222 400668003565 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 400668003566 motif II; other site 400668003567 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400668003568 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668003569 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 400668003570 MgtE intracellular N domain; Region: MgtE_N; pfam03448 400668003571 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 400668003572 Divalent cation transporter; Region: MgtE; cl00786 400668003573 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 400668003574 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 400668003575 glutamine binding [chemical binding]; other site 400668003576 catalytic triad [active] 400668003577 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 400668003578 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 400668003579 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 400668003580 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 400668003581 active site 400668003582 ribulose/triose binding site [chemical binding]; other site 400668003583 phosphate binding site [ion binding]; other site 400668003584 substrate (anthranilate) binding pocket [chemical binding]; other site 400668003585 product (indole) binding pocket [chemical binding]; other site 400668003586 OsmC-like protein; Region: OsmC; cl00767 400668003587 FlgN protein; Region: FlgN; pfam05130 400668003588 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 400668003589 SAF-like; Region: SAF_2; pfam13144 400668003590 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 400668003591 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 400668003592 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 400668003593 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668003594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003595 active site 400668003596 phosphorylation site [posttranslational modification] 400668003597 intermolecular recognition site; other site 400668003598 dimerization interface [polypeptide binding]; other site 400668003599 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 400668003600 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 400668003601 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 400668003602 putative peptidase; Provisional; Region: PRK11649 400668003603 Peptidase family M23; Region: Peptidase_M23; pfam01551 400668003604 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 400668003605 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 400668003606 active site 400668003607 HIGH motif; other site 400668003608 dimer interface [polypeptide binding]; other site 400668003609 KMSKS motif; other site 400668003610 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 400668003611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668003612 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668003613 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 400668003614 putative DNA binding site [nucleotide binding]; other site 400668003615 putative Zn2+ binding site [ion binding]; other site 400668003616 AsnC family; Region: AsnC_trans_reg; pfam01037 400668003617 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 400668003618 ATP-grasp domain; Region: ATP-grasp; pfam02222 400668003619 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 400668003620 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 400668003621 substrate binding site [chemical binding]; other site 400668003622 pyruvate kinase; Provisional; Region: PRK05826 400668003623 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 400668003624 domain interfaces; other site 400668003625 active site 400668003626 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 400668003627 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 400668003628 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400668003629 phosphogluconate dehydratase; Validated; Region: PRK09054 400668003630 6-phosphogluconate dehydratase; Region: edd; TIGR01196 400668003631 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 400668003632 Na binding site [ion binding]; other site 400668003633 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 400668003634 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 400668003635 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 400668003636 putative active site [active] 400668003637 Phosphotransferase enzyme family; Region: APH; pfam01636 400668003638 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 400668003639 active site 400668003640 substrate binding site [chemical binding]; other site 400668003641 ATP binding site [chemical binding]; other site 400668003642 dimer interface [polypeptide binding]; other site 400668003643 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 400668003644 ligand binding site [chemical binding]; other site 400668003645 active site 400668003646 UGI interface [polypeptide binding]; other site 400668003647 catalytic site [active] 400668003648 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 400668003649 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 400668003650 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 400668003651 Response regulator receiver domain; Region: Response_reg; pfam00072 400668003652 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003653 active site 400668003654 phosphorylation site [posttranslational modification] 400668003655 intermolecular recognition site; other site 400668003656 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 400668003657 dimerization interface [polypeptide binding]; other site 400668003658 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668003659 Zn2+ binding site [ion binding]; other site 400668003660 Mg2+ binding site [ion binding]; other site 400668003661 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 400668003662 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 400668003663 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 400668003664 PAS domain S-box; Region: sensory_box; TIGR00229 400668003665 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 400668003666 putative active site [active] 400668003667 heme pocket [chemical binding]; other site 400668003668 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 400668003669 PAS fold; Region: PAS_3; pfam08447 400668003670 putative active site [active] 400668003671 heme pocket [chemical binding]; other site 400668003672 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 400668003673 dimer interface [polypeptide binding]; other site 400668003674 phosphorylation site [posttranslational modification] 400668003675 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 400668003676 ATP binding site [chemical binding]; other site 400668003677 Mg2+ binding site [ion binding]; other site 400668003678 G-X-G motif; other site 400668003679 Response regulator receiver domain; Region: Response_reg; pfam00072 400668003680 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668003681 active site 400668003682 phosphorylation site [posttranslational modification] 400668003683 intermolecular recognition site; other site 400668003684 dimerization interface [polypeptide binding]; other site 400668003685 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 400668003686 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 400668003687 N- and C-terminal domain interface [polypeptide binding]; other site 400668003688 D-xylulose kinase; Region: XylB; TIGR01312 400668003689 active site 400668003690 MgATP binding site [chemical binding]; other site 400668003691 catalytic site [active] 400668003692 metal binding site [ion binding]; metal-binding site 400668003693 xylulose binding site [chemical binding]; other site 400668003694 homodimer interface [polypeptide binding]; other site 400668003695 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668003696 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668003697 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003698 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003699 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 400668003700 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 400668003701 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 400668003702 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668003703 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668003704 Walker A/P-loop; other site 400668003705 ATP binding site [chemical binding]; other site 400668003706 Q-loop/lid; other site 400668003707 ABC transporter signature motif; other site 400668003708 Walker B; other site 400668003709 D-loop; other site 400668003710 H-loop/switch region; other site 400668003711 TOBE domain; Region: TOBE_2; pfam08402 400668003712 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668003713 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 400668003714 dimer interface [polypeptide binding]; other site 400668003715 conserved gate region; other site 400668003716 putative PBP binding loops; other site 400668003717 ABC-ATPase subunit interface; other site 400668003718 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 400668003719 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 400668003720 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 400668003721 dimer interface [polypeptide binding]; other site 400668003722 conserved gate region; other site 400668003723 putative PBP binding loops; other site 400668003724 ABC-ATPase subunit interface; other site 400668003725 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668003726 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668003727 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 400668003728 L-aspartate oxidase; Provisional; Region: PRK09077 400668003729 L-aspartate oxidase; Provisional; Region: PRK06175 400668003730 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 400668003731 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 400668003732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668003733 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 400668003734 DNA binding residues [nucleotide binding] 400668003735 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 400668003736 anti-sigma E factor; Provisional; Region: rseB; PRK09455 400668003737 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 400668003738 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 400668003739 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 400668003740 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 400668003741 protein binding site [polypeptide binding]; other site 400668003742 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 400668003743 protein binding site [polypeptide binding]; other site 400668003744 N-acetylglutamate synthase; Validated; Region: PRK05279 400668003745 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 400668003746 putative feedback inhibition sensing region; other site 400668003747 putative nucleotide binding site [chemical binding]; other site 400668003748 putative substrate binding site [chemical binding]; other site 400668003749 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003750 Coenzyme A binding pocket [chemical binding]; other site 400668003751 acetylornithine deacetylase; Provisional; Region: PRK05111 400668003752 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 400668003753 metal binding site [ion binding]; metal-binding site 400668003754 putative dimer interface [polypeptide binding]; other site 400668003755 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 400668003756 putative active site [active] 400668003757 putative metal binding residues [ion binding]; other site 400668003758 signature motif; other site 400668003759 putative triphosphate binding site [ion binding]; other site 400668003760 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 400668003761 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400668003762 metal binding triad; other site 400668003763 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 400668003764 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400668003765 metal binding triad; other site 400668003766 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 400668003767 microcin B17 transporter; Reviewed; Region: PRK11098 400668003768 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 400668003769 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 400668003770 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 400668003771 inhibitor-cofactor binding pocket; inhibition site 400668003772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668003773 catalytic residue [active] 400668003774 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 400668003775 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 400668003776 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 400668003777 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 400668003778 conserved cys residue [active] 400668003779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003781 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 400668003782 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668003783 Walker A/P-loop; other site 400668003784 ATP binding site [chemical binding]; other site 400668003785 Q-loop/lid; other site 400668003786 ABC transporter signature motif; other site 400668003787 Walker B; other site 400668003788 D-loop; other site 400668003789 H-loop/switch region; other site 400668003790 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668003791 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 400668003792 substrate binding pocket [chemical binding]; other site 400668003793 membrane-bound complex binding site; other site 400668003794 hinge residues; other site 400668003795 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668003796 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 400668003797 dimer interface [polypeptide binding]; other site 400668003798 conserved gate region; other site 400668003799 putative PBP binding loops; other site 400668003800 ABC-ATPase subunit interface; other site 400668003801 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 400668003802 dimer interface [polypeptide binding]; other site 400668003803 conserved gate region; other site 400668003804 putative PBP binding loops; other site 400668003805 ABC-ATPase subunit interface; other site 400668003806 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 400668003807 Nitrogen regulatory protein P-II; Region: P-II; smart00938 400668003808 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 400668003809 substrate binding site [chemical binding]; other site 400668003810 active site 400668003811 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 400668003812 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 400668003813 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 400668003814 nudix motif; other site 400668003815 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 400668003816 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 400668003817 putative active site [active] 400668003818 Zn binding site [ion binding]; other site 400668003819 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 400668003820 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 400668003821 metal binding site [ion binding]; metal-binding site 400668003822 KpsF/GutQ family protein; Region: kpsF; TIGR00393 400668003823 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 400668003824 putative active site [active] 400668003825 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 400668003826 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 400668003827 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 400668003828 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 400668003829 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 400668003830 active site 400668003831 motif I; other site 400668003832 motif II; other site 400668003833 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 400668003834 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 400668003835 Ligand binding site; other site 400668003836 oligomer interface; other site 400668003837 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 400668003838 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 400668003839 Cell division protein ZapA; Region: ZapA; pfam05164 400668003840 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 400668003841 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 400668003842 dimer interface [polypeptide binding]; other site 400668003843 putative anticodon binding site; other site 400668003844 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 400668003845 motif 1; other site 400668003846 active site 400668003847 motif 2; other site 400668003848 motif 3; other site 400668003849 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 400668003850 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 400668003851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668003852 homodimer interface [polypeptide binding]; other site 400668003853 catalytic residue [active] 400668003854 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 400668003855 putative deacylase active site [active] 400668003856 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 400668003857 RNA polymerase sigma factor; Provisional; Region: PRK12514 400668003858 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668003859 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 400668003860 DNA binding residues [nucleotide binding] 400668003861 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 400668003862 Anti-sigma-K factor rskA; Region: RskA; pfam10099 400668003863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668003864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003865 Coenzyme A binding pocket [chemical binding]; other site 400668003866 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400668003867 hypothetical protein; Provisional; Region: PRK02237 400668003868 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 400668003869 multidrug efflux system protein; Provisional; Region: PRK11431 400668003870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668003871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668003872 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 400668003873 dimerization interface [polypeptide binding]; other site 400668003874 Predicted membrane protein [Function unknown]; Region: COG1288 400668003875 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 400668003876 Peptidase M14 Aspartoacylase (ASPA) subfamily; Region: M14_ASPA; cd06909 400668003877 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 400668003878 active site 400668003879 Zn binding site [ion binding]; other site 400668003880 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 400668003881 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 400668003882 TPP-binding site; other site 400668003883 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 400668003884 PYR/PP interface [polypeptide binding]; other site 400668003885 dimer interface [polypeptide binding]; other site 400668003886 TPP binding site [chemical binding]; other site 400668003887 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400668003888 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 400668003889 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 400668003890 substrate binding pocket [chemical binding]; other site 400668003891 chain length determination region; other site 400668003892 substrate-Mg2+ binding site; other site 400668003893 catalytic residues [active] 400668003894 aspartate-rich region 1; other site 400668003895 active site lid residues [active] 400668003896 aspartate-rich region 2; other site 400668003897 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 400668003898 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 400668003899 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 400668003900 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 400668003901 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 400668003902 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668003903 ligand binding site [chemical binding]; other site 400668003904 dihydrodipicolinate reductase; Provisional; Region: PRK00048 400668003905 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 400668003906 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 400668003907 Transcriptional regulators [Transcription]; Region: MarR; COG1846 400668003908 MarR family; Region: MarR; pfam01047 400668003909 MarR family; Region: MarR_2; cl17246 400668003910 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 400668003911 DNA photolyase; Region: DNA_photolyase; pfam00875 400668003912 Protein of unknown function (DUF523); Region: DUF523; pfam04463 400668003913 Uncharacterized conserved protein [Function unknown]; Region: COG3272 400668003914 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 400668003915 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 400668003916 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668003917 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 400668003918 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 400668003919 DNA binding residues [nucleotide binding] 400668003920 Predicted membrane protein [Function unknown]; Region: COG3205 400668003921 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 400668003922 Na2 binding site [ion binding]; other site 400668003923 putative substrate binding site 1 [chemical binding]; other site 400668003924 Na binding site 1 [ion binding]; other site 400668003925 putative substrate binding site 2 [chemical binding]; other site 400668003926 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 400668003927 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668003928 Coenzyme A binding pocket [chemical binding]; other site 400668003929 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 400668003930 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 400668003931 inhibitor-cofactor binding pocket; inhibition site 400668003932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668003933 catalytic residue [active] 400668003934 Ectoine synthase; Region: Ectoine_synth; pfam06339 400668003935 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 400668003936 aspartate kinase; Validated; Region: PRK09181 400668003937 AAK_AK-Ectoine: Amino Acid Kinase Superfamily (AAK), AK-Ectoine; this CD includes the N-terminal catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium...; Region: AAK_AK-Ectoine; cd04248 400668003938 putative catalytic residues [active] 400668003939 putative nucleotide binding site [chemical binding]; other site 400668003940 putative aspartate binding site [chemical binding]; other site 400668003941 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_1; cd04910 400668003942 allosteric regulatory residue; other site 400668003943 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway; Region: ACT_AK-Ectoine_2; cd04915 400668003944 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 400668003945 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668003946 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668003947 metal binding site [ion binding]; metal-binding site 400668003948 active site 400668003949 I-site; other site 400668003950 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 400668003951 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 400668003952 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 400668003953 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668003954 hypothetical protein; Provisional; Region: PRK11019 400668003955 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 400668003956 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 400668003957 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668003958 active site 400668003959 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 400668003960 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 400668003961 dimer interface [polypeptide binding]; other site 400668003962 ADP-ribose binding site [chemical binding]; other site 400668003963 active site 400668003964 nudix motif; other site 400668003965 metal binding site [ion binding]; metal-binding site 400668003966 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668003967 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668003968 DNA binding site [nucleotide binding] 400668003969 domain linker motif; other site 400668003970 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 400668003971 dimerization interface [polypeptide binding]; other site 400668003972 ligand binding site [chemical binding]; other site 400668003973 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668003974 Cupin domain; Region: Cupin_2; pfam07883 400668003975 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668003977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668003978 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 400668003979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668003980 putative substrate translocation pore; other site 400668003981 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 400668003982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400668003983 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 400668003984 non-specific DNA binding site [nucleotide binding]; other site 400668003985 salt bridge; other site 400668003986 sequence-specific DNA binding site [nucleotide binding]; other site 400668003987 Domain of unknown function (DUF955); Region: DUF955; cl01076 400668003988 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 400668003989 malate synthase G; Provisional; Region: PRK02999 400668003990 active site 400668003991 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 400668003992 tetramer interface [polypeptide binding]; other site 400668003993 active site 400668003994 Mg2+/Mn2+ binding site [ion binding]; other site 400668003995 isocitrate lyase; Region: PLN02892 400668003996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668003997 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 400668003998 dimer interface [polypeptide binding]; other site 400668003999 phosphorylation site [posttranslational modification] 400668004000 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 400668004001 ATP binding site [chemical binding]; other site 400668004002 Mg2+ binding site [ion binding]; other site 400668004003 G-X-G motif; other site 400668004004 Response regulator receiver domain; Region: Response_reg; pfam00072 400668004005 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668004006 active site 400668004007 phosphorylation site [posttranslational modification] 400668004008 intermolecular recognition site; other site 400668004009 dimerization interface [polypeptide binding]; other site 400668004010 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 400668004011 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 400668004012 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400668004013 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 400668004014 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 400668004015 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 400668004016 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 400668004017 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 400668004018 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668004019 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 400668004020 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400668004021 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 400668004022 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 400668004023 Protein of unknown function (DUF770); Region: DUF770; pfam05591 400668004024 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 400668004025 Protein of unknown function (DUF877); Region: DUF877; pfam05943 400668004026 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 400668004027 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 400668004028 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 400668004029 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 400668004030 FHA domain; Region: FHA; pfam00498 400668004031 phosphopeptide binding site; other site 400668004032 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 400668004033 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 400668004034 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 400668004035 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 400668004036 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 400668004037 Clp amino terminal domain; Region: Clp_N; pfam02861 400668004038 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 400668004039 Walker A motif; other site 400668004040 ATP binding site [chemical binding]; other site 400668004041 Walker B motif; other site 400668004042 arginine finger; other site 400668004043 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 400668004044 Walker A motif; other site 400668004045 ATP binding site [chemical binding]; other site 400668004046 Walker B motif; other site 400668004047 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 400668004048 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 400668004049 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 400668004050 Walker A motif; other site 400668004051 ATP binding site [chemical binding]; other site 400668004052 Walker B motif; other site 400668004053 arginine finger; other site 400668004054 Protein of unknown function (DUF3121); Region: DUF3121; pfam11319 400668004055 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 400668004056 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 400668004057 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 400668004058 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 400668004059 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 400668004060 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 400668004061 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 400668004062 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 400668004063 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 400668004064 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 400668004065 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 400668004066 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668004067 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 400668004068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668004069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004070 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 400668004071 putative dimerization interface [polypeptide binding]; other site 400668004072 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 400668004073 Citrate transporter; Region: CitMHS; pfam03600 400668004074 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 400668004075 MgtC family; Region: MgtC; pfam02308 400668004076 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668004077 Coenzyme A binding pocket [chemical binding]; other site 400668004078 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668004079 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668004080 metal binding site [ion binding]; metal-binding site 400668004081 active site 400668004082 I-site; other site 400668004083 hypothetical protein; Provisional; Region: PRK03641 400668004084 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 400668004085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668004086 Integrase core domain; Region: rve; pfam00665 400668004087 Integrase core domain; Region: rve_3; pfam13683 400668004088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668004089 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400668004090 OmpW family; Region: OmpW; cl17427 400668004091 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 400668004092 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668004093 Zn2+ binding site [ion binding]; other site 400668004094 Mg2+ binding site [ion binding]; other site 400668004095 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 400668004096 iron-sulfur cluster [ion binding]; other site 400668004097 [2Fe-2S] cluster binding site [ion binding]; other site 400668004098 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 400668004099 Transglycosylase; Region: Transgly; pfam00912 400668004100 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400668004101 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 400668004102 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668004103 substrate binding pocket [chemical binding]; other site 400668004104 membrane-bound complex binding site; other site 400668004105 hinge residues; other site 400668004106 glycogen synthase; Provisional; Region: glgA; PRK00654 400668004107 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 400668004108 ADP-binding pocket [chemical binding]; other site 400668004109 homodimer interface [polypeptide binding]; other site 400668004110 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 400668004111 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 400668004112 ligand binding site; other site 400668004113 oligomer interface; other site 400668004114 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 400668004115 dimer interface [polypeptide binding]; other site 400668004116 N-terminal domain interface [polypeptide binding]; other site 400668004117 sulfate 1 binding site; other site 400668004118 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 400668004119 Lumazine binding domain; Region: Lum_binding; pfam00677 400668004120 Lumazine binding domain; Region: Lum_binding; pfam00677 400668004121 GTP-binding protein LepA; Provisional; Region: PRK05433 400668004122 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 400668004123 G1 box; other site 400668004124 putative GEF interaction site [polypeptide binding]; other site 400668004125 GTP/Mg2+ binding site [chemical binding]; other site 400668004126 Switch I region; other site 400668004127 G2 box; other site 400668004128 G3 box; other site 400668004129 Switch II region; other site 400668004130 G4 box; other site 400668004131 G5 box; other site 400668004132 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 400668004133 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 400668004134 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 400668004135 signal peptidase I; Provisional; Region: PRK10861 400668004136 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 400668004137 Catalytic site [active] 400668004138 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 400668004139 ribonuclease III; Reviewed; Region: rnc; PRK00102 400668004140 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 400668004141 dimerization interface [polypeptide binding]; other site 400668004142 active site 400668004143 metal binding site [ion binding]; metal-binding site 400668004144 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 400668004145 dsRNA binding site [nucleotide binding]; other site 400668004146 GTPase Era; Reviewed; Region: era; PRK00089 400668004147 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 400668004148 G1 box; other site 400668004149 GTP/Mg2+ binding site [chemical binding]; other site 400668004150 Switch I region; other site 400668004151 G2 box; other site 400668004152 Switch II region; other site 400668004153 G3 box; other site 400668004154 G4 box; other site 400668004155 G5 box; other site 400668004156 KH domain; Region: KH_2; pfam07650 400668004157 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 400668004158 Recombination protein O N terminal; Region: RecO_N; pfam11967 400668004159 Recombination protein O C terminal; Region: RecO_C; pfam02565 400668004160 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 400668004161 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 400668004162 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 400668004163 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 400668004164 dimer interface [polypeptide binding]; other site 400668004165 phosphorylation site [posttranslational modification] 400668004166 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 400668004167 ATP binding site [chemical binding]; other site 400668004168 Mg2+ binding site [ion binding]; other site 400668004169 G-X-G motif; other site 400668004170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668004171 active site 400668004172 phosphorylation site [posttranslational modification] 400668004173 intermolecular recognition site; other site 400668004174 dimerization interface [polypeptide binding]; other site 400668004175 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 400668004176 cysteine synthase B; Region: cysM; TIGR01138 400668004177 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 400668004178 dimer interface [polypeptide binding]; other site 400668004179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668004180 catalytic residue [active] 400668004181 TRAM domain; Region: TRAM; pfam01938 400668004182 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 400668004183 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 400668004184 S-adenosylmethionine binding site [chemical binding]; other site 400668004185 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 400668004186 HD domain; Region: HD_4; pfam13328 400668004187 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 400668004188 synthetase active site [active] 400668004189 NTP binding site [chemical binding]; other site 400668004190 metal binding site [ion binding]; metal-binding site 400668004191 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 400668004192 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 400668004193 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 400668004194 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 400668004195 homodimer interface [polypeptide binding]; other site 400668004196 metal binding site [ion binding]; metal-binding site 400668004197 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 400668004198 homodimer interface [polypeptide binding]; other site 400668004199 active site 400668004200 putative chemical substrate binding site [chemical binding]; other site 400668004201 metal binding site [ion binding]; metal-binding site 400668004202 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 400668004203 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 400668004204 adenylate kinase; Reviewed; Region: adk; PRK00279 400668004205 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 400668004206 AMP-binding site [chemical binding]; other site 400668004207 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 400668004208 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 400668004209 Glycoprotease family; Region: Peptidase_M22; pfam00814 400668004210 Bacitracin resistance protein BacA; Region: BacA; pfam02673 400668004211 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 400668004212 SlyX; Region: SlyX; pfam04102 400668004213 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668004214 DNA-binding site [nucleotide binding]; DNA binding site 400668004215 RNA-binding motif; other site 400668004216 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 400668004217 dimer interface [polypeptide binding]; other site 400668004218 catalytic triad [active] 400668004219 peroxidatic and resolving cysteines [active] 400668004220 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 400668004221 tetramerization interface [polypeptide binding]; other site 400668004222 active site 400668004223 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 400668004224 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 400668004225 metal binding site [ion binding]; metal-binding site 400668004226 dimer interface [polypeptide binding]; other site 400668004227 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 400668004228 ArsC family; Region: ArsC; pfam03960 400668004229 putative catalytic residues [active] 400668004230 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 400668004231 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 400668004232 putative trimer interface [polypeptide binding]; other site 400668004233 putative CoA binding site [chemical binding]; other site 400668004234 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 400668004235 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 400668004236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668004237 homodimer interface [polypeptide binding]; other site 400668004238 catalytic residue [active] 400668004239 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 400668004240 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400668004241 metal binding triad; other site 400668004242 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 400668004243 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668004244 Zn2+ binding site [ion binding]; other site 400668004245 Mg2+ binding site [ion binding]; other site 400668004246 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 400668004247 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 400668004248 methionine aminopeptidase; Provisional; Region: PRK08671 400668004249 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 400668004250 active site 400668004251 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 400668004252 rRNA interaction site [nucleotide binding]; other site 400668004253 S8 interaction site; other site 400668004254 putative laminin-1 binding site; other site 400668004255 elongation factor Ts; Provisional; Region: tsf; PRK09377 400668004256 UBA/TS-N domain; Region: UBA; pfam00627 400668004257 Elongation factor TS; Region: EF_TS; pfam00889 400668004258 Elongation factor TS; Region: EF_TS; pfam00889 400668004259 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 400668004260 putative nucleotide binding site [chemical binding]; other site 400668004261 uridine monophosphate binding site [chemical binding]; other site 400668004262 homohexameric interface [polypeptide binding]; other site 400668004263 ribosome recycling factor; Reviewed; Region: frr; PRK00083 400668004264 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 400668004265 hinge region; other site 400668004266 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 400668004267 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 400668004268 catalytic residue [active] 400668004269 putative FPP diphosphate binding site; other site 400668004270 putative FPP binding hydrophobic cleft; other site 400668004271 dimer interface [polypeptide binding]; other site 400668004272 putative IPP diphosphate binding site; other site 400668004273 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 400668004274 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 400668004275 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 400668004276 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 400668004277 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 400668004278 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 400668004279 zinc metallopeptidase RseP; Provisional; Region: PRK10779 400668004280 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 400668004281 active site 400668004282 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 400668004283 protein binding site [polypeptide binding]; other site 400668004284 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 400668004285 protein binding site [polypeptide binding]; other site 400668004286 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 400668004287 putative substrate binding region [chemical binding]; other site 400668004288 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 400668004289 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400668004290 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400668004291 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400668004292 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400668004293 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 400668004294 Surface antigen; Region: Bac_surface_Ag; pfam01103 400668004295 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 400668004296 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 400668004297 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 400668004298 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 400668004299 trimer interface [polypeptide binding]; other site 400668004300 active site 400668004301 UDP-GlcNAc binding site [chemical binding]; other site 400668004302 lipid binding site [chemical binding]; lipid-binding site 400668004303 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 400668004304 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 400668004305 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 400668004306 active site 400668004307 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 400668004308 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 400668004309 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 400668004310 RNA/DNA hybrid binding site [nucleotide binding]; other site 400668004311 active site 400668004312 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 400668004313 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 400668004314 putative active site [active] 400668004315 putative PHP Thumb interface [polypeptide binding]; other site 400668004316 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 400668004317 generic binding surface II; other site 400668004318 generic binding surface I; other site 400668004319 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 400668004320 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 400668004321 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 400668004322 Ligand Binding Site [chemical binding]; other site 400668004323 TilS substrate binding domain; Region: TilS; pfam09179 400668004324 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 400668004325 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 400668004326 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 400668004327 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668004328 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668004329 Fusaric acid resistance protein family; Region: FUSC; pfam04632 400668004330 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 400668004331 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 400668004332 active site 400668004333 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400668004334 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668004335 DNA-binding site [nucleotide binding]; DNA binding site 400668004336 FCD domain; Region: FCD; pfam07729 400668004337 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400668004338 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 400668004339 iron-sulfur cluster [ion binding]; other site 400668004340 [2Fe-2S] cluster binding site [ion binding]; other site 400668004341 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 400668004342 alpha subunit interface [polypeptide binding]; other site 400668004343 active site 400668004344 substrate binding site [chemical binding]; other site 400668004345 Fe binding site [ion binding]; other site 400668004346 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400668004347 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 400668004348 FMN-binding pocket [chemical binding]; other site 400668004349 flavin binding motif; other site 400668004350 phosphate binding motif [ion binding]; other site 400668004351 beta-alpha-beta structure motif; other site 400668004352 NAD binding pocket [chemical binding]; other site 400668004353 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 400668004354 catalytic loop [active] 400668004355 iron binding site [ion binding]; other site 400668004356 CTP synthetase; Validated; Region: pyrG; PRK05380 400668004357 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 400668004358 Catalytic site [active] 400668004359 active site 400668004360 UTP binding site [chemical binding]; other site 400668004361 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 400668004362 active site 400668004363 putative oxyanion hole; other site 400668004364 catalytic triad [active] 400668004365 enolase; Provisional; Region: eno; PRK00077 400668004366 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 400668004367 dimer interface [polypeptide binding]; other site 400668004368 metal binding site [ion binding]; metal-binding site 400668004369 substrate binding pocket [chemical binding]; other site 400668004370 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 400668004371 Septum formation initiator; Region: DivIC; cl17659 400668004372 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 400668004373 substrate binding site; other site 400668004374 dimer interface; other site 400668004375 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 400668004376 homotrimer interaction site [polypeptide binding]; other site 400668004377 zinc binding site [ion binding]; other site 400668004378 CDP-binding sites; other site 400668004379 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 400668004380 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 400668004381 Permutation of conserved domain; other site 400668004382 active site 400668004383 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 400668004384 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 400668004385 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 400668004386 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 400668004387 S-adenosylmethionine binding site [chemical binding]; other site 400668004388 Domain of unknown function (DUF368); Region: DUF368; pfam04018 400668004389 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400668004390 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668004391 Peptidase family M23; Region: Peptidase_M23; pfam01551 400668004392 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 400668004393 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 400668004394 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668004395 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 400668004396 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 400668004397 DNA binding residues [nucleotide binding] 400668004398 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 400668004399 cyclase homology domain; Region: CHD; cd07302 400668004400 nucleotidyl binding site; other site 400668004401 metal binding site [ion binding]; metal-binding site 400668004402 dimer interface [polypeptide binding]; other site 400668004403 phosphoserine phosphatase SerB; Region: serB; TIGR00338 400668004404 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400668004405 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 400668004406 motif II; other site 400668004407 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 400668004408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004409 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668004410 substrate binding pocket [chemical binding]; other site 400668004411 dimerization interface [polypeptide binding]; other site 400668004412 Protein of unknown function DUF86; Region: DUF86; cl01031 400668004413 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 400668004414 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 400668004415 dimer interface [polypeptide binding]; other site 400668004416 putative functional site; other site 400668004417 putative MPT binding site; other site 400668004418 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 400668004419 MPT binding site; other site 400668004420 trimer interface [polypeptide binding]; other site 400668004421 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 400668004422 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 400668004423 FeS/SAM binding site; other site 400668004424 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 400668004425 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 400668004426 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 400668004427 active site 400668004428 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 400668004429 catalytic triad [active] 400668004430 dimer interface [polypeptide binding]; other site 400668004431 epoxyqueuosine reductase; Region: TIGR00276 400668004432 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 400668004433 conserved hypothetical protein; Region: TIGR03492 400668004434 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 400668004435 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 400668004436 PYR/PP interface [polypeptide binding]; other site 400668004437 dimer interface [polypeptide binding]; other site 400668004438 TPP binding site [chemical binding]; other site 400668004439 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 400668004440 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 400668004441 TPP-binding site [chemical binding]; other site 400668004442 dimer interface [polypeptide binding]; other site 400668004443 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 400668004444 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 400668004445 putative valine binding site [chemical binding]; other site 400668004446 dimer interface [polypeptide binding]; other site 400668004447 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 400668004448 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 400668004449 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 400668004450 putative DNA binding site [nucleotide binding]; other site 400668004451 putative Zn2+ binding site [ion binding]; other site 400668004452 AsnC family; Region: AsnC_trans_reg; pfam01037 400668004453 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668004454 EamA-like transporter family; Region: EamA; pfam00892 400668004455 EamA-like transporter family; Region: EamA; pfam00892 400668004456 LysE type translocator; Region: LysE; cl00565 400668004457 S-ribosylhomocysteinase; Provisional; Region: PRK02260 400668004458 putative transporter; Provisional; Region: PRK11021 400668004459 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 400668004460 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 400668004461 putative DNA binding site [nucleotide binding]; other site 400668004462 putative Zn2+ binding site [ion binding]; other site 400668004463 AsnC family; Region: AsnC_trans_reg; pfam01037 400668004464 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 400668004465 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 400668004466 Cl- selectivity filter; other site 400668004467 Cl- binding residues [ion binding]; other site 400668004468 pore gating glutamate residue; other site 400668004469 dimer interface [polypeptide binding]; other site 400668004470 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 400668004471 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 400668004472 inhibitor-cofactor binding pocket; inhibition site 400668004473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668004474 catalytic residue [active] 400668004475 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 400668004476 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 400668004477 TMAO/DMSO reductase; Reviewed; Region: PRK05363 400668004478 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 400668004479 Moco binding site; other site 400668004480 metal coordination site [ion binding]; other site 400668004481 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 400668004482 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 400668004483 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 400668004484 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668004485 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004486 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 400668004487 dimerization interface [polypeptide binding]; other site 400668004488 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668004489 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668004490 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668004491 WHG domain; Region: WHG; pfam13305 400668004492 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 400668004493 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 400668004494 active site 400668004495 FMN binding site [chemical binding]; other site 400668004496 2,4-decadienoyl-CoA binding site; other site 400668004497 catalytic residue [active] 400668004498 4Fe-4S cluster binding site [ion binding]; other site 400668004499 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 400668004500 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668004501 Flagellin N-methylase; Region: FliB; pfam03692 400668004502 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 400668004503 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 400668004504 putative active site [active] 400668004505 catalytic site [active] 400668004506 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 400668004507 putative active site [active] 400668004508 catalytic site [active] 400668004509 hypothetical protein; Provisional; Region: PRK05421 400668004510 putative catalytic site [active] 400668004511 putative metal binding site [ion binding]; other site 400668004512 putative phosphate binding site [ion binding]; other site 400668004513 Predicted membrane protein [Function unknown]; Region: COG4325 400668004514 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 400668004515 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 400668004516 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 400668004517 Rrf2 family protein; Region: rrf2_super; TIGR00738 400668004518 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 400668004519 putative ABC transporter; Region: ycf24; CHL00085 400668004520 FeS assembly ATPase SufC; Region: sufC; TIGR01978 400668004521 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 400668004522 Walker A/P-loop; other site 400668004523 ATP binding site [chemical binding]; other site 400668004524 Q-loop/lid; other site 400668004525 ABC transporter signature motif; other site 400668004526 Walker B; other site 400668004527 D-loop; other site 400668004528 H-loop/switch region; other site 400668004529 FeS assembly protein SufD; Region: sufD; TIGR01981 400668004530 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 400668004531 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400668004532 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 400668004533 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668004534 catalytic residue [active] 400668004535 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 400668004536 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 400668004537 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 400668004538 cysteine desulfurase; Provisional; Region: PRK14012 400668004539 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 400668004540 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668004541 catalytic residue [active] 400668004542 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 400668004543 active site 400668004544 multimer interface [polypeptide binding]; other site 400668004545 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 400668004546 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 400668004547 FeS/SAM binding site; other site 400668004548 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 400668004549 binding surface 400668004550 TPR motif; other site 400668004551 Helix-turn-helix domain; Region: HTH_25; pfam13413 400668004552 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 400668004553 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 400668004554 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 400668004555 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 400668004556 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 400668004557 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 400668004558 dimer interface [polypeptide binding]; other site 400668004559 motif 1; other site 400668004560 active site 400668004561 motif 2; other site 400668004562 motif 3; other site 400668004563 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 400668004564 anticodon binding site; other site 400668004565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 400668004566 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 400668004567 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 400668004568 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 400668004569 Trp docking motif [polypeptide binding]; other site 400668004570 active site 400668004571 GTP-binding protein Der; Reviewed; Region: PRK00093 400668004572 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 400668004573 G1 box; other site 400668004574 GTP/Mg2+ binding site [chemical binding]; other site 400668004575 Switch I region; other site 400668004576 G2 box; other site 400668004577 Switch II region; other site 400668004578 G3 box; other site 400668004579 G4 box; other site 400668004580 G5 box; other site 400668004581 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 400668004582 G1 box; other site 400668004583 GTP/Mg2+ binding site [chemical binding]; other site 400668004584 Switch I region; other site 400668004585 G2 box; other site 400668004586 G3 box; other site 400668004587 Switch II region; other site 400668004588 G4 box; other site 400668004589 G5 box; other site 400668004590 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 400668004591 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668004592 Predicted deacylase [General function prediction only]; Region: COG3608 400668004593 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 400668004594 putative active site [active] 400668004595 Zn binding site [ion binding]; other site 400668004596 hypothetical protein; Provisional; Region: PRK01254 400668004597 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 400668004598 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 400668004599 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 400668004600 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668004601 Protein of unknown function (DUF2496); Region: DUF2496; pfam10689 400668004602 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 400668004603 DinB family; Region: DinB; cl17821 400668004604 Leucine rich repeat; Region: LRR_8; pfam13855 400668004605 Leucine rich repeat; Region: LRR_8; pfam13855 400668004606 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400668004607 active site 400668004608 ATP binding site [chemical binding]; other site 400668004609 substrate binding site [chemical binding]; other site 400668004610 activation loop (A-loop); other site 400668004611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668004612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668004613 Integrase core domain; Region: rve; pfam00665 400668004614 Integrase core domain; Region: rve_3; pfam13683 400668004615 riboflavin synthase subunit beta; Provisional; Region: PRK12419 400668004616 active site 400668004617 homopentamer interface [polypeptide binding]; other site 400668004618 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 400668004619 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 400668004620 active site 400668004621 SAM binding site [chemical binding]; other site 400668004622 homodimer interface [polypeptide binding]; other site 400668004623 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 400668004624 active site 400668004625 SAM binding site [chemical binding]; other site 400668004626 homodimer interface [polypeptide binding]; other site 400668004627 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 400668004628 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 400668004629 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 400668004630 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 400668004631 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 400668004632 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 400668004633 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 400668004634 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 400668004635 putative active site [active] 400668004636 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 400668004637 putative active site [active] 400668004638 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 400668004639 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 400668004640 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 400668004641 dimer interface [polypeptide binding]; other site 400668004642 active site 400668004643 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668004644 catalytic residues [active] 400668004645 substrate binding site [chemical binding]; other site 400668004646 NnrU protein; Region: NnrU; pfam07298 400668004647 Cache domain; Region: Cache_1; pfam02743 400668004648 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668004649 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 400668004650 dimerization interface [polypeptide binding]; other site 400668004651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668004652 dimer interface [polypeptide binding]; other site 400668004653 putative CheW interface [polypeptide binding]; other site 400668004654 putative chaperone; Provisional; Region: PRK11678 400668004655 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 400668004656 nucleotide binding site [chemical binding]; other site 400668004657 putative NEF/HSP70 interaction site [polypeptide binding]; other site 400668004658 SBD interface [polypeptide binding]; other site 400668004659 HAMP domain; Region: HAMP; pfam00672 400668004660 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668004661 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668004662 dimer interface [polypeptide binding]; other site 400668004663 putative CheW interface [polypeptide binding]; other site 400668004664 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 400668004665 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 400668004666 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 400668004667 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668004668 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004669 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 400668004670 dimerization interface [polypeptide binding]; other site 400668004671 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400668004672 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 400668004673 putative substrate translocation pore; other site 400668004674 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 400668004675 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 400668004676 N-terminal plug; other site 400668004677 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 400668004678 ligand-binding site [chemical binding]; other site 400668004679 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 400668004680 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 400668004681 nucleotide binding site [chemical binding]; other site 400668004682 putative NEF/HSP70 interaction site [polypeptide binding]; other site 400668004683 SBD interface [polypeptide binding]; other site 400668004684 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 400668004685 binding surface 400668004686 TPR motif; other site 400668004687 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 400668004688 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 400668004689 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 400668004690 catalytic site [active] 400668004691 putative active site [active] 400668004692 putative substrate binding site [chemical binding]; other site 400668004693 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 400668004694 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 400668004695 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 400668004696 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 400668004697 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 400668004698 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668004699 Zn2+ binding site [ion binding]; other site 400668004700 Mg2+ binding site [ion binding]; other site 400668004701 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 400668004702 phosphoenolpyruvate synthase; Validated; Region: PRK06464 400668004703 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 400668004704 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 400668004705 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 400668004706 PEP synthetase regulatory protein; Provisional; Region: PRK05339 400668004707 ribonuclease R; Region: RNase_R; TIGR02063 400668004708 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 400668004709 RNB domain; Region: RNB; pfam00773 400668004710 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 400668004711 RNA binding site [nucleotide binding]; other site 400668004712 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 400668004713 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 400668004714 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 400668004715 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 400668004716 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 400668004717 putative dimer interface [polypeptide binding]; other site 400668004718 active site pocket [active] 400668004719 putative cataytic base [active] 400668004720 cobalamin synthase; Reviewed; Region: cobS; PRK00235 400668004721 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 400668004722 catalytic core [active] 400668004723 Predicted membrane protein [Function unknown]; Region: COG2860 400668004724 UPF0126 domain; Region: UPF0126; pfam03458 400668004725 UPF0126 domain; Region: UPF0126; pfam03458 400668004726 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 400668004727 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 400668004728 homodimer interface [polypeptide binding]; other site 400668004729 Walker A motif; other site 400668004730 ATP binding site [chemical binding]; other site 400668004731 hydroxycobalamin binding site [chemical binding]; other site 400668004732 Walker B motif; other site 400668004733 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 400668004734 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; cd06462 400668004735 Catalytic site [active] 400668004736 Uncharacterized conserved protein [Function unknown]; Region: COG1284 400668004737 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 400668004738 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668004739 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 400668004740 active site 400668004741 dimer interface [polypeptide binding]; other site 400668004742 metal binding site [ion binding]; metal-binding site 400668004743 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 400668004744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668004745 Coenzyme A binding pocket [chemical binding]; other site 400668004746 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 400668004747 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 400668004748 RNA binding surface [nucleotide binding]; other site 400668004749 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 400668004750 active site 400668004751 uracil binding [chemical binding]; other site 400668004752 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 400668004753 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 400668004754 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668004755 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 400668004756 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 400668004757 Na binding site [ion binding]; other site 400668004758 PAS fold; Region: PAS_7; pfam12860 400668004759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668004760 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 400668004761 dimer interface [polypeptide binding]; other site 400668004762 phosphorylation site [posttranslational modification] 400668004763 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 400668004764 ATP binding site [chemical binding]; other site 400668004765 Mg2+ binding site [ion binding]; other site 400668004766 G-X-G motif; other site 400668004767 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668004768 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 400668004769 active site 400668004770 phosphorylation site [posttranslational modification] 400668004771 intermolecular recognition site; other site 400668004772 dimerization interface [polypeptide binding]; other site 400668004773 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 400668004774 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668004775 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668004776 Coenzyme A binding pocket [chemical binding]; other site 400668004777 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 400668004778 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668004779 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 400668004780 putative uracil binding site [chemical binding]; other site 400668004781 putative active site [active] 400668004782 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 400668004783 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 400668004784 Predicted membrane protein [Function unknown]; Region: COG4539 400668004785 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668004786 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 400668004787 putative DNA binding site [nucleotide binding]; other site 400668004788 putative Zn2+ binding site [ion binding]; other site 400668004789 AsnC family; Region: AsnC_trans_reg; pfam01037 400668004790 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400668004791 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 400668004792 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668004793 catalytic residue [active] 400668004794 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 400668004795 putative FMN binding site [chemical binding]; other site 400668004796 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 400668004797 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 400668004798 Na binding site [ion binding]; other site 400668004799 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 400668004800 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 400668004801 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 400668004802 active site 400668004803 metal binding site [ion binding]; metal-binding site 400668004804 MOSC domain; Region: MOSC; pfam03473 400668004805 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400668004806 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 400668004807 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668004808 catalytic residue [active] 400668004809 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668004810 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 400668004811 putative DNA binding site [nucleotide binding]; other site 400668004812 putative Zn2+ binding site [ion binding]; other site 400668004813 AsnC family; Region: AsnC_trans_reg; pfam01037 400668004814 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 400668004815 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 400668004816 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 400668004817 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400668004818 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668004819 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668004820 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 400668004821 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 400668004822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668004823 DNA-binding site [nucleotide binding]; DNA binding site 400668004824 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 400668004825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668004826 homodimer interface [polypeptide binding]; other site 400668004827 catalytic residue [active] 400668004828 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668004829 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 400668004830 GIY-YIG motif/motif A; other site 400668004831 putative active site [active] 400668004832 putative metal binding site [ion binding]; other site 400668004833 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_2; cd07253 400668004834 dimer interface [polypeptide binding]; other site 400668004835 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668004836 metal binding site [ion binding]; metal-binding site 400668004837 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 400668004838 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668004839 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 400668004840 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 400668004841 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 400668004842 ATP binding site [chemical binding]; other site 400668004843 putative Mg++ binding site [ion binding]; other site 400668004844 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 400668004845 nucleotide binding region [chemical binding]; other site 400668004846 ATP-binding site [chemical binding]; other site 400668004847 serine/threonine protein kinase; Provisional; Region: PRK11768 400668004848 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 400668004849 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668004850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668004851 active site 400668004852 phosphorylation site [posttranslational modification] 400668004853 intermolecular recognition site; other site 400668004854 TPR repeat; Region: TPR_11; pfam13414 400668004855 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 400668004856 binding surface 400668004857 TPR motif; other site 400668004858 TPR repeat; Region: TPR_11; pfam13414 400668004859 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 400668004860 binding surface 400668004861 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400668004862 TPR motif; other site 400668004863 Response regulator receiver domain; Region: Response_reg; pfam00072 400668004864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668004865 active site 400668004866 phosphorylation site [posttranslational modification] 400668004867 intermolecular recognition site; other site 400668004868 dimerization interface [polypeptide binding]; other site 400668004869 TPR repeat; Region: TPR_11; pfam13414 400668004870 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 400668004871 binding surface 400668004872 TPR motif; other site 400668004873 Biofilm formation and stress response factor; Region: BsmA; pfam10014 400668004874 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668004875 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668004876 dimer interface [polypeptide binding]; other site 400668004877 putative CheW interface [polypeptide binding]; other site 400668004878 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 400668004879 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668004880 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 400668004881 Walker A/P-loop; other site 400668004882 ATP binding site [chemical binding]; other site 400668004883 Q-loop/lid; other site 400668004884 ABC transporter signature motif; other site 400668004885 Walker B; other site 400668004886 D-loop; other site 400668004887 H-loop/switch region; other site 400668004888 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 400668004889 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 400668004890 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 400668004891 active site 400668004892 catalytic site [active] 400668004893 glycogen branching enzyme; Provisional; Region: PRK05402 400668004894 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 400668004895 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 400668004896 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 400668004897 active site 400668004898 catalytic site [active] 400668004899 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 400668004900 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 400668004901 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 400668004902 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 400668004903 dimerization interface [polypeptide binding]; other site 400668004904 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668004905 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668004906 dimer interface [polypeptide binding]; other site 400668004907 putative CheW interface [polypeptide binding]; other site 400668004908 Predicted membrane protein [Function unknown]; Region: COG1238 400668004909 Sporulation related domain; Region: SPOR; pfam05036 400668004910 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 400668004911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 400668004912 DctM-like transporters; Region: DctM; pfam06808 400668004913 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668004914 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668004915 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668004916 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668004917 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 400668004918 active site 400668004919 catalytic residues [active] 400668004920 metal binding site [ion binding]; metal-binding site 400668004921 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 400668004922 CoA-transferase family III; Region: CoA_transf_3; pfam02515 400668004923 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668004924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004925 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 400668004926 putative dimerization interface [polypeptide binding]; other site 400668004927 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 400668004928 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 400668004929 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 400668004930 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 400668004931 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 400668004932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668004933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668004934 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668004935 dimerization interface [polypeptide binding]; other site 400668004936 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 400668004937 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 400668004938 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 400668004939 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 400668004940 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 400668004941 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 400668004942 transmembrane helices; other site 400668004943 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 400668004944 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 400668004945 H+ Antiporter protein; Region: 2A0121; TIGR00900 400668004946 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 400668004947 putative substrate translocation pore; other site 400668004948 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 400668004949 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 400668004950 TrkA-N domain; Region: TrkA_N; pfam02254 400668004951 Flavodoxin domain; Region: Flavodoxin_5; cl17428 400668004952 GTPase RsgA; Reviewed; Region: PRK01889 400668004953 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 400668004954 GTPase/Zn-binding domain interface [polypeptide binding]; other site 400668004955 GTP/Mg2+ binding site [chemical binding]; other site 400668004956 G4 box; other site 400668004957 G5 box; other site 400668004958 G1 box; other site 400668004959 G3 box; other site 400668004960 Switch II region; other site 400668004961 agmatine deiminase; Provisional; Region: PRK13551 400668004962 agmatine deiminase; Region: agmatine_aguA; TIGR03380 400668004963 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 400668004964 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 400668004965 Walker A motif; other site 400668004966 ATP binding site [chemical binding]; other site 400668004967 Walker B motif; other site 400668004968 arginine finger; other site 400668004969 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668004970 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 400668004971 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 400668004972 active site 400668004973 hypothetical protein; Provisional; Region: PRK09256 400668004974 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 400668004975 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 400668004976 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 400668004977 homodimer interface [polypeptide binding]; other site 400668004978 substrate-cofactor binding pocket; other site 400668004979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668004980 catalytic residue [active] 400668004981 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 400668004982 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 400668004983 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668004984 DinB superfamily; Region: DinB_2; pfam12867 400668004985 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 400668004986 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 400668004987 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668004988 putative acyl-acceptor binding pocket; other site 400668004989 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 400668004990 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 400668004991 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 400668004992 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 400668004993 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 400668004994 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 400668004995 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668004996 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 400668004997 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668004998 Walker A/P-loop; other site 400668004999 ATP binding site [chemical binding]; other site 400668005000 Q-loop/lid; other site 400668005001 ABC transporter signature motif; other site 400668005002 Walker B; other site 400668005003 D-loop; other site 400668005004 H-loop/switch region; other site 400668005005 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 400668005006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668005007 Walker A/P-loop; other site 400668005008 ATP binding site [chemical binding]; other site 400668005009 Q-loop/lid; other site 400668005010 ABC transporter signature motif; other site 400668005011 Walker B; other site 400668005012 D-loop; other site 400668005013 H-loop/switch region; other site 400668005014 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 400668005015 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668005016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3779 400668005017 Protein of unknown function (DUF2185); Region: DUF2185; cl02019 400668005018 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 400668005019 active site 400668005020 NTP binding site [chemical binding]; other site 400668005021 metal binding triad [ion binding]; metal-binding site 400668005022 short chain dehydrogenase; Provisional; Region: PRK07478 400668005023 classical (c) SDRs; Region: SDR_c; cd05233 400668005024 NAD(P) binding site [chemical binding]; other site 400668005025 active site 400668005026 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668005027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668005028 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 400668005029 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 400668005030 DNA binding site [nucleotide binding] 400668005031 active site 400668005032 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400668005033 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 400668005034 non-specific DNA binding site [nucleotide binding]; other site 400668005035 salt bridge; other site 400668005036 sequence-specific DNA binding site [nucleotide binding]; other site 400668005037 AzlC protein; Region: AzlC; pfam03591 400668005038 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 400668005039 thioredoxin 2; Provisional; Region: PRK10996 400668005040 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 400668005041 catalytic residues [active] 400668005042 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 400668005043 putative protease; Provisional; Region: PRK15452 400668005044 Peptidase family U32; Region: Peptidase_U32; pfam01136 400668005045 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400668005046 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 400668005047 N-terminal plug; other site 400668005048 ligand-binding site [chemical binding]; other site 400668005049 Protein of unknown function (DUF465); Region: DUF465; cl01070 400668005050 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 400668005051 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 400668005052 ligand binding site [chemical binding]; other site 400668005053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 400668005054 ribonuclease T; Provisional; Region: PRK05168 400668005055 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 400668005056 active site 400668005057 catalytic site [active] 400668005058 substrate binding site [chemical binding]; other site 400668005059 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400668005060 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668005061 ligand binding site [chemical binding]; other site 400668005062 argininosuccinate synthase; Provisional; Region: PRK13820 400668005063 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 400668005064 ANP binding site [chemical binding]; other site 400668005065 Substrate Binding Site II [chemical binding]; other site 400668005066 Substrate Binding Site I [chemical binding]; other site 400668005067 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 400668005068 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668005069 substrate binding site [chemical binding]; other site 400668005070 dimer interface [polypeptide binding]; other site 400668005071 ATP binding site [chemical binding]; other site 400668005072 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 400668005073 active site 400668005074 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 400668005075 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 400668005076 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 400668005077 inhibitor-cofactor binding pocket; inhibition site 400668005078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668005079 catalytic residue [active] 400668005080 endonuclease III; Provisional; Region: PRK10702 400668005081 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 400668005082 minor groove reading motif; other site 400668005083 helix-hairpin-helix signature motif; other site 400668005084 substrate binding pocket [chemical binding]; other site 400668005085 active site 400668005086 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 400668005087 electron transport complex RsxE subunit; Provisional; Region: PRK12405 400668005088 FMN-binding domain; Region: FMN_bind; cl01081 400668005089 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 400668005090 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 400668005091 SLBB domain; Region: SLBB; pfam10531 400668005092 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 400668005093 electron transport complex protein RnfB; Provisional; Region: PRK05113 400668005094 Putative Fe-S cluster; Region: FeS; pfam04060 400668005095 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 400668005096 electron transport complex protein RsxA; Provisional; Region: PRK05151 400668005097 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 400668005098 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 400668005099 active site 400668005100 HIGH motif; other site 400668005101 KMSKS motif; other site 400668005102 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 400668005103 tRNA binding surface [nucleotide binding]; other site 400668005104 anticodon binding site; other site 400668005105 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 400668005106 dimer interface [polypeptide binding]; other site 400668005107 putative tRNA-binding site [nucleotide binding]; other site 400668005108 Domain of unknown function DUF59; Region: DUF59; pfam01883 400668005109 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 400668005110 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 400668005111 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 400668005112 trimer interface [polypeptide binding]; other site 400668005113 active site 400668005114 putative transposase OrfB; Reviewed; Region: PHA02517 400668005115 HTH-like domain; Region: HTH_21; pfam13276 400668005116 Integrase core domain; Region: rve; pfam00665 400668005117 Integrase core domain; Region: rve_3; pfam13683 400668005118 Transposase; Region: HTH_Tnp_1; pfam01527 400668005119 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668005120 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 400668005121 nudix motif; other site 400668005122 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 400668005123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 400668005124 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 400668005125 putative metal binding site [ion binding]; other site 400668005126 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 400668005127 PAS domain S-box; Region: sensory_box; TIGR00229 400668005128 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 400668005129 putative active site [active] 400668005130 heme pocket [chemical binding]; other site 400668005131 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668005132 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668005133 metal binding site [ion binding]; metal-binding site 400668005134 active site 400668005135 I-site; other site 400668005136 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 400668005137 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 400668005138 homodimer interface [polypeptide binding]; other site 400668005139 substrate-cofactor binding pocket; other site 400668005140 catalytic residue [active] 400668005141 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 400668005142 dimer interface [polypeptide binding]; other site 400668005143 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 400668005144 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668005145 active site 400668005146 phosphorylation site [posttranslational modification] 400668005147 intermolecular recognition site; other site 400668005148 dimerization interface [polypeptide binding]; other site 400668005149 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 400668005150 DNA binding site [nucleotide binding] 400668005151 two-component sensor protein; Provisional; Region: cpxA; PRK09470 400668005152 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 400668005153 dimerization interface [polypeptide binding]; other site 400668005154 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 400668005155 dimer interface [polypeptide binding]; other site 400668005156 phosphorylation site [posttranslational modification] 400668005157 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 400668005158 ATP binding site [chemical binding]; other site 400668005159 Mg2+ binding site [ion binding]; other site 400668005160 G-X-G motif; other site 400668005161 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400668005162 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 400668005163 S-adenosylmethionine binding site [chemical binding]; other site 400668005164 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 400668005165 TraB family; Region: TraB; pfam01963 400668005166 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 400668005167 Protein of unknown function, DUF481; Region: DUF481; pfam04338 400668005168 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 400668005169 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 400668005170 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 400668005171 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 400668005172 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 400668005173 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 400668005174 FAD binding site [chemical binding]; other site 400668005175 substrate binding site [chemical binding]; other site 400668005176 catalytic residues [active] 400668005177 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400668005178 SCP-2 sterol transfer family; Region: SCP2; pfam02036 400668005179 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 400668005180 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 400668005181 acyl-activating enzyme (AAE) consensus motif; other site 400668005182 putative AMP binding site [chemical binding]; other site 400668005183 putative active site [active] 400668005184 putative CoA binding site [chemical binding]; other site 400668005185 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 400668005186 enoyl-CoA hydratase; Provisional; Region: PRK06688 400668005187 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 400668005188 substrate binding site [chemical binding]; other site 400668005189 oxyanion hole (OAH) forming residues; other site 400668005190 trimer interface [polypeptide binding]; other site 400668005191 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 400668005192 Ligand binding site [chemical binding]; other site 400668005193 Electron transfer flavoprotein domain; Region: ETF; pfam01012 400668005194 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 400668005195 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 400668005196 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 400668005197 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 400668005198 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 400668005199 substrate binding site [chemical binding]; other site 400668005200 oxyanion hole (OAH) forming residues; other site 400668005201 trimer interface [polypeptide binding]; other site 400668005202 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400668005203 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400668005204 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 400668005205 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 400668005206 dimer interface [polypeptide binding]; other site 400668005207 active site 400668005208 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 400668005209 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 400668005210 dimerization interface [polypeptide binding]; other site 400668005211 NAD binding site [chemical binding]; other site 400668005212 ligand binding site [chemical binding]; other site 400668005213 catalytic site [active] 400668005214 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668005215 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 400668005216 dimerization interface [polypeptide binding]; other site 400668005217 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668005218 dimer interface [polypeptide binding]; other site 400668005219 putative CheW interface [polypeptide binding]; other site 400668005220 cytosine deaminase; Provisional; Region: PRK09230 400668005221 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 400668005222 active site 400668005223 cytosine permease; Provisional; Region: codB; PRK11017 400668005224 Na binding site [ion binding]; other site 400668005225 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 400668005226 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 400668005227 dimer interface [polypeptide binding]; other site 400668005228 active site 400668005229 heme binding site [chemical binding]; other site 400668005230 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 400668005231 Cache domain; Region: Cache_1; pfam02743 400668005232 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 400668005233 dimerization interface [polypeptide binding]; other site 400668005234 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668005235 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668005236 dimer interface [polypeptide binding]; other site 400668005237 putative CheW interface [polypeptide binding]; other site 400668005238 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 400668005239 putative acetyltransferase; Provisional; Region: PRK03624 400668005240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668005241 Coenzyme A binding pocket [chemical binding]; other site 400668005242 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 400668005243 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 400668005244 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 400668005245 putative active site [active] 400668005246 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 400668005247 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 400668005248 putative ligand binding site [chemical binding]; other site 400668005249 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668005250 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 400668005251 TM-ABC transporter signature motif; other site 400668005252 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 400668005253 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668005254 Walker A/P-loop; other site 400668005255 ATP binding site [chemical binding]; other site 400668005256 Q-loop/lid; other site 400668005257 ABC transporter signature motif; other site 400668005258 Walker B; other site 400668005259 D-loop; other site 400668005260 H-loop/switch region; other site 400668005261 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668005262 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668005263 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668005264 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668005265 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 400668005266 substrate binding site [chemical binding]; other site 400668005267 ATP binding site [chemical binding]; other site 400668005268 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 400668005269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 400668005270 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 400668005271 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 400668005272 PYR/PP interface [polypeptide binding]; other site 400668005273 dimer interface [polypeptide binding]; other site 400668005274 TPP binding site [chemical binding]; other site 400668005275 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 400668005276 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 400668005277 TPP-binding site; other site 400668005278 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 400668005279 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 400668005280 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 400668005281 tetrameric interface [polypeptide binding]; other site 400668005282 NAD binding site [chemical binding]; other site 400668005283 catalytic residues [active] 400668005284 KduI/IolB family; Region: KduI; pfam04962 400668005285 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668005286 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668005287 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668005288 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 400668005289 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 400668005290 active site 400668005291 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668005292 DNA binding site [nucleotide binding] 400668005293 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668005294 domain linker motif; other site 400668005295 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 400668005296 putative ligand binding site [chemical binding]; other site 400668005297 putative dimerization interface [polypeptide binding]; other site 400668005298 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 400668005299 active site 400668005300 catalytic residues [active] 400668005301 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668005302 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 400668005303 active site 400668005304 dimerization interface [polypeptide binding]; other site 400668005305 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668005306 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 400668005307 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668005308 Walker A/P-loop; other site 400668005309 ATP binding site [chemical binding]; other site 400668005310 Q-loop/lid; other site 400668005311 ABC transporter signature motif; other site 400668005312 Walker B; other site 400668005313 D-loop; other site 400668005314 H-loop/switch region; other site 400668005315 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 400668005316 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 400668005317 dimer interface [polypeptide binding]; other site 400668005318 conserved gate region; other site 400668005319 putative PBP binding loops; other site 400668005320 ABC-ATPase subunit interface; other site 400668005321 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 400668005322 putative PBP binding loops; other site 400668005323 dimer interface [polypeptide binding]; other site 400668005324 ABC-ATPase subunit interface; other site 400668005325 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 400668005326 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668005327 Isochorismatase family; Region: Isochorismatase; pfam00857 400668005328 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 400668005329 catalytic triad [active] 400668005330 dimer interface [polypeptide binding]; other site 400668005331 conserved cis-peptide bond; other site 400668005332 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 400668005333 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 400668005334 metal-binding site [ion binding] 400668005335 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400668005336 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 400668005337 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 400668005338 L-fucose transporter; Provisional; Region: PRK10133; cl17665 400668005339 Cupin domain; Region: Cupin_2; pfam07883 400668005340 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668005341 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 400668005342 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 400668005343 putative substrate translocation pore; other site 400668005344 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 400668005345 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 400668005346 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 400668005347 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400668005348 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 400668005349 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 400668005350 acyl-activating enzyme (AAE) consensus motif; other site 400668005351 AMP binding site [chemical binding]; other site 400668005352 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668005353 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 400668005354 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668005355 putative substrate translocation pore; other site 400668005356 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668005357 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668005358 Walker A/P-loop; other site 400668005359 ATP binding site [chemical binding]; other site 400668005360 Q-loop/lid; other site 400668005361 ABC transporter signature motif; other site 400668005362 Walker B; other site 400668005363 D-loop; other site 400668005364 H-loop/switch region; other site 400668005365 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668005366 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 400668005367 putative PBP binding regions; other site 400668005368 ABC-ATPase subunit interface; other site 400668005369 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 400668005370 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 400668005371 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 400668005372 hydrophobic substrate binding pocket; other site 400668005373 Isochorismatase family; Region: Isochorismatase; pfam00857 400668005374 active site 400668005375 conserved cis-peptide bond; other site 400668005376 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 400668005377 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 400668005378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668005379 NAD(P) binding site [chemical binding]; other site 400668005380 active site 400668005381 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 400668005382 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 400668005383 N-terminal plug; other site 400668005384 ligand-binding site [chemical binding]; other site 400668005385 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668005386 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 400668005387 putative ligand binding residues [chemical binding]; other site 400668005388 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 400668005389 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668005390 Walker A/P-loop; other site 400668005391 ATP binding site [chemical binding]; other site 400668005392 Q-loop/lid; other site 400668005393 ABC transporter signature motif; other site 400668005394 Walker B; other site 400668005395 D-loop; other site 400668005396 H-loop/switch region; other site 400668005397 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668005398 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 400668005399 ABC-ATPase subunit interface; other site 400668005400 dimer interface [polypeptide binding]; other site 400668005401 putative PBP binding regions; other site 400668005402 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 400668005403 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 400668005404 ABC-ATPase subunit interface; other site 400668005405 dimer interface [polypeptide binding]; other site 400668005406 putative PBP binding regions; other site 400668005407 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 400668005408 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668005409 Condensation domain; Region: Condensation; pfam00668 400668005410 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668005411 Nonribosomal peptide synthase; Region: NRPS; pfam08415 400668005412 Condensation domain; Region: Condensation; pfam00668 400668005413 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668005414 Nonribosomal peptide synthase; Region: NRPS; pfam08415 400668005415 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668005416 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 400668005417 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 400668005418 acyl-activating enzyme (AAE) consensus motif; other site 400668005419 active site 400668005420 AMP binding site [chemical binding]; other site 400668005421 substrate binding site [chemical binding]; other site 400668005422 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 400668005423 hydrophobic substrate binding pocket; other site 400668005424 Isochorismatase family; Region: Isochorismatase; pfam00857 400668005425 active site 400668005426 conserved cis-peptide bond; other site 400668005427 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 400668005428 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 400668005429 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400668005430 acyl-activating enzyme (AAE) consensus motif; other site 400668005431 AMP binding site [chemical binding]; other site 400668005432 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 400668005433 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668005434 Walker A/P-loop; other site 400668005435 ATP binding site [chemical binding]; other site 400668005436 Q-loop/lid; other site 400668005437 ABC transporter signature motif; other site 400668005438 Walker B; other site 400668005439 D-loop; other site 400668005440 H-loop/switch region; other site 400668005441 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 400668005442 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668005443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668005444 Walker A/P-loop; other site 400668005445 ATP binding site [chemical binding]; other site 400668005446 Q-loop/lid; other site 400668005447 ABC transporter signature motif; other site 400668005448 Walker B; other site 400668005449 D-loop; other site 400668005450 H-loop/switch region; other site 400668005451 histidine decarboxylase; Provisional; Region: PRK02769 400668005452 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668005453 catalytic residue [active] 400668005454 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668005455 Condensation domain; Region: Condensation; pfam00668 400668005456 Glycosyl hydrolase family 79, N-terminal domain; Region: Glyco_hydro_79n; pfam03662 400668005457 Eukaryotic aspartyl protease; Region: Asp; pfam00026 400668005458 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 400668005459 inhibitor binding site; inhibition site 400668005460 catalytic motif [active] 400668005461 catalytic residue [active] 400668005462 Active site flap [active] 400668005463 Avidin family; Region: Avidin; pfam01382 400668005464 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 400668005465 putative active site [active] 400668005466 heme pocket [chemical binding]; other site 400668005467 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668005468 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 400668005469 dimer interface [polypeptide binding]; other site 400668005470 phosphorylation site [posttranslational modification] 400668005471 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 400668005472 ATP binding site [chemical binding]; other site 400668005473 Mg2+ binding site [ion binding]; other site 400668005474 G-X-G motif; other site 400668005475 Response regulator receiver domain; Region: Response_reg; pfam00072 400668005476 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668005477 active site 400668005478 phosphorylation site [posttranslational modification] 400668005479 intermolecular recognition site; other site 400668005480 dimerization interface [polypeptide binding]; other site 400668005481 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 400668005482 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668005483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668005484 active site 400668005485 phosphorylation site [posttranslational modification] 400668005486 intermolecular recognition site; other site 400668005487 dimerization interface [polypeptide binding]; other site 400668005488 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668005489 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668005490 metal binding site [ion binding]; metal-binding site 400668005491 active site 400668005492 I-site; other site 400668005493 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 400668005494 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400668005495 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668005496 DNA-binding site [nucleotide binding]; DNA binding site 400668005497 UTRA domain; Region: UTRA; pfam07702 400668005498 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668005499 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668005500 Walker A/P-loop; other site 400668005501 ATP binding site [chemical binding]; other site 400668005502 Q-loop/lid; other site 400668005503 ABC transporter signature motif; other site 400668005504 Walker B; other site 400668005505 D-loop; other site 400668005506 H-loop/switch region; other site 400668005507 TOBE domain; Region: TOBE_2; pfam08402 400668005508 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668005509 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 400668005510 dimer interface [polypeptide binding]; other site 400668005511 conserved gate region; other site 400668005512 putative PBP binding loops; other site 400668005513 ABC-ATPase subunit interface; other site 400668005514 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668005515 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 400668005516 dimer interface [polypeptide binding]; other site 400668005517 conserved gate region; other site 400668005518 putative PBP binding loops; other site 400668005519 ABC-ATPase subunit interface; other site 400668005520 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668005521 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668005522 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 400668005523 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 400668005524 active site 400668005525 trimer interface [polypeptide binding]; other site 400668005526 allosteric site; other site 400668005527 active site lid [active] 400668005528 hexamer (dimer of trimers) interface [polypeptide binding]; other site 400668005529 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 400668005530 nucleotide binding site [chemical binding]; other site 400668005531 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 400668005532 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 400668005533 active site 400668005534 dimer interface [polypeptide binding]; other site 400668005535 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668005536 DNA-binding site [nucleotide binding]; DNA binding site 400668005537 RNA-binding motif; other site 400668005538 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 400668005539 Fasciclin domain; Region: Fasciclin; pfam02469 400668005540 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668005541 EamA-like transporter family; Region: EamA; pfam00892 400668005542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668005543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668005544 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 400668005545 putative effector binding pocket; other site 400668005546 dimerization interface [polypeptide binding]; other site 400668005547 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 400668005548 active site 400668005549 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 400668005550 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 400668005551 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 400668005552 substrate binding site [chemical binding]; other site 400668005553 active site 400668005554 catalytic residues [active] 400668005555 heterodimer interface [polypeptide binding]; other site 400668005556 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 400668005557 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 400668005558 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668005559 catalytic residue [active] 400668005560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668005561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668005562 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 400668005563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668005564 putative substrate translocation pore; other site 400668005565 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668005566 Coenzyme A binding pocket [chemical binding]; other site 400668005567 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668005568 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 400668005569 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 400668005570 active site 400668005571 substrate binding site [chemical binding]; other site 400668005572 cosubstrate binding site; other site 400668005573 catalytic site [active] 400668005574 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 400668005575 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 400668005576 Phage Tail Collar Domain; Region: Collar; pfam07484 400668005577 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 400668005578 Phage Tail Collar Domain; Region: Collar; pfam07484 400668005579 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 400668005580 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400668005581 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668005582 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 400668005583 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 400668005584 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 400668005585 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 400668005586 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005587 Ca2+ binding site [ion binding]; other site 400668005588 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005589 Ca2+ binding site [ion binding]; other site 400668005590 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005591 Ca2+ binding site [ion binding]; other site 400668005592 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005593 Ca2+ binding site [ion binding]; other site 400668005594 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005595 Ca2+ binding site [ion binding]; other site 400668005596 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005597 Ca2+ binding site [ion binding]; other site 400668005598 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005599 Ca2+ binding site [ion binding]; other site 400668005600 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005601 Ca2+ binding site [ion binding]; other site 400668005602 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005603 Ca2+ binding site [ion binding]; other site 400668005604 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005605 Ca2+ binding site [ion binding]; other site 400668005606 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005607 Ca2+ binding site [ion binding]; other site 400668005608 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005609 Ca2+ binding site [ion binding]; other site 400668005610 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 400668005611 Ca2+ binding site [ion binding]; other site 400668005612 VCBS repeat; Region: VCBS_repeat; TIGR01965 400668005613 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 400668005614 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668005615 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668005616 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 400668005617 Peptidase family M50; Region: Peptidase_M50; pfam02163 400668005618 active site 400668005619 putative substrate binding region [chemical binding]; other site 400668005620 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668005621 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668005622 guanine deaminase; Provisional; Region: PRK09228 400668005623 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 400668005624 active site 400668005625 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 400668005626 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 400668005627 ATP binding site [chemical binding]; other site 400668005628 Mg++ binding site [ion binding]; other site 400668005629 motif III; other site 400668005630 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 400668005631 nucleotide binding region [chemical binding]; other site 400668005632 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 400668005633 putative RNA binding site [nucleotide binding]; other site 400668005634 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 400668005635 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668005636 metal binding site [ion binding]; metal-binding site 400668005637 active site 400668005638 I-site; other site 400668005639 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 400668005640 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668005641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668005642 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668005643 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 400668005644 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668005645 Walker A/P-loop; other site 400668005646 ATP binding site [chemical binding]; other site 400668005647 Q-loop/lid; other site 400668005648 ABC transporter signature motif; other site 400668005649 Walker B; other site 400668005650 D-loop; other site 400668005651 H-loop/switch region; other site 400668005652 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 400668005653 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 400668005654 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668005655 Walker A/P-loop; other site 400668005656 ATP binding site [chemical binding]; other site 400668005657 Q-loop/lid; other site 400668005658 ABC transporter signature motif; other site 400668005659 Walker B; other site 400668005660 D-loop; other site 400668005661 H-loop/switch region; other site 400668005662 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 400668005663 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 400668005664 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 400668005665 dimer interface [polypeptide binding]; other site 400668005666 conserved gate region; other site 400668005667 putative PBP binding loops; other site 400668005668 ABC-ATPase subunit interface; other site 400668005669 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668005670 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 400668005671 dimer interface [polypeptide binding]; other site 400668005672 conserved gate region; other site 400668005673 putative PBP binding loops; other site 400668005674 ABC-ATPase subunit interface; other site 400668005675 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 400668005676 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 400668005677 Protein of unknown function, DUF479; Region: DUF479; cl01203 400668005678 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 400668005679 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 400668005680 GTP/Mg2+ binding site [chemical binding]; other site 400668005681 G4 box; other site 400668005682 G5 box; other site 400668005683 G1 box; other site 400668005684 Switch I region; other site 400668005685 G2 box; other site 400668005686 G3 box; other site 400668005687 Switch II region; other site 400668005688 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 400668005689 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 400668005690 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 400668005691 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 400668005692 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 400668005693 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 400668005694 putative acyl-acceptor binding pocket; other site 400668005695 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 400668005696 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 400668005697 active site 400668005698 ATP binding site [chemical binding]; other site 400668005699 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 400668005700 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 400668005701 putative active site [active] 400668005702 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; cl00246 400668005703 FAD binding site [chemical binding]; other site 400668005704 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 400668005705 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 400668005706 DEAD-like helicases superfamily; Region: DEXDc; smart00487 400668005707 ATP binding site [chemical binding]; other site 400668005708 Mg++ binding site [ion binding]; other site 400668005709 motif III; other site 400668005710 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 400668005711 nucleotide binding region [chemical binding]; other site 400668005712 ATP-binding site [chemical binding]; other site 400668005713 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668005714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668005715 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 400668005716 dimerization interface [polypeptide binding]; other site 400668005717 substrate binding pocket [chemical binding]; other site 400668005718 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 400668005719 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 400668005720 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400668005721 catalytic residue [active] 400668005722 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668005723 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668005724 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400668005725 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668005726 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 400668005727 Methyltransferase domain; Region: Methyltransf_11; pfam08241 400668005728 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 400668005729 RNA/DNA hybrid binding site [nucleotide binding]; other site 400668005730 active site 400668005731 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 400668005732 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 400668005733 active site 400668005734 catalytic site [active] 400668005735 substrate binding site [chemical binding]; other site 400668005736 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 400668005737 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 400668005738 putative inner membrane peptidase; Provisional; Region: PRK11778 400668005739 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 400668005740 tandem repeat interface [polypeptide binding]; other site 400668005741 oligomer interface [polypeptide binding]; other site 400668005742 active site residues [active] 400668005743 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 400668005744 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 400668005745 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 400668005746 ATP binding site [chemical binding]; other site 400668005747 putative Mg++ binding site [ion binding]; other site 400668005748 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 400668005749 nucleotide binding region [chemical binding]; other site 400668005750 ATP-binding site [chemical binding]; other site 400668005751 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 400668005752 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 400668005753 active site 400668005754 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 400668005755 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 400668005756 E3 interaction surface; other site 400668005757 lipoyl attachment site [posttranslational modification]; other site 400668005758 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 400668005759 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 400668005760 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 400668005761 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 400668005762 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 400668005763 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 400668005764 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 400668005765 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 400668005766 catalytic loop [active] 400668005767 iron binding site [ion binding]; other site 400668005768 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 400668005769 FAD binding pocket [chemical binding]; other site 400668005770 FAD binding motif [chemical binding]; other site 400668005771 phosphate binding motif [ion binding]; other site 400668005772 beta-alpha-beta structure motif; other site 400668005773 NAD binding pocket [chemical binding]; other site 400668005774 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 400668005775 ApbE family; Region: ApbE; pfam02424 400668005776 Protein of unknown function (DUF539); Region: DUF539; pfam04400 400668005777 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 400668005778 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668005779 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400668005780 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668005781 active site 400668005782 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 400668005783 trigger factor; Provisional; Region: tig; PRK01490 400668005784 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668005785 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 400668005786 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 400668005787 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 400668005788 oligomer interface [polypeptide binding]; other site 400668005789 active site residues [active] 400668005790 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 400668005791 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 400668005792 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 400668005793 Walker A motif; other site 400668005794 ATP binding site [chemical binding]; other site 400668005795 Walker B motif; other site 400668005796 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 400668005797 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 400668005798 Found in ATP-dependent protease La (LON); Region: LON; smart00464 400668005799 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 400668005800 Walker A motif; other site 400668005801 ATP binding site [chemical binding]; other site 400668005802 Walker B motif; other site 400668005803 arginine finger; other site 400668005804 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 400668005805 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 400668005806 IHF dimer interface [polypeptide binding]; other site 400668005807 IHF - DNA interface [nucleotide binding]; other site 400668005808 periplasmic folding chaperone; Provisional; Region: PRK10788 400668005809 SurA N-terminal domain; Region: SurA_N_3; cl07813 400668005810 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 400668005811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668005812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668005813 Integrase core domain; Region: rve; pfam00665 400668005814 Integrase core domain; Region: rve_3; pfam13683 400668005815 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 400668005816 Oxygen tolerance; Region: BatD; pfam13584 400668005817 von Willebrand factor type A domain; Region: VWA_2; pfam13519 400668005818 metal ion-dependent adhesion site (MIDAS); other site 400668005819 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 400668005820 binding surface 400668005821 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400668005822 TPR motif; other site 400668005823 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 400668005824 metal ion-dependent adhesion site (MIDAS); other site 400668005825 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 400668005826 Protein of unknown function DUF58; Region: DUF58; pfam01882 400668005827 MoxR-like ATPases [General function prediction only]; Region: COG0714 400668005828 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 400668005829 Walker A motif; other site 400668005830 ATP binding site [chemical binding]; other site 400668005831 Walker B motif; other site 400668005832 arginine finger; other site 400668005833 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 400668005834 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 400668005835 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 400668005836 quinone interaction residues [chemical binding]; other site 400668005837 active site 400668005838 catalytic residues [active] 400668005839 FMN binding site [chemical binding]; other site 400668005840 substrate binding site [chemical binding]; other site 400668005841 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 400668005842 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 400668005843 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668005844 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 400668005845 S-adenosylmethionine binding site [chemical binding]; other site 400668005846 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 400668005847 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 400668005848 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 400668005849 putative active site [active] 400668005850 putative substrate binding site [chemical binding]; other site 400668005851 putative cosubstrate binding site; other site 400668005852 catalytic site [active] 400668005853 Transposase; Region: DEDD_Tnp_IS110; pfam01548 400668005854 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 400668005855 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 400668005856 Transposase domain (DUF772); Region: DUF772; pfam05598 400668005857 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 400668005858 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 400668005859 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 400668005860 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 400668005861 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 400668005862 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 400668005863 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 400668005864 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 400668005865 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668005866 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668005867 metal binding site [ion binding]; metal-binding site 400668005868 active site 400668005869 I-site; other site 400668005870 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 400668005871 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 400668005872 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 400668005873 S-adenosylmethionine binding site [chemical binding]; other site 400668005874 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 400668005875 active site clefts [active] 400668005876 zinc binding site [ion binding]; other site 400668005877 dimer interface [polypeptide binding]; other site 400668005878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668005879 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668005880 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668005881 substrate binding pocket [chemical binding]; other site 400668005882 dimerization interface [polypeptide binding]; other site 400668005883 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 400668005884 dimerization interface [polypeptide binding]; other site 400668005885 putative active cleft [active] 400668005886 MarR family; Region: MarR_2; pfam12802 400668005887 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 400668005888 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400668005889 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 400668005890 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 400668005891 putative aromatic amino acid binding site; other site 400668005892 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 400668005893 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 400668005894 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 400668005895 active site 400668005896 motif I; other site 400668005897 motif II; other site 400668005898 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668005899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668005900 active site 400668005901 phosphorylation site [posttranslational modification] 400668005902 intermolecular recognition site; other site 400668005903 dimerization interface [polypeptide binding]; other site 400668005904 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 400668005905 Walker A motif; other site 400668005906 ATP binding site [chemical binding]; other site 400668005907 Walker B motif; other site 400668005908 arginine finger; other site 400668005909 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668005910 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668005911 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 400668005912 substrate binding pocket [chemical binding]; other site 400668005913 membrane-bound complex binding site; other site 400668005914 hinge residues; other site 400668005915 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 400668005916 dimer interface [polypeptide binding]; other site 400668005917 phosphorylation site [posttranslational modification] 400668005918 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 400668005919 ATP binding site [chemical binding]; other site 400668005920 Mg2+ binding site [ion binding]; other site 400668005921 G-X-G motif; other site 400668005922 Transposase; Region: HTH_Tnp_1; pfam01527 400668005923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668005924 putative transposase OrfB; Reviewed; Region: PHA02517 400668005925 HTH-like domain; Region: HTH_21; pfam13276 400668005926 Integrase core domain; Region: rve; pfam00665 400668005927 Integrase core domain; Region: rve_3; pfam13683 400668005928 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668005929 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668005930 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 400668005931 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 400668005932 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 400668005933 HopJ type III effector protein; Region: HopJ; pfam08888 400668005934 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 400668005935 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 400668005936 putative substrate translocation pore; other site 400668005937 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 400668005938 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668005939 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 400668005940 Walker A/P-loop; other site 400668005941 ATP binding site [chemical binding]; other site 400668005942 Q-loop/lid; other site 400668005943 ABC transporter signature motif; other site 400668005944 Walker B; other site 400668005945 D-loop; other site 400668005946 H-loop/switch region; other site 400668005947 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 400668005948 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 400668005949 intersubunit interface [polypeptide binding]; other site 400668005950 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 400668005951 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 400668005952 active site 400668005953 homodimer interface [polypeptide binding]; other site 400668005954 catalytic site [active] 400668005955 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 400668005956 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 400668005957 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 400668005958 active site 400668005959 motif I; other site 400668005960 motif II; other site 400668005961 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 400668005962 EamA-like transporter family; Region: EamA; pfam00892 400668005963 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 400668005964 active site 400668005965 NTP binding site [chemical binding]; other site 400668005966 metal binding triad [ion binding]; metal-binding site 400668005967 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_31; cd04690 400668005968 nudix motif; other site 400668005969 Predicted ATPase [General function prediction only]; Region: COG3911 400668005970 AAA domain; Region: AAA_28; pfam13521 400668005971 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668005972 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668005973 Coenzyme A binding pocket [chemical binding]; other site 400668005974 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 400668005975 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 400668005976 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 400668005977 putative active site [active] 400668005978 putative metal binding residues [ion binding]; other site 400668005979 signature motif; other site 400668005980 putative triphosphate binding site [ion binding]; other site 400668005981 dimer interface [polypeptide binding]; other site 400668005982 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 400668005983 integron integrase; Region: integrase_gron; TIGR02249 400668005984 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 400668005985 active site 400668005986 DNA binding site [nucleotide binding] 400668005987 Int/Topo IB signature motif; other site 400668005988 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 400668005989 Putative transposase; Region: Y2_Tnp; pfam04986 400668005990 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 400668005991 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 400668005992 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 400668005993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668005994 catalytic residue [active] 400668005995 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668005996 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 400668005997 EamA-like transporter family; Region: EamA; pfam00892 400668005998 EamA-like transporter family; Region: EamA; pfam00892 400668005999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668006000 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668006001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 400668006002 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668006003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006004 active site 400668006005 phosphorylation site [posttranslational modification] 400668006006 intermolecular recognition site; other site 400668006007 dimerization interface [polypeptide binding]; other site 400668006008 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 400668006009 DNA binding site [nucleotide binding] 400668006010 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 400668006011 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668006012 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 400668006013 dimerization interface [polypeptide binding]; other site 400668006014 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 400668006015 dimer interface [polypeptide binding]; other site 400668006016 phosphorylation site [posttranslational modification] 400668006017 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 400668006018 ATP binding site [chemical binding]; other site 400668006019 Mg2+ binding site [ion binding]; other site 400668006020 G-X-G motif; other site 400668006021 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400668006022 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668006023 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 400668006024 Cupin domain; Region: Cupin_2; cl17218 400668006025 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668006026 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006028 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 400668006029 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 400668006030 apolar tunnel; other site 400668006031 heme binding site [chemical binding]; other site 400668006032 dimerization interface [polypeptide binding]; other site 400668006033 Predicted permeases [General function prediction only]; Region: COG0701 400668006034 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 400668006035 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 400668006036 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 400668006037 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 400668006038 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668006039 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668006040 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668006041 MarR family; Region: MarR_2; cl17246 400668006042 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 400668006043 intersubunit interface [polypeptide binding]; other site 400668006044 active site 400668006045 Zn2+ binding site [ion binding]; other site 400668006046 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 400668006047 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 400668006048 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 400668006049 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 400668006050 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 400668006051 Walker A/P-loop; other site 400668006052 ATP binding site [chemical binding]; other site 400668006053 Q-loop/lid; other site 400668006054 ABC transporter signature motif; other site 400668006055 Walker B; other site 400668006056 D-loop; other site 400668006057 H-loop/switch region; other site 400668006058 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 400668006059 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 400668006060 TM-ABC transporter signature motif; other site 400668006061 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 400668006062 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 400668006063 Walker A/P-loop; other site 400668006064 ATP binding site [chemical binding]; other site 400668006065 Q-loop/lid; other site 400668006066 ABC transporter signature motif; other site 400668006067 Walker B; other site 400668006068 D-loop; other site 400668006069 H-loop/switch region; other site 400668006070 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 400668006071 TM-ABC transporter signature motif; other site 400668006072 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 400668006073 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 400668006074 putative ligand binding site [chemical binding]; other site 400668006075 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400668006076 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400668006077 active site 400668006078 SnoaL-like domain; Region: SnoaL_4; pfam13577 400668006079 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 400668006080 [2Fe-2S] cluster binding site [ion binding]; other site 400668006081 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 400668006082 putative alpha subunit interface [polypeptide binding]; other site 400668006083 putative active site [active] 400668006084 putative substrate binding site [chemical binding]; other site 400668006085 Fe binding site [ion binding]; other site 400668006086 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 400668006087 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 400668006088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668006089 NAD(P) binding site [chemical binding]; other site 400668006090 active site 400668006091 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400668006092 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 400668006093 FMN-binding pocket [chemical binding]; other site 400668006094 flavin binding motif; other site 400668006095 phosphate binding motif [ion binding]; other site 400668006096 beta-alpha-beta structure motif; other site 400668006097 NAD binding pocket [chemical binding]; other site 400668006098 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 400668006099 catalytic loop [active] 400668006100 iron binding site [ion binding]; other site 400668006101 Flavin Reductases; Region: FlaRed; cl00801 400668006102 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 400668006103 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 400668006104 phosphate binding site [ion binding]; other site 400668006105 hypothetical protein; Provisional; Region: PRK06102 400668006106 Amidase; Region: Amidase; cl11426 400668006107 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668006108 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668006109 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 400668006110 NAD(P) binding site [chemical binding]; other site 400668006111 catalytic residues [active] 400668006112 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668006113 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006114 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668006115 dimer interface [polypeptide binding]; other site 400668006116 putative CheW interface [polypeptide binding]; other site 400668006117 Amino acid permease; Region: AA_permease_2; pfam13520 400668006118 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668006119 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 400668006120 homotrimer interaction site [polypeptide binding]; other site 400668006121 putative active site [active] 400668006122 ornithine cyclodeaminase; Validated; Region: PRK06199 400668006123 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 400668006124 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 400668006125 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 400668006126 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668006127 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 400668006128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668006129 Coenzyme A binding pocket [chemical binding]; other site 400668006130 Peptidase_C39 like family; Region: DUF3335; pfam11814 400668006131 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668006132 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400668006133 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 400668006134 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 400668006135 tetramer interface [polypeptide binding]; other site 400668006136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668006137 catalytic residue [active] 400668006138 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 400668006139 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 400668006140 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 400668006141 Putative addiction module component; Region: Unstab_antitox; pfam09720 400668006142 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 400668006143 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 400668006144 putative substrate translocation pore; other site 400668006145 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668006146 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 400668006147 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 400668006148 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400668006149 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 400668006150 putative DNA binding site [nucleotide binding]; other site 400668006151 dimerization interface [polypeptide binding]; other site 400668006152 putative Zn2+ binding site [ion binding]; other site 400668006153 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 400668006154 Ligand Binding Site [chemical binding]; other site 400668006155 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 400668006156 Ligand Binding Site [chemical binding]; other site 400668006157 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 400668006158 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 400668006159 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400668006160 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 400668006161 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 400668006162 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006163 Calx-beta domain; Region: Calx-beta; cl02522 400668006164 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 400668006165 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006166 Calx-beta domain; Region: Calx-beta; cl02522 400668006167 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006168 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 400668006169 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006170 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006171 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006172 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006173 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 400668006174 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 400668006175 methionine sulfoxide reductase A; Provisional; Region: PRK00058 400668006176 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668006177 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668006178 DNA binding site [nucleotide binding] 400668006179 domain linker motif; other site 400668006180 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 400668006181 dimerization interface [polypeptide binding]; other site 400668006182 ligand binding site [chemical binding]; other site 400668006183 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668006184 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 400668006185 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006186 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 400668006187 TM-ABC transporter signature motif; other site 400668006188 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668006189 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668006190 Walker A/P-loop; other site 400668006191 ATP binding site [chemical binding]; other site 400668006192 Q-loop/lid; other site 400668006193 ABC transporter signature motif; other site 400668006194 Walker B; other site 400668006195 D-loop; other site 400668006196 H-loop/switch region; other site 400668006197 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668006198 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668006199 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668006200 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668006201 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 400668006202 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 400668006203 DNA interaction; other site 400668006204 Metal-binding active site; metal-binding site 400668006205 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 400668006206 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006207 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006208 metal binding site [ion binding]; metal-binding site 400668006209 active site 400668006210 I-site; other site 400668006211 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 400668006212 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 400668006213 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 400668006214 putative ligand binding site [chemical binding]; other site 400668006215 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 400668006216 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668006217 Walker A/P-loop; other site 400668006218 ATP binding site [chemical binding]; other site 400668006219 Q-loop/lid; other site 400668006220 ABC transporter signature motif; other site 400668006221 Walker B; other site 400668006222 D-loop; other site 400668006223 H-loop/switch region; other site 400668006224 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668006225 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 400668006226 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 400668006227 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006228 TM-ABC transporter signature motif; other site 400668006229 xylulokinase; Provisional; Region: PRK15027 400668006230 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 400668006231 N- and C-terminal domain interface [polypeptide binding]; other site 400668006232 active site 400668006233 MgATP binding site [chemical binding]; other site 400668006234 catalytic site [active] 400668006235 metal binding site [ion binding]; metal-binding site 400668006236 xylulose binding site [chemical binding]; other site 400668006237 homodimer interface [polypeptide binding]; other site 400668006238 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 400668006239 putative dimerization interface [polypeptide binding]; other site 400668006240 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 400668006241 putative ligand binding site [chemical binding]; other site 400668006242 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668006243 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006244 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 400668006245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668006246 DNA binding site [nucleotide binding] 400668006247 domain linker motif; other site 400668006248 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 400668006249 dimerization interface [polypeptide binding]; other site 400668006250 ligand binding site [chemical binding]; other site 400668006251 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 400668006252 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 400668006253 ligand binding site [chemical binding]; other site 400668006254 dimerization interface [polypeptide binding]; other site 400668006255 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 400668006256 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668006257 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668006258 Walker A/P-loop; other site 400668006259 ATP binding site [chemical binding]; other site 400668006260 Q-loop/lid; other site 400668006261 ABC transporter signature motif; other site 400668006262 Walker B; other site 400668006263 D-loop; other site 400668006264 H-loop/switch region; other site 400668006265 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668006266 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 400668006267 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006268 TM-ABC transporter signature motif; other site 400668006269 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 400668006270 xylose isomerase; Provisional; Region: PRK05474 400668006271 xylose isomerase; Region: xylose_isom_A; TIGR02630 400668006272 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 400668006273 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668006274 Coenzyme A binding pocket [chemical binding]; other site 400668006275 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668006276 DctM-like transporters; Region: DctM; pfam06808 400668006277 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668006278 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668006279 aconitate hydratase; Validated; Region: PRK09277 400668006280 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 400668006281 substrate binding site [chemical binding]; other site 400668006282 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 400668006283 ligand binding site [chemical binding]; other site 400668006284 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 400668006285 substrate binding site [chemical binding]; other site 400668006286 YrhK-like protein; Region: YrhK; pfam14145 400668006287 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 400668006288 DNA binding residues [nucleotide binding] 400668006289 dimerization interface [polypeptide binding]; other site 400668006290 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400668006291 metal binding site [ion binding]; metal-binding site 400668006292 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 400668006293 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400668006294 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 400668006295 hypothetical protein; Provisional; Region: PRK07236 400668006296 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668006297 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006298 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006299 metal binding site [ion binding]; metal-binding site 400668006300 active site 400668006301 I-site; other site 400668006302 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 400668006303 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400668006304 Walker A motif; other site 400668006305 ATP binding site [chemical binding]; other site 400668006306 Walker B motif; other site 400668006307 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668006308 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 400668006309 substrate binding pocket [chemical binding]; other site 400668006310 membrane-bound complex binding site; other site 400668006311 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668006312 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 400668006313 substrate binding pocket [chemical binding]; other site 400668006314 membrane-bound complex binding site; other site 400668006315 hinge residues; other site 400668006316 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006317 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006318 metal binding site [ion binding]; metal-binding site 400668006319 active site 400668006320 I-site; other site 400668006321 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 400668006322 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 400668006323 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 400668006324 Peptidase family M23; Region: Peptidase_M23; pfam01551 400668006325 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 400668006326 DEAD-like helicases superfamily; Region: DEXDc; smart00487 400668006327 ATP binding site [chemical binding]; other site 400668006328 Mg++ binding site [ion binding]; other site 400668006329 motif III; other site 400668006330 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 400668006331 nucleotide binding region [chemical binding]; other site 400668006332 ATP-binding site [chemical binding]; other site 400668006333 Bacteriophage T holin; Region: Phage_holin_T; pfam11031 400668006334 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 400668006335 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 400668006336 RNA binding surface [nucleotide binding]; other site 400668006337 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 400668006338 active site 400668006339 uracil binding [chemical binding]; other site 400668006340 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400668006341 extended (e) SDRs; Region: SDR_e; cd08946 400668006342 NAD(P) binding site [chemical binding]; other site 400668006343 active site 400668006344 substrate binding site [chemical binding]; other site 400668006345 glutamate dehydrogenase; Provisional; Region: PRK09414 400668006346 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 400668006347 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 400668006348 NAD(P) binding site [chemical binding]; other site 400668006349 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400668006350 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 400668006351 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 400668006352 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 400668006353 Walker A motif; other site 400668006354 ATP binding site [chemical binding]; other site 400668006355 Walker B motif; other site 400668006356 arginine finger; other site 400668006357 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668006358 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006359 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006360 metal binding site [ion binding]; metal-binding site 400668006361 active site 400668006362 I-site; other site 400668006363 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668006364 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400668006365 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 400668006366 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 400668006367 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 400668006368 Predicted flavoprotein [General function prediction only]; Region: COG0431 400668006369 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668006370 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 400668006371 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 400668006372 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 400668006373 Aspartase; Region: Aspartase; cd01357 400668006374 active sites [active] 400668006375 tetramer interface [polypeptide binding]; other site 400668006376 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668006377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006378 active site 400668006379 phosphorylation site [posttranslational modification] 400668006380 intermolecular recognition site; other site 400668006381 dimerization interface [polypeptide binding]; other site 400668006382 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 400668006383 Walker A motif; other site 400668006384 ATP binding site [chemical binding]; other site 400668006385 Walker B motif; other site 400668006386 arginine finger; other site 400668006387 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668006388 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668006389 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 400668006390 substrate binding pocket [chemical binding]; other site 400668006391 membrane-bound complex binding site; other site 400668006392 hinge residues; other site 400668006393 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 400668006394 ATP binding site [chemical binding]; other site 400668006395 Mg2+ binding site [ion binding]; other site 400668006396 G-X-G motif; other site 400668006397 DsrE/DsrF-like family; Region: DrsE; cl00672 400668006398 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 400668006399 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 400668006400 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 400668006401 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 400668006402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 400668006403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668006404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668006405 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 400668006406 putative dimerization interface [polypeptide binding]; other site 400668006407 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 400668006408 S-adenosylmethionine binding site [chemical binding]; other site 400668006409 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 400668006410 Sulfatase; Region: Sulfatase; pfam00884 400668006411 putative metal dependent hydrolase; Provisional; Region: PRK11598 400668006412 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 400668006413 Sulfatase; Region: Sulfatase; pfam00884 400668006414 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 400668006415 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 400668006416 S-adenosylmethionine binding site [chemical binding]; other site 400668006417 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 400668006418 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 400668006419 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 400668006420 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 400668006421 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 400668006422 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 400668006423 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 400668006424 active site 400668006425 purine riboside binding site [chemical binding]; other site 400668006426 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 400668006427 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 400668006428 putative ligand binding site [chemical binding]; other site 400668006429 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006430 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 400668006431 TM-ABC transporter signature motif; other site 400668006432 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006433 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 400668006434 TM-ABC transporter signature motif; other site 400668006435 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 400668006436 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668006437 Walker A/P-loop; other site 400668006438 ATP binding site [chemical binding]; other site 400668006439 Q-loop/lid; other site 400668006440 ABC transporter signature motif; other site 400668006441 Walker B; other site 400668006442 D-loop; other site 400668006443 H-loop/switch region; other site 400668006444 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668006445 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006446 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006447 metal binding site [ion binding]; metal-binding site 400668006448 active site 400668006449 I-site; other site 400668006450 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400668006451 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400668006452 active site 400668006453 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 400668006454 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 400668006455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 400668006456 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 400668006457 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 400668006458 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 400668006459 Flagellin N-methylase; Region: FliB; cl00497 400668006460 Response regulator receiver domain; Region: Response_reg; pfam00072 400668006461 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006462 active site 400668006463 phosphorylation site [posttranslational modification] 400668006464 intermolecular recognition site; other site 400668006465 dimerization interface [polypeptide binding]; other site 400668006466 Response regulator receiver domain; Region: Response_reg; pfam00072 400668006467 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006468 active site 400668006469 phosphorylation site [posttranslational modification] 400668006470 intermolecular recognition site; other site 400668006471 dimerization interface [polypeptide binding]; other site 400668006472 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006473 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006474 metal binding site [ion binding]; metal-binding site 400668006475 active site 400668006476 I-site; other site 400668006477 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 400668006478 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 400668006479 GatB domain; Region: GatB_Yqey; smart00845 400668006480 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 400668006481 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 400668006482 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 400668006483 rod shape-determining protein MreB; Provisional; Region: PRK13927 400668006484 MreB and similar proteins; Region: MreB_like; cd10225 400668006485 nucleotide binding site [chemical binding]; other site 400668006486 Mg binding site [ion binding]; other site 400668006487 putative protofilament interaction site [polypeptide binding]; other site 400668006488 RodZ interaction site [polypeptide binding]; other site 400668006489 rod shape-determining protein MreC; Provisional; Region: PRK13922 400668006490 rod shape-determining protein MreC; Region: MreC; pfam04085 400668006491 rod shape-determining protein MreD; Region: MreD; cl01087 400668006492 Maf-like protein; Region: Maf; pfam02545 400668006493 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 400668006494 active site 400668006495 dimer interface [polypeptide binding]; other site 400668006496 ribonuclease G; Provisional; Region: PRK11712 400668006497 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 400668006498 homodimer interface [polypeptide binding]; other site 400668006499 oligonucleotide binding site [chemical binding]; other site 400668006500 TIGR02099 family protein; Region: TIGR02099 400668006501 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 400668006502 nitrilase; Region: PLN02798 400668006503 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 400668006504 putative active site [active] 400668006505 catalytic triad [active] 400668006506 dimer interface [polypeptide binding]; other site 400668006507 Uncharacterized conserved protein [Function unknown]; Region: COG4925 400668006508 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400668006509 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 400668006510 putative substrate translocation pore; other site 400668006511 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 400668006512 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400668006513 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668006514 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006515 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668006516 Endonuclease I; Region: Endonuclease_1; pfam04231 400668006517 Short C-terminal domain; Region: SHOCT; pfam09851 400668006518 putative phosphoketolase; Provisional; Region: PRK05261 400668006519 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 400668006520 TPP-binding site; other site 400668006521 XFP C-terminal domain; Region: XFP_C; pfam09363 400668006522 Class I aldolases; Region: Aldolase_Class_I; cl17187 400668006523 catalytic residue [active] 400668006524 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 400668006525 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 400668006526 putative active site [active] 400668006527 transaldolase; Provisional; Region: PRK03903 400668006528 catalytic residue [active] 400668006529 alternate F1F0 ATPase, F1 subunit beta; Region: alt_F1F0_F1_bet; TIGR03305 400668006530 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400668006531 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 400668006532 alpha subunit interaction interface [polypeptide binding]; other site 400668006533 Walker A motif; other site 400668006534 ATP binding site [chemical binding]; other site 400668006535 Walker B motif; other site 400668006536 inhibitor binding site; inhibition site 400668006537 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400668006538 F0F1 ATP synthase subunit epsilon; Validated; Region: PRK06228 400668006539 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cl10033 400668006540 gamma subunit interface [polypeptide binding]; other site 400668006541 epsilon subunit interface [polypeptide binding]; other site 400668006542 LBP interface [polypeptide binding]; other site 400668006543 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 400668006544 N-ATPase, AtpR subunit; Region: AtpR; pfam12966 400668006545 ATP synthase A chain; Region: ATP-synt_A; cl00413 400668006546 alternate F1F0 ATPase, F0 subunit C; Region: alt_F1F0_F0_C; TIGR03322 400668006547 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 400668006548 alternate F1F0 ATPase, F0 subunit B; Region: alt_F1F0_F0_B; TIGR03321 400668006549 alternate F1F0 ATPase, F1 subunit alpha; Region: alt_F1F0_F1_al; TIGR03324 400668006550 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400668006551 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 400668006552 beta subunit interaction interface [polypeptide binding]; other site 400668006553 Walker A motif; other site 400668006554 ATP binding site [chemical binding]; other site 400668006555 Walker B motif; other site 400668006556 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400668006557 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 400668006558 core domain interface [polypeptide binding]; other site 400668006559 delta subunit interface [polypeptide binding]; other site 400668006560 epsilon subunit interface [polypeptide binding]; other site 400668006561 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 400668006562 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 400668006563 ligand binding site [chemical binding]; other site 400668006564 non-specific DNA interactions [nucleotide binding]; other site 400668006565 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 400668006566 DNA binding site [nucleotide binding] 400668006567 sequence specific DNA binding site [nucleotide binding]; other site 400668006568 putative cAMP binding site [chemical binding]; other site 400668006569 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 400668006570 HSP70 interaction site [polypeptide binding]; other site 400668006571 Uncharacterized conserved protein [Function unknown]; Region: COG0062 400668006572 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 400668006573 putative substrate binding site [chemical binding]; other site 400668006574 putative ATP binding site [chemical binding]; other site 400668006575 PRC-barrel domain; Region: PRC; pfam05239 400668006576 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 400668006577 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 400668006578 NAD binding site [chemical binding]; other site 400668006579 substrate binding site [chemical binding]; other site 400668006580 catalytic Zn binding site [ion binding]; other site 400668006581 tetramer interface [polypeptide binding]; other site 400668006582 structural Zn binding site [ion binding]; other site 400668006583 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 400668006584 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 400668006585 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 400668006586 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 400668006587 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 400668006588 ligand binding site [chemical binding]; other site 400668006589 homodimer interface [polypeptide binding]; other site 400668006590 NAD(P) binding site [chemical binding]; other site 400668006591 trimer interface B [polypeptide binding]; other site 400668006592 trimer interface A [polypeptide binding]; other site 400668006593 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400668006594 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 400668006595 NAD(P) binding site [chemical binding]; other site 400668006596 catalytic residues [active] 400668006597 Domain of unknown function (DUF4398); Region: DUF4398; pfam14346 400668006598 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400668006599 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668006600 ligand binding site [chemical binding]; other site 400668006601 Predicted membrane protein [Function unknown]; Region: COG1288 400668006602 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 400668006603 arginine deiminase; Provisional; Region: PRK01388 400668006604 ornithine carbamoyltransferase; Validated; Region: PRK02102 400668006605 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 400668006606 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 400668006607 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 400668006608 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 400668006609 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 400668006610 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 400668006611 Catalytic site [active] 400668006612 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 400668006613 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 400668006614 active site 400668006615 DNA binding site [nucleotide binding] 400668006616 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 400668006617 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 400668006618 non-specific DNA binding site [nucleotide binding]; other site 400668006619 sequence-specific DNA binding site [nucleotide binding]; other site 400668006620 salt bridge; other site 400668006621 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668006622 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668006623 DNA binding site [nucleotide binding] 400668006624 domain linker motif; other site 400668006625 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 400668006626 dimerization interface [polypeptide binding]; other site 400668006627 ligand binding site [chemical binding]; other site 400668006628 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668006629 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 400668006630 putative ligand binding site [chemical binding]; other site 400668006631 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668006632 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668006633 Walker A/P-loop; other site 400668006634 ATP binding site [chemical binding]; other site 400668006635 Q-loop/lid; other site 400668006636 ABC transporter signature motif; other site 400668006637 Walker B; other site 400668006638 D-loop; other site 400668006639 H-loop/switch region; other site 400668006640 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668006641 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668006642 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 400668006643 TM-ABC transporter signature motif; other site 400668006644 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 400668006645 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 400668006646 N- and C-terminal domain interface [polypeptide binding]; other site 400668006647 putative active site [active] 400668006648 MgATP binding site [chemical binding]; other site 400668006649 catalytic site [active] 400668006650 metal binding site [ion binding]; metal-binding site 400668006651 putative xylulose binding site [chemical binding]; other site 400668006652 putative homodimer interface [polypeptide binding]; other site 400668006653 D-xylulose kinases, subgroup 1; members of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_1; cd07809 400668006654 N- and C-terminal domain interface [polypeptide binding]; other site 400668006655 D-xylulose kinase; Region: XylB; TIGR01312 400668006656 active site 400668006657 MgATP binding site [chemical binding]; other site 400668006658 catalytic site [active] 400668006659 metal binding site [ion binding]; metal-binding site 400668006660 xylulose binding site [chemical binding]; other site 400668006661 putative homodimer interface [polypeptide binding]; other site 400668006662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668006663 short chain dehydrogenase; Provisional; Region: PRK07060 400668006664 NAD(P) binding site [chemical binding]; other site 400668006665 active site 400668006666 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 400668006667 classical (c) SDRs; Region: SDR_c; cd05233 400668006668 NAD(P) binding site [chemical binding]; other site 400668006669 active site 400668006670 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 400668006671 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 400668006672 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668006673 putative substrate translocation pore; other site 400668006674 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400668006675 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 400668006676 DNA binding residues [nucleotide binding] 400668006677 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 400668006678 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 400668006679 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 400668006680 oligomer interface [polypeptide binding]; other site 400668006681 metal binding site [ion binding]; metal-binding site 400668006682 metal binding site [ion binding]; metal-binding site 400668006683 Cl binding site [ion binding]; other site 400668006684 aspartate ring; other site 400668006685 basic sphincter; other site 400668006686 putative hydrophobic gate; other site 400668006687 periplasmic entrance; other site 400668006688 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 400668006689 Uncharacterized conserved protein [Function unknown]; Region: COG3791 400668006690 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 400668006691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668006692 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 400668006693 dimerization interface [polypeptide binding]; other site 400668006694 diaminopimelate decarboxylase; Provisional; Region: PRK11165 400668006695 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 400668006696 active site 400668006697 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668006698 substrate binding site [chemical binding]; other site 400668006699 catalytic residues [active] 400668006700 dimer interface [polypeptide binding]; other site 400668006701 Dienelactone hydrolase family; Region: DLH; pfam01738 400668006702 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 400668006703 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668006704 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668006705 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 400668006706 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 400668006707 LysR family transcriptional regulator; Provisional; Region: PRK14997 400668006708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668006709 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 400668006710 dimerization interface [polypeptide binding]; other site 400668006711 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 400668006712 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668006713 Walker A/P-loop; other site 400668006714 ATP binding site [chemical binding]; other site 400668006715 Q-loop/lid; other site 400668006716 ABC transporter signature motif; other site 400668006717 Walker B; other site 400668006718 D-loop; other site 400668006719 H-loop/switch region; other site 400668006720 TOBE domain; Region: TOBE_2; pfam08402 400668006721 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400668006722 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 400668006723 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668006724 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 400668006725 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 400668006726 dimer interface [polypeptide binding]; other site 400668006727 conserved gate region; other site 400668006728 putative PBP binding loops; other site 400668006729 ABC-ATPase subunit interface; other site 400668006730 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668006731 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 400668006732 dimer interface [polypeptide binding]; other site 400668006733 conserved gate region; other site 400668006734 putative PBP binding loops; other site 400668006735 ABC-ATPase subunit interface; other site 400668006736 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 400668006737 Melibiase; Region: Melibiase; pfam02065 400668006738 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 400668006739 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 400668006740 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 400668006741 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 400668006742 active site 400668006743 intersubunit interface [polypeptide binding]; other site 400668006744 catalytic residue [active] 400668006745 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 400668006746 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 400668006747 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 400668006748 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 400668006749 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 400668006750 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668006751 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668006752 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668006753 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_3; cd08490 400668006754 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668006755 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 400668006756 dimer interface [polypeptide binding]; other site 400668006757 conserved gate region; other site 400668006758 putative PBP binding loops; other site 400668006759 ABC-ATPase subunit interface; other site 400668006760 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 400668006761 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 400668006762 dimer interface [polypeptide binding]; other site 400668006763 conserved gate region; other site 400668006764 putative PBP binding loops; other site 400668006765 ABC-ATPase subunit interface; other site 400668006766 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 400668006767 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668006768 Walker A/P-loop; other site 400668006769 ATP binding site [chemical binding]; other site 400668006770 Q-loop/lid; other site 400668006771 ABC transporter signature motif; other site 400668006772 Walker B; other site 400668006773 D-loop; other site 400668006774 H-loop/switch region; other site 400668006775 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400668006776 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668006777 Walker A/P-loop; other site 400668006778 ATP binding site [chemical binding]; other site 400668006779 Q-loop/lid; other site 400668006780 ABC transporter signature motif; other site 400668006781 Walker B; other site 400668006782 D-loop; other site 400668006783 H-loop/switch region; other site 400668006784 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 400668006785 GAF domain; Region: GAF; pfam01590 400668006786 PAS domain S-box; Region: sensory_box; TIGR00229 400668006787 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 400668006788 putative active site [active] 400668006789 heme pocket [chemical binding]; other site 400668006790 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 400668006791 PAS fold; Region: PAS_3; pfam08447 400668006792 putative active site [active] 400668006793 heme pocket [chemical binding]; other site 400668006794 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668006795 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 400668006796 dimer interface [polypeptide binding]; other site 400668006797 phosphorylation site [posttranslational modification] 400668006798 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 400668006799 ATP binding site [chemical binding]; other site 400668006800 Mg2+ binding site [ion binding]; other site 400668006801 G-X-G motif; other site 400668006802 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668006803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006804 active site 400668006805 phosphorylation site [posttranslational modification] 400668006806 intermolecular recognition site; other site 400668006807 dimerization interface [polypeptide binding]; other site 400668006808 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668006809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006810 active site 400668006811 phosphorylation site [posttranslational modification] 400668006812 intermolecular recognition site; other site 400668006813 dimerization interface [polypeptide binding]; other site 400668006814 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 400668006815 putative binding surface; other site 400668006816 active site 400668006817 Response regulator receiver domain; Region: Response_reg; pfam00072 400668006818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668006819 active site 400668006820 phosphorylation site [posttranslational modification] 400668006821 intermolecular recognition site; other site 400668006822 dimerization interface [polypeptide binding]; other site 400668006823 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668006824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668006825 metal binding site [ion binding]; metal-binding site 400668006826 active site 400668006827 I-site; other site 400668006828 2-isopropylmalate synthase; Validated; Region: PRK03739 400668006829 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 400668006830 active site 400668006831 catalytic residues [active] 400668006832 metal binding site [ion binding]; metal-binding site 400668006833 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 400668006834 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668006835 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 400668006836 putative DNA binding site [nucleotide binding]; other site 400668006837 putative Zn2+ binding site [ion binding]; other site 400668006838 AsnC family; Region: AsnC_trans_reg; pfam01037 400668006839 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 400668006840 dimerization interface [polypeptide binding]; other site 400668006841 active site 400668006842 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 400668006843 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668006844 putative substrate translocation pore; other site 400668006845 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 400668006846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668006847 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668006848 helicase 45; Provisional; Region: PTZ00424 400668006849 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 400668006850 ATP binding site [chemical binding]; other site 400668006851 Mg++ binding site [ion binding]; other site 400668006852 motif III; other site 400668006853 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 400668006854 nucleotide binding region [chemical binding]; other site 400668006855 ATP-binding site [chemical binding]; other site 400668006856 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 400668006857 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 400668006858 S1 domain; Region: S1_2; pfam13509 400668006859 S1 domain; Region: S1_2; pfam13509 400668006860 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 400668006861 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 400668006862 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 400668006863 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 400668006864 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 400668006865 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 400668006866 DNA binding site [nucleotide binding] 400668006867 active site 400668006868 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 400668006869 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 400668006870 oligomerisation interface [polypeptide binding]; other site 400668006871 mobile loop; other site 400668006872 roof hairpin; other site 400668006873 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 400668006874 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 400668006875 ring oligomerisation interface [polypeptide binding]; other site 400668006876 ATP/Mg binding site [chemical binding]; other site 400668006877 stacking interactions; other site 400668006878 hinge regions; other site 400668006879 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 400668006880 FimV N-terminal domain; Region: FimV_core; TIGR03505 400668006881 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 400668006882 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 400668006883 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 400668006884 dimerization interface 3.5A [polypeptide binding]; other site 400668006885 active site 400668006886 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 400668006887 active site 400668006888 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 400668006889 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 400668006890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668006891 catalytic residue [active] 400668006892 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 400668006893 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 400668006894 substrate binding site [chemical binding]; other site 400668006895 active site 400668006896 catalytic residues [active] 400668006897 heterodimer interface [polypeptide binding]; other site 400668006898 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 400668006899 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 400668006900 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 400668006901 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400668006902 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400668006903 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 400668006904 Sporulation related domain; Region: SPOR; pfam05036 400668006905 Colicin V production protein; Region: Colicin_V; cl00567 400668006906 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 400668006907 amidophosphoribosyltransferase; Provisional; Region: PRK09246 400668006908 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 400668006909 active site 400668006910 tetramer interface [polypeptide binding]; other site 400668006911 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668006912 active site 400668006913 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 400668006914 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 400668006915 homodimer interface [polypeptide binding]; other site 400668006916 substrate-cofactor binding pocket; other site 400668006917 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668006918 catalytic residue [active] 400668006919 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400668006920 Protein export membrane protein; Region: SecD_SecF; cl14618 400668006921 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400668006922 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 400668006923 E3 interaction surface; other site 400668006924 lipoyl attachment site [posttranslational modification]; other site 400668006925 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668006926 ABC transporter ATPase component; Reviewed; Region: PRK11147 400668006927 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668006928 Walker A/P-loop; other site 400668006929 ATP binding site [chemical binding]; other site 400668006930 Q-loop/lid; other site 400668006931 ABC transporter signature motif; other site 400668006932 Walker B; other site 400668006933 D-loop; other site 400668006934 H-loop/switch region; other site 400668006935 ABC transporter; Region: ABC_tran_2; pfam12848 400668006936 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668006937 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 400668006938 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 400668006939 nucleotide binding site [chemical binding]; other site 400668006940 putative NEF/HSP70 interaction site [polypeptide binding]; other site 400668006941 SBD interface [polypeptide binding]; other site 400668006942 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 400668006943 putative chaperone; Provisional; Region: PRK11678 400668006944 nucleotide binding site [chemical binding]; other site 400668006945 putative NEF/HSP70 interaction site [polypeptide binding]; other site 400668006946 SBD interface [polypeptide binding]; other site 400668006947 DNA-K related protein; Region: DUF3731; pfam12531 400668006948 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668006949 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 400668006950 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668006951 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 400668006952 putative PBP binding loops; other site 400668006953 dimer interface [polypeptide binding]; other site 400668006954 ABC-ATPase subunit interface; other site 400668006955 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 400668006956 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 400668006957 dimer interface [polypeptide binding]; other site 400668006958 conserved gate region; other site 400668006959 ABC-ATPase subunit interface; other site 400668006960 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668006961 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 400668006962 Walker A/P-loop; other site 400668006963 ATP binding site [chemical binding]; other site 400668006964 Q-loop/lid; other site 400668006965 ABC transporter signature motif; other site 400668006966 Walker B; other site 400668006967 D-loop; other site 400668006968 H-loop/switch region; other site 400668006969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400668006970 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 400668006971 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668006972 Walker A/P-loop; other site 400668006973 ATP binding site [chemical binding]; other site 400668006974 Q-loop/lid; other site 400668006975 ABC transporter signature motif; other site 400668006976 Walker B; other site 400668006977 D-loop; other site 400668006978 H-loop/switch region; other site 400668006979 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668006980 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668006981 Walker A/P-loop; other site 400668006982 ATP binding site [chemical binding]; other site 400668006983 Q-loop/lid; other site 400668006984 ABC transporter signature motif; other site 400668006985 Walker B; other site 400668006986 D-loop; other site 400668006987 H-loop/switch region; other site 400668006988 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 400668006989 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 400668006990 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 400668006991 ABC-ATPase subunit interface; other site 400668006992 dimer interface [polypeptide binding]; other site 400668006993 putative PBP binding regions; other site 400668006994 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 400668006995 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 400668006996 ABC-ATPase subunit interface; other site 400668006997 dimer interface [polypeptide binding]; other site 400668006998 putative PBP binding regions; other site 400668006999 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668007000 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 400668007001 siderophore binding site; other site 400668007002 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...; Region: Lipase_3; cd00519 400668007003 active site flap/lid [active] 400668007004 nucleophilic elbow; other site 400668007005 catalytic triad [active] 400668007006 Putative ParB-like nuclease; Region: ParBc_2; cl17538 400668007007 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668007008 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668007009 Coenzyme A binding pocket [chemical binding]; other site 400668007010 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 400668007011 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 400668007012 putative NAD(P) binding site [chemical binding]; other site 400668007013 catalytic Zn binding site [ion binding]; other site 400668007014 MarC family integral membrane protein; Region: MarC; cl00919 400668007015 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 400668007016 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 400668007017 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 400668007018 putative active site [active] 400668007019 Zn binding site [ion binding]; other site 400668007020 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 400668007021 homodimer interface [polypeptide binding]; other site 400668007022 chemical substrate binding site [chemical binding]; other site 400668007023 oligomer interface [polypeptide binding]; other site 400668007024 metal binding site [ion binding]; metal-binding site 400668007025 elongation factor P; Provisional; Region: PRK04542 400668007026 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 400668007027 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 400668007028 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 400668007029 RNA binding site [nucleotide binding]; other site 400668007030 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 400668007031 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 400668007032 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 400668007033 HSP70 interaction site [polypeptide binding]; other site 400668007034 Bacterial SH3 domain; Region: SH3_3; cl17532 400668007035 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 400668007036 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 400668007037 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668007038 metal binding site [ion binding]; metal-binding site 400668007039 active site 400668007040 I-site; other site 400668007041 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 400668007042 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 400668007043 trimer interface [polypeptide binding]; other site 400668007044 dimer interface [polypeptide binding]; other site 400668007045 putative active site [active] 400668007046 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 400668007047 MoaE interaction surface [polypeptide binding]; other site 400668007048 MoeB interaction surface [polypeptide binding]; other site 400668007049 thiocarboxylated glycine; other site 400668007050 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 400668007051 MoaE homodimer interface [polypeptide binding]; other site 400668007052 MoaD interaction [polypeptide binding]; other site 400668007053 active site residues [active] 400668007054 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 400668007055 Int/Topo IB signature motif; other site 400668007056 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 400668007057 Peptidase family M48; Region: Peptidase_M48; cl12018 400668007058 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 400668007059 CPxP motif; other site 400668007060 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 400668007061 Domain of unknown function DUF20; Region: UPF0118; pfam01594 400668007062 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 400668007063 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 400668007064 active site 400668007065 catalytic site [active] 400668007066 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 400668007067 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 400668007068 putative substrate translocation pore; other site 400668007069 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668007070 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668007071 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 400668007072 dimerization interface [polypeptide binding]; other site 400668007073 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 400668007074 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 400668007075 substrate binding site [chemical binding]; other site 400668007076 ligand binding site [chemical binding]; other site 400668007077 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 400668007078 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 400668007079 substrate binding site [chemical binding]; other site 400668007080 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 400668007081 tartrate dehydrogenase; Region: TTC; TIGR02089 400668007082 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 400668007083 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 400668007084 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 400668007085 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 400668007086 30S subunit binding site; other site 400668007087 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 400668007088 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 400668007089 substrate binding site [chemical binding]; other site 400668007090 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 400668007091 substrate binding site [chemical binding]; other site 400668007092 ligand binding site [chemical binding]; other site 400668007093 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 400668007094 active site 400668007095 ATP binding site [chemical binding]; other site 400668007096 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 400668007097 substrate binding site [chemical binding]; other site 400668007098 activation loop (A-loop); other site 400668007099 Uncharacterized conserved protein [Function unknown]; Region: COG1262 400668007100 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 400668007101 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 400668007102 active site 400668007103 dinuclear metal binding site [ion binding]; other site 400668007104 dimerization interface [polypeptide binding]; other site 400668007105 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 400668007106 Na2 binding site [ion binding]; other site 400668007107 putative substrate binding site 1 [chemical binding]; other site 400668007108 Na binding site 1 [ion binding]; other site 400668007109 putative substrate binding site 2 [chemical binding]; other site 400668007110 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 400668007111 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 400668007112 putative active site [active] 400668007113 putative metal binding site [ion binding]; other site 400668007114 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 400668007115 substrate binding site [chemical binding]; other site 400668007116 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 400668007117 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 400668007118 FeS/SAM binding site; other site 400668007119 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 400668007120 Ligand Binding Site [chemical binding]; other site 400668007121 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668007122 MarR family; Region: MarR_2; pfam12802 400668007123 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668007124 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668007125 Coenzyme A binding pocket [chemical binding]; other site 400668007126 AzlC protein; Region: AzlC; cl00570 400668007127 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 400668007128 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 400668007129 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400668007130 active site 400668007131 HIGH motif; other site 400668007132 nucleotide binding site [chemical binding]; other site 400668007133 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 400668007134 KMSKS motif; other site 400668007135 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 400668007136 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 400668007137 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 400668007138 active site 400668007139 HIGH motif; other site 400668007140 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 400668007141 KMSKS motif; other site 400668007142 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 400668007143 tRNA binding surface [nucleotide binding]; other site 400668007144 anticodon binding site; other site 400668007145 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 400668007146 Ligand Binding Site [chemical binding]; other site 400668007147 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 400668007148 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 400668007149 active site 400668007150 interdomain interaction site; other site 400668007151 putative metal-binding site [ion binding]; other site 400668007152 nucleotide binding site [chemical binding]; other site 400668007153 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 400668007154 domain I; other site 400668007155 DNA binding groove [nucleotide binding] 400668007156 phosphate binding site [ion binding]; other site 400668007157 domain II; other site 400668007158 domain III; other site 400668007159 nucleotide binding site [chemical binding]; other site 400668007160 catalytic site [active] 400668007161 domain IV; other site 400668007162 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400668007163 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400668007164 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 400668007165 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 400668007166 LexA repressor; Validated; Region: PRK00215 400668007167 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 400668007168 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 400668007169 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 400668007170 Catalytic site [active] 400668007171 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 400668007172 DEAD/DEAH box helicase; Region: DEAD; pfam00270 400668007173 DEAD_2; Region: DEAD_2; pfam06733 400668007174 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 400668007175 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 400668007176 DEAD-like helicases superfamily; Region: DEXDc; smart00487 400668007177 ATP binding site [chemical binding]; other site 400668007178 Mg++ binding site [ion binding]; other site 400668007179 motif III; other site 400668007180 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 400668007181 nucleotide binding region [chemical binding]; other site 400668007182 ATP-binding site [chemical binding]; other site 400668007183 hypothetical protein; Validated; Region: PRK00029 400668007184 Uncharacterized conserved protein [Function unknown]; Region: COG0397 400668007185 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 400668007186 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 400668007187 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 400668007188 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 400668007189 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 400668007190 catalytic core [active] 400668007191 PGAP1-like protein; Region: PGAP1; pfam07819 400668007192 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668007193 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 400668007194 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 400668007195 active site 400668007196 nucleophile elbow; other site 400668007197 Maf-like protein; Region: Maf; pfam02545 400668007198 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 400668007199 active site 400668007200 dimer interface [polypeptide binding]; other site 400668007201 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 400668007202 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 400668007203 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 400668007204 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 400668007205 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 400668007206 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 400668007207 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 400668007208 NAD(P) binding site [chemical binding]; other site 400668007209 homotetramer interface [polypeptide binding]; other site 400668007210 homodimer interface [polypeptide binding]; other site 400668007211 active site 400668007212 acyl carrier protein; Provisional; Region: acpP; PRK00982 400668007213 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 400668007214 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 400668007215 dimer interface [polypeptide binding]; other site 400668007216 active site 400668007217 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 400668007218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668007219 Walker A/P-loop; other site 400668007220 ATP binding site [chemical binding]; other site 400668007221 Q-loop/lid; other site 400668007222 ABC transporter signature motif; other site 400668007223 Walker B; other site 400668007224 D-loop; other site 400668007225 H-loop/switch region; other site 400668007226 inner membrane transport permease; Provisional; Region: PRK15066 400668007227 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 400668007228 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 400668007229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 400668007230 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 400668007231 Membrane transport protein; Region: Mem_trans; cl09117 400668007232 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668007233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668007234 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 400668007235 putative effector binding pocket; other site 400668007236 dimerization interface [polypeptide binding]; other site 400668007237 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 400668007238 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400668007239 active site 400668007240 catalytic tetrad [active] 400668007241 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 400668007242 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400668007243 catalytic triad [active] 400668007244 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 400668007245 dihydrodipicolinate synthase; Region: dapA; TIGR00674 400668007246 dimer interface [polypeptide binding]; other site 400668007247 active site 400668007248 catalytic residue [active] 400668007249 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 400668007250 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 400668007251 ATP binding site [chemical binding]; other site 400668007252 active site 400668007253 substrate binding site [chemical binding]; other site 400668007254 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 400668007255 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 400668007256 FtsX-like permease family; Region: FtsX; pfam02687 400668007257 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 400668007258 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 400668007259 Walker A/P-loop; other site 400668007260 ATP binding site [chemical binding]; other site 400668007261 Q-loop/lid; other site 400668007262 ABC transporter signature motif; other site 400668007263 Walker B; other site 400668007264 D-loop; other site 400668007265 H-loop/switch region; other site 400668007266 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 400668007267 Competence protein; Region: Competence; pfam03772 400668007268 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 400668007269 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400668007270 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400668007271 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 400668007272 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 400668007273 Uncharacterized conserved protein [Function unknown]; Region: COG2835 400668007274 Low molecular weight phosphatase family; Region: LMWPc; cd00115 400668007275 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 400668007276 active site 400668007277 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 400668007278 FAD binding domain; Region: FAD_binding_4; pfam01565 400668007279 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 400668007280 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 400668007281 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 400668007282 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 400668007283 active site 400668007284 nucleophile elbow; other site 400668007285 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 400668007286 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 400668007287 dimer interface [polypeptide binding]; other site 400668007288 active site 400668007289 CoA binding pocket [chemical binding]; other site 400668007290 phosphoglucomutase; Validated; Region: PRK07564 400668007291 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 400668007292 active site 400668007293 substrate binding site [chemical binding]; other site 400668007294 metal binding site [ion binding]; metal-binding site 400668007295 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668007296 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 400668007297 FAD binding domain; Region: FAD_binding_4; pfam01565 400668007298 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 400668007299 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 400668007300 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 400668007301 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668007302 catalytic residue [active] 400668007303 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 400668007304 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 400668007305 Rhomboid family; Region: Rhomboid; pfam01694 400668007306 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 400668007307 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 400668007308 aminopeptidase N; Provisional; Region: pepN; PRK14015 400668007309 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 400668007310 active site 400668007311 Zn binding site [ion binding]; other site 400668007312 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 400668007313 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 400668007314 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 400668007315 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 400668007316 substrate binding pocket [chemical binding]; other site 400668007317 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 400668007318 B12 binding site [chemical binding]; other site 400668007319 cobalt ligand [ion binding]; other site 400668007320 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 400668007321 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 400668007322 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated; Region: PRK05986 400668007323 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 400668007324 homotrimer interaction site [polypeptide binding]; other site 400668007325 putative active site [active] 400668007326 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 400668007327 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 400668007328 ligand binding site [chemical binding]; other site 400668007329 flexible hinge region; other site 400668007330 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 400668007331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668007332 Walker A/P-loop; other site 400668007333 ATP binding site [chemical binding]; other site 400668007334 ABC transporter signature motif; other site 400668007335 Walker B; other site 400668007336 D-loop; other site 400668007337 H-loop/switch region; other site 400668007338 ABC transporter; Region: ABC_tran_2; pfam12848 400668007339 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668007340 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 400668007341 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 400668007342 MOSC domain; Region: MOSC; pfam03473 400668007343 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 400668007344 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 400668007345 dimer interface [polypeptide binding]; other site 400668007346 active site 400668007347 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668007348 catalytic residues [active] 400668007349 substrate binding site [chemical binding]; other site 400668007350 Predicted transporter component [General function prediction only]; Region: COG2391 400668007351 Sulphur transport; Region: Sulf_transp; pfam04143 400668007352 Predicted transporter component [General function prediction only]; Region: COG2391 400668007353 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 400668007354 Sulphur transport; Region: Sulf_transp; pfam04143 400668007355 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 400668007356 putative metal binding site [ion binding]; other site 400668007357 superoxide dismutase; Provisional; Region: PRK10543 400668007358 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 400668007359 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 400668007360 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 400668007361 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 400668007362 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 400668007363 Active Sites [active] 400668007364 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 400668007365 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 400668007366 CysD dimerization site [polypeptide binding]; other site 400668007367 G1 box; other site 400668007368 putative GEF interaction site [polypeptide binding]; other site 400668007369 GTP/Mg2+ binding site [chemical binding]; other site 400668007370 Switch I region; other site 400668007371 G2 box; other site 400668007372 G3 box; other site 400668007373 Switch II region; other site 400668007374 G4 box; other site 400668007375 G5 box; other site 400668007376 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 400668007377 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 400668007378 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 400668007379 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 400668007380 FAD binding pocket [chemical binding]; other site 400668007381 FAD binding motif [chemical binding]; other site 400668007382 phosphate binding motif [ion binding]; other site 400668007383 NAD binding pocket [chemical binding]; other site 400668007384 Transcriptional regulators [Transcription]; Region: MarR; COG1846 400668007385 MarR family; Region: MarR_2; pfam12802 400668007386 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400668007387 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 400668007388 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 400668007389 dimer interface [polypeptide binding]; other site 400668007390 anticodon binding site; other site 400668007391 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 400668007392 homodimer interface [polypeptide binding]; other site 400668007393 motif 1; other site 400668007394 active site 400668007395 motif 2; other site 400668007396 GAD domain; Region: GAD; pfam02938 400668007397 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 400668007398 active site 400668007399 motif 3; other site 400668007400 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 400668007401 active site 400668007402 putative DNA-binding cleft [nucleotide binding]; other site 400668007403 dimer interface [polypeptide binding]; other site 400668007404 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 400668007405 RuvA N terminal domain; Region: RuvA_N; pfam01330 400668007406 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 400668007407 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 400668007408 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 400668007409 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 400668007410 Walker A motif; other site 400668007411 ATP binding site [chemical binding]; other site 400668007412 Walker B motif; other site 400668007413 arginine finger; other site 400668007414 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 400668007415 TolQ protein; Region: tolQ; TIGR02796 400668007416 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400668007417 TolR protein; Region: tolR; TIGR02801 400668007418 TolA protein; Region: tolA_full; TIGR02794 400668007419 TonB C terminal; Region: TonB_2; pfam13103 400668007420 translocation protein TolB; Provisional; Region: tolB; PRK00178 400668007421 TolB amino-terminal domain; Region: TolB_N; pfam04052 400668007422 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400668007423 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400668007424 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 400668007425 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400668007426 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668007427 ligand binding site [chemical binding]; other site 400668007428 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 400668007429 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 400668007430 binding surface 400668007431 TPR motif; other site 400668007432 quinolinate synthetase; Provisional; Region: PRK09375 400668007433 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 400668007434 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 400668007435 putative FMN binding site [chemical binding]; other site 400668007436 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400668007437 metal binding site [ion binding]; metal-binding site 400668007438 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 400668007439 putative active site [active] 400668007440 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 400668007441 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 400668007442 active site 400668007443 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668007444 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668007445 active site 400668007446 I-site; other site 400668007447 metal binding site [ion binding]; metal-binding site 400668007448 translation initiation factor Sui1; Validated; Region: PRK06824 400668007449 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 400668007450 putative rRNA binding site [nucleotide binding]; other site 400668007451 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668007452 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668007453 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 400668007454 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400668007455 active site 400668007456 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 400668007457 glycerate dehydrogenase; Provisional; Region: PRK06932 400668007458 putative ligand binding site [chemical binding]; other site 400668007459 putative NAD binding site [chemical binding]; other site 400668007460 catalytic site [active] 400668007461 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 400668007462 active site 400668007463 catalytic triad [active] 400668007464 oxyanion hole [active] 400668007465 switch loop; other site 400668007466 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 400668007467 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 400668007468 Walker A/P-loop; other site 400668007469 ATP binding site [chemical binding]; other site 400668007470 Q-loop/lid; other site 400668007471 ABC transporter signature motif; other site 400668007472 Walker B; other site 400668007473 D-loop; other site 400668007474 H-loop/switch region; other site 400668007475 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 400668007476 FtsX-like permease family; Region: FtsX; pfam02687 400668007477 DNA polymerase II; Reviewed; Region: PRK05762 400668007478 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 400668007479 active site 400668007480 catalytic site [active] 400668007481 substrate binding site [chemical binding]; other site 400668007482 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 400668007483 active site 400668007484 metal-binding site 400668007485 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 400668007486 active site 400668007487 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 400668007488 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 400668007489 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668007490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668007491 active site 400668007492 phosphorylation site [posttranslational modification] 400668007493 intermolecular recognition site; other site 400668007494 dimerization interface [polypeptide binding]; other site 400668007495 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668007496 ferrochelatase; Reviewed; Region: hemH; PRK00035 400668007497 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 400668007498 C-terminal domain interface [polypeptide binding]; other site 400668007499 active site 400668007500 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 400668007501 active site 400668007502 N-terminal domain interface [polypeptide binding]; other site 400668007503 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 400668007504 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 400668007505 motif II; other site 400668007506 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 400668007507 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400668007508 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400668007509 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 400668007510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668007511 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 400668007512 NAD(P) binding site [chemical binding]; other site 400668007513 active site 400668007514 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 400668007515 putative active site [active] 400668007516 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 400668007517 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 400668007518 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 400668007519 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 400668007520 BolA-like protein; Region: BolA; cl00386 400668007521 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 400668007522 anti sigma factor interaction site; other site 400668007523 regulatory phosphorylation site [posttranslational modification]; other site 400668007524 Response regulator receiver domain; Region: Response_reg; pfam00072 400668007525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668007526 active site 400668007527 phosphorylation site [posttranslational modification] 400668007528 intermolecular recognition site; other site 400668007529 dimerization interface [polypeptide binding]; other site 400668007530 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 400668007531 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 400668007532 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 400668007533 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 400668007534 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 400668007535 ATP binding site [chemical binding]; other site 400668007536 ATP binding site [chemical binding]; other site 400668007537 putative Mg++ binding site [ion binding]; other site 400668007538 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 400668007539 nucleotide binding region [chemical binding]; other site 400668007540 ATP-binding site [chemical binding]; other site 400668007541 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 400668007542 HRDC domain; Region: HRDC; cl02578 400668007543 hypothetical protein; Provisional; Region: PRK04860 400668007544 SprT homologues; Region: SprT; cl01182 400668007545 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 400668007546 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 400668007547 Ligand Binding Site [chemical binding]; other site 400668007548 YfaZ precursor; Region: YfaZ; pfam07437 400668007549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668007550 active site 400668007551 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 400668007552 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 400668007553 ligand binding site [chemical binding]; other site 400668007554 flexible hinge region; other site 400668007555 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 400668007556 putative switch regulator; other site 400668007557 non-specific DNA interactions [nucleotide binding]; other site 400668007558 DNA binding site [nucleotide binding] 400668007559 sequence specific DNA binding site [nucleotide binding]; other site 400668007560 putative cAMP binding site [chemical binding]; other site 400668007561 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 400668007562 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 400668007563 FeS/SAM binding site; other site 400668007564 HemN C-terminal domain; Region: HemN_C; pfam06969 400668007565 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668007566 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 400668007567 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 400668007568 CPxP motif; other site 400668007569 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 400668007570 (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 400668007571 dimer interaction site [polypeptide binding]; other site 400668007572 substrate-binding tunnel; other site 400668007573 active site 400668007574 catalytic site [active] 400668007575 substrate binding site [chemical binding]; other site 400668007576 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 400668007577 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 400668007578 motif II; other site 400668007579 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 400668007580 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 400668007581 tandem repeat interface [polypeptide binding]; other site 400668007582 oligomer interface [polypeptide binding]; other site 400668007583 active site residues [active] 400668007584 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 400668007585 HemK family putative methylases; Region: hemK_fam; TIGR00536 400668007586 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 400668007587 S-adenosylmethionine binding site [chemical binding]; other site 400668007588 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 400668007589 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 400668007590 Tetramer interface [polypeptide binding]; other site 400668007591 active site 400668007592 FMN-binding site [chemical binding]; other site 400668007593 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 400668007594 dUMP phosphatase; Provisional; Region: PRK09449 400668007595 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 400668007596 motif II; other site 400668007597 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 400668007598 His-Xaa-Ser system protein, TIGR03982 family; Region: TIGR03982 400668007599 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 400668007600 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 400668007601 His-Xaa-Ser system radical SAM maturase HxsC; Region: rSAM_pair_HxsC; TIGR03977 400668007602 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 400668007603 FeS/SAM binding site; other site 400668007604 His-Xaa-Ser system radical SAM maturase HxsB; Region: rSAM_paired_1; TIGR03978 400668007605 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 400668007606 FeS/SAM binding site; other site 400668007607 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 400668007608 Cache domain; Region: Cache_1; pfam02743 400668007609 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668007610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668007611 metal binding site [ion binding]; metal-binding site 400668007612 active site 400668007613 I-site; other site 400668007614 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400668007615 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 400668007616 putative substrate translocation pore; other site 400668007617 copper exporting ATPase; Provisional; Region: copA; PRK10671 400668007618 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 400668007619 metal-binding site [ion binding] 400668007620 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 400668007621 metal-binding site [ion binding] 400668007622 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 400668007623 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 400668007624 motif II; other site 400668007625 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 400668007626 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 400668007627 DNA binding residues [nucleotide binding] 400668007628 dimer interface [polypeptide binding]; other site 400668007629 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 400668007630 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668007631 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 400668007632 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 400668007633 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668007634 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 400668007635 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 400668007636 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400668007637 active site 400668007638 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400668007639 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 400668007640 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668007641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668007642 AAA domain; Region: AAA_32; pfam13654 400668007643 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 400668007644 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 400668007645 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 400668007646 active site 400668007647 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 400668007648 DNA polymerase III subunit delta'; Validated; Region: PRK08485 400668007649 thymidylate kinase; Validated; Region: tmk; PRK00698 400668007650 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 400668007651 TMP-binding site; other site 400668007652 ATP-binding site [chemical binding]; other site 400668007653 YceG-like family; Region: YceG; pfam02618 400668007654 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 400668007655 dimerization interface [polypeptide binding]; other site 400668007656 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 400668007657 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 400668007658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668007659 catalytic residue [active] 400668007660 aminotransferase AlaT; Validated; Region: PRK09265 400668007661 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 400668007662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668007663 homodimer interface [polypeptide binding]; other site 400668007664 catalytic residue [active] 400668007665 heat shock protein HtpX; Provisional; Region: PRK05457 400668007666 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 400668007667 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 400668007668 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 400668007669 catalytic loop [active] 400668007670 iron binding site [ion binding]; other site 400668007671 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 400668007672 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 400668007673 [4Fe-4S] binding site [ion binding]; other site 400668007674 molybdopterin cofactor binding site; other site 400668007675 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 400668007676 molybdopterin cofactor binding site; other site 400668007677 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 400668007678 putative dimer interface [polypeptide binding]; other site 400668007679 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 400668007680 SLBB domain; Region: SLBB; pfam10531 400668007681 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 400668007682 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 400668007683 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 400668007684 putative dimer interface [polypeptide binding]; other site 400668007685 [2Fe-2S] cluster binding site [ion binding]; other site 400668007686 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 400668007687 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 400668007688 ligand binding site [chemical binding]; other site 400668007689 homodimer interface [polypeptide binding]; other site 400668007690 NAD(P) binding site [chemical binding]; other site 400668007691 trimer interface B [polypeptide binding]; other site 400668007692 trimer interface A [polypeptide binding]; other site 400668007693 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 400668007694 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 400668007695 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 400668007696 Flagellar protein YcgR; Region: YcgR_2; pfam12945 400668007697 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 400668007698 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 400668007699 ligand binding site [chemical binding]; other site 400668007700 NAD binding site [chemical binding]; other site 400668007701 catalytic site [active] 400668007702 homodimer interface [polypeptide binding]; other site 400668007703 Protein of unknown function, DUF462; Region: DUF462; pfam04315 400668007704 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 400668007705 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 400668007706 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 400668007707 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 400668007708 dimer interface [polypeptide binding]; other site 400668007709 active site 400668007710 glycine-pyridoxal phosphate binding site [chemical binding]; other site 400668007711 folate binding site [chemical binding]; other site 400668007712 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 400668007713 lipoyl attachment site [posttranslational modification]; other site 400668007714 glycine dehydrogenase; Provisional; Region: PRK05367 400668007715 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 400668007716 tetramer interface [polypeptide binding]; other site 400668007717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668007718 catalytic residue [active] 400668007719 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 400668007720 tetramer interface [polypeptide binding]; other site 400668007721 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668007722 catalytic residue [active] 400668007723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668007724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668007725 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 400668007726 putative effector binding pocket; other site 400668007727 dimerization interface [polypeptide binding]; other site 400668007728 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400668007729 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 400668007730 putative substrate translocation pore; other site 400668007731 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 400668007732 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668007733 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668007734 metal binding site [ion binding]; metal-binding site 400668007735 active site 400668007736 I-site; other site 400668007737 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400668007738 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400668007739 dimer interface [polypeptide binding]; other site 400668007740 NADP binding site [chemical binding]; other site 400668007741 catalytic residues [active] 400668007742 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668007743 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 400668007744 active site 400668007745 NAD binding site [chemical binding]; other site 400668007746 metal binding site [ion binding]; metal-binding site 400668007747 DctM-like transporters; Region: DctM; pfam06808 400668007748 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668007749 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668007750 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668007751 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668007752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668007753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668007754 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 400668007755 dimerization interface [polypeptide binding]; other site 400668007756 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 400668007757 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 400668007758 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 400668007759 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668007760 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668007761 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668007762 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668007763 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 400668007764 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 400668007765 dimerization interface [polypeptide binding]; other site 400668007766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668007767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668007768 dimer interface [polypeptide binding]; other site 400668007769 putative CheW interface [polypeptide binding]; other site 400668007770 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 400668007771 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 400668007772 transmembrane helices; other site 400668007773 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 400668007774 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 400668007775 RNA binding surface [nucleotide binding]; other site 400668007776 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400668007777 active site 400668007778 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 400668007779 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 400668007780 homodimer interface [polypeptide binding]; other site 400668007781 oligonucleotide binding site [chemical binding]; other site 400668007782 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 400668007783 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 400668007784 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400668007785 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 400668007786 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 400668007787 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 400668007788 E3 interaction surface; other site 400668007789 lipoyl attachment site [posttranslational modification]; other site 400668007790 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 400668007791 E3 interaction surface; other site 400668007792 lipoyl attachment site [posttranslational modification]; other site 400668007793 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 400668007794 E3 interaction surface; other site 400668007795 lipoyl attachment site [posttranslational modification]; other site 400668007796 e3 binding domain; Region: E3_binding; pfam02817 400668007797 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400668007798 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 400668007799 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 400668007800 dimer interface [polypeptide binding]; other site 400668007801 TPP-binding site [chemical binding]; other site 400668007802 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 400668007803 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 400668007804 dimerization interface [polypeptide binding]; other site 400668007805 active site 400668007806 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 400668007807 propionate/acetate kinase; Provisional; Region: PRK12379 400668007808 phosphate acetyltransferase; Reviewed; Region: PRK05632 400668007809 DRTGG domain; Region: DRTGG; pfam07085 400668007810 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 400668007811 Pilin (bacterial filament); Region: Pilin; pfam00114 400668007812 Type II/IV secretion system protein; Region: T2SE; pfam00437 400668007813 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 400668007814 Walker A motif; other site 400668007815 ATP binding site [chemical binding]; other site 400668007816 Walker B motif; other site 400668007817 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400668007818 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 400668007819 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 400668007820 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 400668007821 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 400668007822 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 400668007823 CoA-binding site [chemical binding]; other site 400668007824 ATP-binding [chemical binding]; other site 400668007825 Domain of unknown function (DUF329); Region: DUF329; pfam03884 400668007826 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 400668007827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668007828 active site 400668007829 phosphorylation site [posttranslational modification] 400668007830 intermolecular recognition site; other site 400668007831 dimerization interface [polypeptide binding]; other site 400668007832 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 400668007833 TPR motif; other site 400668007834 binding surface 400668007835 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400668007836 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668007837 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 400668007838 ATP binding site [chemical binding]; other site 400668007839 Mg2+ binding site [ion binding]; other site 400668007840 G-X-G motif; other site 400668007841 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400668007842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668007843 DNA-binding site [nucleotide binding]; DNA binding site 400668007844 FCD domain; Region: FCD; pfam07729 400668007845 benzoate transporter; Region: benE; TIGR00843 400668007846 Benzoate membrane transport protein; Region: BenE; pfam03594 400668007847 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 400668007848 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668007849 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668007850 Walker A/P-loop; other site 400668007851 ATP binding site [chemical binding]; other site 400668007852 Q-loop/lid; other site 400668007853 ABC transporter signature motif; other site 400668007854 Walker B; other site 400668007855 D-loop; other site 400668007856 H-loop/switch region; other site 400668007857 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668007858 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 400668007859 dimer interface [polypeptide binding]; other site 400668007860 conserved gate region; other site 400668007861 putative PBP binding loops; other site 400668007862 ABC-ATPase subunit interface; other site 400668007863 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668007864 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 400668007865 dimer interface [polypeptide binding]; other site 400668007866 conserved gate region; other site 400668007867 putative PBP binding loops; other site 400668007868 ABC-ATPase subunit interface; other site 400668007869 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 400668007870 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 400668007871 substrate binding pocket [chemical binding]; other site 400668007872 membrane-bound complex binding site; other site 400668007873 hinge residues; other site 400668007874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668007875 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 400668007876 dimer interface [polypeptide binding]; other site 400668007877 phosphorylation site [posttranslational modification] 400668007878 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 400668007879 ATP binding site [chemical binding]; other site 400668007880 Mg2+ binding site [ion binding]; other site 400668007881 G-X-G motif; other site 400668007882 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668007883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668007884 active site 400668007885 phosphorylation site [posttranslational modification] 400668007886 intermolecular recognition site; other site 400668007887 dimerization interface [polypeptide binding]; other site 400668007888 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 400668007889 DNA binding site [nucleotide binding] 400668007890 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 400668007891 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 400668007892 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 400668007893 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400668007894 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 400668007895 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400668007896 catalytic residues [active] 400668007897 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 400668007898 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 400668007899 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 400668007900 ApbE family; Region: ApbE; pfam02424 400668007901 putative fumarate hydratase; Provisional; Region: PRK15392 400668007902 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 400668007903 Fumarase C-terminus; Region: Fumerase_C; pfam05683 400668007904 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 400668007905 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 400668007906 prolyl-tRNA synthetase; Provisional; Region: PRK09194 400668007907 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 400668007908 dimer interface [polypeptide binding]; other site 400668007909 motif 1; other site 400668007910 active site 400668007911 motif 2; other site 400668007912 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 400668007913 putative deacylase active site [active] 400668007914 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 400668007915 active site 400668007916 motif 3; other site 400668007917 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 400668007918 anticodon binding site; other site 400668007919 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 400668007920 ArsC family; Region: ArsC; pfam03960 400668007921 catalytic residues [active] 400668007922 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400668007923 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668007924 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 400668007925 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668007926 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 400668007927 substrate binding site [chemical binding]; other site 400668007928 dimerization interface [polypeptide binding]; other site 400668007929 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668007930 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 400668007931 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 400668007932 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 400668007933 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 400668007934 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 400668007935 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 400668007936 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400668007937 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400668007938 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 400668007939 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 400668007940 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 400668007941 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 400668007942 elongation factor G; Reviewed; Region: PRK00007 400668007943 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 400668007944 G1 box; other site 400668007945 putative GEF interaction site [polypeptide binding]; other site 400668007946 GTP/Mg2+ binding site [chemical binding]; other site 400668007947 Switch I region; other site 400668007948 G2 box; other site 400668007949 G3 box; other site 400668007950 Switch II region; other site 400668007951 G4 box; other site 400668007952 G5 box; other site 400668007953 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 400668007954 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 400668007955 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 400668007956 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 400668007957 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400668007958 active site 400668007959 catalytic tetrad [active] 400668007960 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 400668007961 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 400668007962 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 400668007963 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 400668007964 Switch I; other site 400668007965 Switch II; other site 400668007966 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 400668007967 septum formation inhibitor; Reviewed; Region: minC; PRK00339 400668007968 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 400668007969 exonuclease SbcC; Region: sbcc; TIGR00618 400668007970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668007971 Walker A/P-loop; other site 400668007972 ATP binding site [chemical binding]; other site 400668007973 Q-loop/lid; other site 400668007974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668007975 ABC transporter signature motif; other site 400668007976 Walker B; other site 400668007977 D-loop; other site 400668007978 H-loop/switch region; other site 400668007979 exonuclease subunit SbcD; Provisional; Region: PRK10966 400668007980 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 400668007981 active site 400668007982 metal binding site [ion binding]; metal-binding site 400668007983 DNA binding site [nucleotide binding] 400668007984 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 400668007985 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 400668007986 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 400668007987 catalytic loop [active] 400668007988 iron binding site [ion binding]; other site 400668007989 short chain dehydrogenase; Provisional; Region: PRK06180 400668007990 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 400668007991 NADP binding site [chemical binding]; other site 400668007992 active site 400668007993 steroid binding site; other site 400668007994 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400668007995 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668007996 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 400668007997 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 400668007998 metal binding site [ion binding]; metal-binding site 400668007999 dimer interface [polypeptide binding]; other site 400668008000 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 400668008001 glutathione reductase; Validated; Region: PRK06116 400668008002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668008003 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400668008004 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 400668008005 putative catalytic site [active] 400668008006 putative phosphate binding site [ion binding]; other site 400668008007 active site 400668008008 metal binding site A [ion binding]; metal-binding site 400668008009 DNA binding site [nucleotide binding] 400668008010 putative AP binding site [nucleotide binding]; other site 400668008011 putative metal binding site B [ion binding]; other site 400668008012 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 400668008013 dimerization interface [polypeptide binding]; other site 400668008014 putative DNA binding site [nucleotide binding]; other site 400668008015 putative Zn2+ binding site [ion binding]; other site 400668008016 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668008017 DNA ligase; Provisional; Region: PRK09125 400668008018 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 400668008019 DNA binding site [nucleotide binding] 400668008020 active site 400668008021 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 400668008022 DNA binding site [nucleotide binding] 400668008023 heat shock protein 90; Provisional; Region: PRK05218 400668008024 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 400668008025 ATP binding site [chemical binding]; other site 400668008026 Mg2+ binding site [ion binding]; other site 400668008027 G-X-G motif; other site 400668008028 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 400668008029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 400668008030 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 400668008031 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 400668008032 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668008033 Protein of unknown function, DUF599; Region: DUF599; pfam04654 400668008034 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 400668008035 active site 400668008036 substrate binding pocket [chemical binding]; other site 400668008037 dimer interface [polypeptide binding]; other site 400668008038 Sulfatase; Region: Sulfatase; pfam00884 400668008039 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 400668008040 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 400668008041 ATP binding site [chemical binding]; other site 400668008042 Mg++ binding site [ion binding]; other site 400668008043 motif III; other site 400668008044 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 400668008045 nucleotide binding region [chemical binding]; other site 400668008046 ATP-binding site [chemical binding]; other site 400668008047 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 400668008048 putative RNA binding site [nucleotide binding]; other site 400668008049 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 400668008050 Domain of unknown function DUF20; Region: UPF0118; pfam01594 400668008051 exonuclease I; Provisional; Region: sbcB; PRK11779 400668008052 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 400668008053 active site 400668008054 catalytic site [active] 400668008055 substrate binding site [chemical binding]; other site 400668008056 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 400668008057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 400668008058 SEC-C motif; Region: SEC-C; pfam02810 400668008059 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 400668008060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008061 active site 400668008062 phosphorylation site [posttranslational modification] 400668008063 intermolecular recognition site; other site 400668008064 dimerization interface [polypeptide binding]; other site 400668008065 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668008066 Zn2+ binding site [ion binding]; other site 400668008067 Mg2+ binding site [ion binding]; other site 400668008068 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 400668008069 dimer interface [polypeptide binding]; other site 400668008070 phosphorylation site [posttranslational modification] 400668008071 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 400668008072 ATP binding site [chemical binding]; other site 400668008073 Mg2+ binding site [ion binding]; other site 400668008074 G-X-G motif; other site 400668008075 Response regulator receiver domain; Region: Response_reg; pfam00072 400668008076 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008077 active site 400668008078 phosphorylation site [posttranslational modification] 400668008079 intermolecular recognition site; other site 400668008080 dimerization interface [polypeptide binding]; other site 400668008081 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 400668008082 metal coordination site [ion binding]; other site 400668008083 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 400668008084 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400668008085 active site 400668008086 catalytic tetrad [active] 400668008087 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 400668008088 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 400668008089 hinge; other site 400668008090 active site 400668008091 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 400668008092 dimer interface [polypeptide binding]; other site 400668008093 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 400668008094 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 400668008095 FeS/SAM binding site; other site 400668008096 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 400668008097 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 400668008098 ThiS interaction site; other site 400668008099 putative active site [active] 400668008100 tetramer interface [polypeptide binding]; other site 400668008101 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 400668008102 thiS-thiF/thiG interaction site; other site 400668008103 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 400668008104 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 400668008105 dimer interface [polypeptide binding]; other site 400668008106 substrate binding site [chemical binding]; other site 400668008107 ATP binding site [chemical binding]; other site 400668008108 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 400668008109 thiamine phosphate binding site [chemical binding]; other site 400668008110 active site 400668008111 pyrophosphate binding site [ion binding]; other site 400668008112 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 400668008113 ThiC-associated domain; Region: ThiC-associated; pfam13667 400668008114 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 400668008115 Predicted methyltransferases [General function prediction only]; Region: COG0313 400668008116 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 400668008117 putative SAM binding site [chemical binding]; other site 400668008118 putative homodimer interface [polypeptide binding]; other site 400668008119 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 400668008120 putative ligand binding site [chemical binding]; other site 400668008121 hypothetical protein; Reviewed; Region: PRK12497 400668008122 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 400668008123 dimer interface [polypeptide binding]; other site 400668008124 active site 400668008125 Stringent starvation protein B; Region: SspB; cl01120 400668008126 stringent starvation protein A; Provisional; Region: sspA; PRK09481 400668008127 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 400668008128 C-terminal domain interface [polypeptide binding]; other site 400668008129 putative GSH binding site (G-site) [chemical binding]; other site 400668008130 dimer interface [polypeptide binding]; other site 400668008131 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 400668008132 dimer interface [polypeptide binding]; other site 400668008133 N-terminal domain interface [polypeptide binding]; other site 400668008134 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 400668008135 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 400668008136 23S rRNA interface [nucleotide binding]; other site 400668008137 L3 interface [polypeptide binding]; other site 400668008138 Predicted ATPase [General function prediction only]; Region: COG1485 400668008139 Uncharacterized conserved protein [Function unknown]; Region: COG0327 400668008140 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 400668008141 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 400668008142 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 400668008143 protein binding site [polypeptide binding]; other site 400668008144 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 400668008145 hydrophobic ligand binding site; other site 400668008146 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 400668008147 histidinol dehydrogenase; Region: hisD; TIGR00069 400668008148 NAD binding site [chemical binding]; other site 400668008149 dimerization interface [polypeptide binding]; other site 400668008150 product binding site; other site 400668008151 substrate binding site [chemical binding]; other site 400668008152 zinc binding site [ion binding]; other site 400668008153 catalytic residues [active] 400668008154 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 400668008155 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 400668008156 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 400668008157 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 400668008158 hinge; other site 400668008159 active site 400668008160 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 400668008161 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 400668008162 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 400668008163 mce related protein; Region: MCE; pfam02470 400668008164 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 400668008165 Permease; Region: Permease; cl00510 400668008166 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 400668008167 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 400668008168 Walker A/P-loop; other site 400668008169 ATP binding site [chemical binding]; other site 400668008170 Q-loop/lid; other site 400668008171 ABC transporter signature motif; other site 400668008172 Walker B; other site 400668008173 D-loop; other site 400668008174 H-loop/switch region; other site 400668008175 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 400668008176 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 400668008177 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 400668008178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 400668008179 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 400668008180 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 400668008181 OstA-like protein; Region: OstA; pfam03968 400668008182 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 400668008183 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 400668008184 Walker A/P-loop; other site 400668008185 ATP binding site [chemical binding]; other site 400668008186 Q-loop/lid; other site 400668008187 ABC transporter signature motif; other site 400668008188 Walker B; other site 400668008189 D-loop; other site 400668008190 H-loop/switch region; other site 400668008191 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 400668008192 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 400668008193 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 400668008194 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 400668008195 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 400668008196 active site 400668008197 phosphorylation site [posttranslational modification] 400668008198 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 400668008199 dimerization domain swap beta strand [polypeptide binding]; other site 400668008200 regulatory protein interface [polypeptide binding]; other site 400668008201 active site 400668008202 regulatory phosphorylation site [posttranslational modification]; other site 400668008203 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 400668008204 MgtE intracellular N domain; Region: MgtE_N; smart00924 400668008205 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 400668008206 Divalent cation transporter; Region: MgtE; cl00786 400668008207 Protein of unknown function (DUF615); Region: DUF615; pfam04751 400668008208 methionine sulfoxide reductase B; Provisional; Region: PRK05508 400668008209 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 400668008210 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 400668008211 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668008212 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668008213 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 400668008214 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 400668008215 putative active site [active] 400668008216 putative NTP binding site [chemical binding]; other site 400668008217 putative nucleic acid binding site [nucleotide binding]; other site 400668008218 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 400668008219 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 400668008220 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668008221 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668008222 dimer interface [polypeptide binding]; other site 400668008223 putative CheW interface [polypeptide binding]; other site 400668008224 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 400668008225 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 400668008226 putative active site [active] 400668008227 putative dimer interface [polypeptide binding]; other site 400668008228 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400668008229 classical (c) SDRs; Region: SDR_c; cd05233 400668008230 NAD(P) binding site [chemical binding]; other site 400668008231 active site 400668008232 oxidase reductase; Provisional; Region: PTZ00273 400668008233 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 400668008234 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 400668008235 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 400668008236 Part of AAA domain; Region: AAA_19; pfam13245 400668008237 Family description; Region: UvrD_C_2; pfam13538 400668008238 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 400668008239 active site 400668008240 Zn binding site [ion binding]; other site 400668008241 hypothetical protein; Provisional; Region: PRK11622 400668008242 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 400668008243 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 400668008244 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 400668008245 dimer interface [polypeptide binding]; other site 400668008246 putative PBP binding loops; other site 400668008247 ABC-ATPase subunit interface; other site 400668008248 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 400668008249 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 400668008250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008251 Walker A/P-loop; other site 400668008252 ATP binding site [chemical binding]; other site 400668008253 Q-loop/lid; other site 400668008254 ABC transporter signature motif; other site 400668008255 Walker B; other site 400668008256 D-loop; other site 400668008257 H-loop/switch region; other site 400668008258 AAA ATPase domain; Region: AAA_16; pfam13191 400668008259 AAA ATPase domain; Region: AAA_16; pfam13191 400668008260 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400668008261 TPR repeat; Region: TPR_11; pfam13414 400668008262 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 400668008263 TPR motif; other site 400668008264 binding surface 400668008265 TPR repeat; Region: TPR_11; pfam13414 400668008266 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 400668008267 binding surface 400668008268 TPR motif; other site 400668008269 Cupin domain; Region: Cupin_2; cl17218 400668008270 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668008271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668008272 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668008273 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 400668008274 active site 400668008275 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 400668008276 DctM-like transporters; Region: DctM; pfam06808 400668008277 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668008278 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668008279 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668008280 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668008281 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668008282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668008283 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 400668008284 dimerization interface [polypeptide binding]; other site 400668008285 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 400668008286 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 400668008287 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 400668008288 metal binding site [ion binding]; metal-binding site 400668008289 dimer interface [polypeptide binding]; other site 400668008290 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 400668008291 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 400668008292 inhibitor-cofactor binding pocket; inhibition site 400668008293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668008294 catalytic residue [active] 400668008295 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 400668008296 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 400668008297 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 400668008298 active site 400668008299 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668008300 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 400668008301 NAD(P) binding site [chemical binding]; other site 400668008302 catalytic residues [active] 400668008303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008304 Predicted ATPase [General function prediction only]; Region: COG3910 400668008305 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008306 Walker A/P-loop; other site 400668008307 Walker A/P-loop; other site 400668008308 ATP binding site [chemical binding]; other site 400668008309 ATP binding site [chemical binding]; other site 400668008310 Q-loop/lid; other site 400668008311 ABC transporter signature motif; other site 400668008312 Walker B; other site 400668008313 D-loop; other site 400668008314 H-loop/switch region; other site 400668008315 FOG: CBS domain [General function prediction only]; Region: COG0517 400668008316 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_27; cd04640 400668008317 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 400668008318 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 400668008319 catalytic residues [active] 400668008320 dimer interface [polypeptide binding]; other site 400668008321 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668008322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668008323 Uncharacterized conserved protein [Function unknown]; Region: COG2128 400668008324 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 400668008325 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 400668008326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 400668008327 Nucleoside recognition; Region: Gate; pfam07670 400668008328 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 400668008329 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668008330 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 400668008331 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 400668008332 YaeQ protein; Region: YaeQ; pfam07152 400668008333 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 400668008334 Catalytic site [active] 400668008335 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 400668008336 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 400668008337 non-specific DNA binding site [nucleotide binding]; other site 400668008338 salt bridge; other site 400668008339 sequence-specific DNA binding site [nucleotide binding]; other site 400668008340 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 400668008341 Catalytic site [active] 400668008342 carbon storage regulator; Provisional; Region: PRK01712 400668008343 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 400668008344 NADH(P)-binding; Region: NAD_binding_10; pfam13460 400668008345 NAD(P) binding site [chemical binding]; other site 400668008346 putative active site [active] 400668008347 succinic semialdehyde dehydrogenase; Region: PLN02278 400668008348 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668008349 tetramerization interface [polypeptide binding]; other site 400668008350 NAD(P) binding site [chemical binding]; other site 400668008351 catalytic residues [active] 400668008352 BCCT family transporter; Region: BCCT; pfam02028 400668008353 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668008354 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 400668008355 NAD(P) binding site [chemical binding]; other site 400668008356 catalytic residues [active] 400668008357 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 400668008358 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 400668008359 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 400668008360 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 400668008361 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400668008362 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 400668008363 Amino acid synthesis; Region: AA_synth; pfam06684 400668008364 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400668008365 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668008366 DNA-binding site [nucleotide binding]; DNA binding site 400668008367 FCD domain; Region: FCD; pfam07729 400668008368 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 400668008369 Uncharacterized conserved protein [Function unknown]; Region: COG5470 400668008370 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 400668008371 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668008372 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 400668008373 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 400668008374 dimer interface [polypeptide binding]; other site 400668008375 conserved gate region; other site 400668008376 putative PBP binding loops; other site 400668008377 ABC-ATPase subunit interface; other site 400668008378 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668008379 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 400668008380 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 400668008381 dimer interface [polypeptide binding]; other site 400668008382 conserved gate region; other site 400668008383 putative PBP binding loops; other site 400668008384 ABC-ATPase subunit interface; other site 400668008385 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668008386 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008387 Walker A/P-loop; other site 400668008388 ATP binding site [chemical binding]; other site 400668008389 Q-loop/lid; other site 400668008390 ABC transporter signature motif; other site 400668008391 Walker B; other site 400668008392 D-loop; other site 400668008393 H-loop/switch region; other site 400668008394 TOBE domain; Region: TOBE_2; pfam08402 400668008395 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 400668008396 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 400668008397 sequence-specific DNA binding site [nucleotide binding]; other site 400668008398 salt bridge; other site 400668008399 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 400668008400 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 400668008401 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 400668008402 Cupin; Region: Cupin_6; pfam12852 400668008403 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668008404 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668008405 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668008406 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 400668008407 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 400668008408 NADP binding site [chemical binding]; other site 400668008409 dimer interface [polypeptide binding]; other site 400668008410 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 400668008411 Phage Tail Protein X; Region: Phage_tail_X; cl02088 400668008412 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 400668008413 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668008414 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 400668008415 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 400668008416 AAA domain; Region: AAA_21; pfam13304 400668008417 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 400668008418 Phage Tail Protein X; Region: Phage_tail_X; cl02088 400668008419 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 400668008420 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 400668008421 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; pfam13957 400668008422 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 400668008423 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 400668008424 FMN binding site [chemical binding]; other site 400668008425 active site 400668008426 catalytic residues [active] 400668008427 substrate binding site [chemical binding]; other site 400668008428 transaldolase-like protein; Provisional; Region: PTZ00411 400668008429 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 400668008430 active site 400668008431 dimer interface [polypeptide binding]; other site 400668008432 catalytic residue [active] 400668008433 maltose O-acetyltransferase; Provisional; Region: PRK10092 400668008434 Maltose acetyltransferase; Region: Mac; pfam12464 400668008435 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 400668008436 trimer interface [polypeptide binding]; other site 400668008437 active site 400668008438 substrate binding site [chemical binding]; other site 400668008439 CoA binding site [chemical binding]; other site 400668008440 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 400668008441 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 400668008442 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668008443 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668008444 metal binding site [ion binding]; metal-binding site 400668008445 active site 400668008446 I-site; other site 400668008447 VacJ like lipoprotein; Region: VacJ; cl01073 400668008448 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 400668008449 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 400668008450 ATP binding site [chemical binding]; other site 400668008451 putative Mg++ binding site [ion binding]; other site 400668008452 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 400668008453 nucleotide binding region [chemical binding]; other site 400668008454 ATP-binding site [chemical binding]; other site 400668008455 Helicase associated domain (HA2); Region: HA2; pfam04408 400668008456 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 400668008457 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 400668008458 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 400668008459 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 400668008460 dimer interface [polypeptide binding]; other site 400668008461 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668008462 catalytic residue [active] 400668008463 Methyltransferase domain; Region: Methyltransf_23; pfam13489 400668008464 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 400668008465 S-adenosylmethionine binding site [chemical binding]; other site 400668008466 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 400668008467 active site 400668008468 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 400668008469 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 400668008470 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668008471 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 400668008472 DNA binding residues [nucleotide binding] 400668008473 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 400668008474 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 400668008475 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 400668008476 putative active site [active] 400668008477 putative dimer interface [polypeptide binding]; other site 400668008478 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 400668008479 metal ion-dependent adhesion site (MIDAS); other site 400668008480 TIGR03503 family protein; Region: TIGR03503 400668008481 hypothetical protein; Provisional; Region: PRK05170 400668008482 YcgL domain; Region: YcgL; pfam05166 400668008483 ribonuclease D; Region: rnd; TIGR01388 400668008484 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 400668008485 catalytic site [active] 400668008486 putative active site [active] 400668008487 putative substrate binding site [chemical binding]; other site 400668008488 HRDC domain; Region: HRDC; pfam00570 400668008489 recombination protein RecR; Reviewed; Region: recR; PRK00076 400668008490 RecR protein; Region: RecR; pfam02132 400668008491 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 400668008492 putative active site [active] 400668008493 putative metal-binding site [ion binding]; other site 400668008494 tetramer interface [polypeptide binding]; other site 400668008495 hypothetical protein; Validated; Region: PRK00153 400668008496 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 400668008497 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 400668008498 Walker A motif; other site 400668008499 ATP binding site [chemical binding]; other site 400668008500 Walker B motif; other site 400668008501 arginine finger; other site 400668008502 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 400668008503 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 400668008504 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 400668008505 active site residue [active] 400668008506 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 400668008507 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 400668008508 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 400668008509 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 400668008510 ATP binding site [chemical binding]; other site 400668008511 putative Mg++ binding site [ion binding]; other site 400668008512 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 400668008513 nucleotide binding region [chemical binding]; other site 400668008514 ATP-binding site [chemical binding]; other site 400668008515 Double zinc ribbon; Region: DZR; pfam12773 400668008516 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668008517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668008518 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 400668008519 DTW domain; Region: DTW; cl01221 400668008520 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 400668008521 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 400668008522 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 400668008523 motif II; other site 400668008524 Nucleoid-associated protein [General function prediction only]; Region: COG3081 400668008525 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 400668008526 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668008527 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 400668008528 dimer interface [polypeptide binding]; other site 400668008529 active site 400668008530 metal binding site [ion binding]; metal-binding site 400668008531 glutathione binding site [chemical binding]; other site 400668008532 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 400668008533 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668008534 ligand binding site [chemical binding]; other site 400668008535 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400668008536 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 400668008537 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 400668008538 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 400668008539 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668008540 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 400668008541 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400668008542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 400668008543 putative aldolase; Validated; Region: PRK08130 400668008544 intersubunit interface [polypeptide binding]; other site 400668008545 active site 400668008546 Zn2+ binding site [ion binding]; other site 400668008547 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 400668008548 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400668008549 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 400668008550 putative NAD(P) binding site [chemical binding]; other site 400668008551 active site 400668008552 putative substrate binding site [chemical binding]; other site 400668008553 GntP family permease; Region: GntP_permease; pfam02447 400668008554 fructuronate transporter; Provisional; Region: PRK10034; cl15264 400668008555 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 400668008556 flavoprotein, HI0933 family; Region: TIGR00275 400668008557 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668008558 Imelysin; Region: Peptidase_M75; cl09159 400668008559 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 400668008560 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 400668008561 Imelysin; Region: Peptidase_M75; pfam09375 400668008562 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 400668008563 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668008564 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668008565 metal binding site [ion binding]; metal-binding site 400668008566 active site 400668008567 I-site; other site 400668008568 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 400668008569 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 400668008570 HTH-like domain; Region: HTH_21; pfam13276 400668008571 Integrase core domain; Region: rve; pfam00665 400668008572 DDE domain; Region: DDE_Tnp_IS240; pfam13610 400668008573 Integrase core domain; Region: rve_3; pfam13683 400668008574 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 400668008575 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 400668008576 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 400668008577 Transposase; Region: HTH_Tnp_1; cl17663 400668008578 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008579 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400668008580 acyl-activating enzyme (AAE) consensus motif; other site 400668008581 AMP binding site [chemical binding]; other site 400668008582 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008583 Condensation domain; Region: Condensation; pfam00668 400668008584 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008585 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008586 Condensation domain; Region: Condensation; pfam00668 400668008587 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008588 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008589 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008590 acyl-activating enzyme (AAE) consensus motif; other site 400668008591 AMP binding site [chemical binding]; other site 400668008592 Methyltransferase domain; Region: Methyltransf_31; pfam13847 400668008593 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 400668008594 S-adenosylmethionine binding site [chemical binding]; other site 400668008595 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668008596 CoA binding site [chemical binding]; other site 400668008597 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008598 Condensation domain; Region: Condensation; pfam00668 400668008599 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008600 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 400668008601 Condensation domain; Region: Condensation; pfam00668 400668008602 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008603 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008604 acyl-activating enzyme (AAE) consensus motif; other site 400668008605 AMP binding site [chemical binding]; other site 400668008606 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008607 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 400668008608 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400668008609 acyl-activating enzyme (AAE) consensus motif; other site 400668008610 AMP binding site [chemical binding]; other site 400668008611 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008612 Condensation domain; Region: Condensation; pfam00668 400668008613 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008614 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008615 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008616 acyl-activating enzyme (AAE) consensus motif; other site 400668008617 AMP binding site [chemical binding]; other site 400668008618 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008619 Condensation domain; Region: Condensation; pfam00668 400668008620 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008621 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 400668008622 acyl-activating enzyme (AAE) consensus motif; other site 400668008623 AMP binding site [chemical binding]; other site 400668008624 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008625 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 400668008626 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668008627 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 400668008628 Walker A/P-loop; other site 400668008629 ATP binding site [chemical binding]; other site 400668008630 Q-loop/lid; other site 400668008631 ABC transporter signature motif; other site 400668008632 Walker B; other site 400668008633 D-loop; other site 400668008634 H-loop/switch region; other site 400668008635 Predicted ATPase [General function prediction only]; Region: COG3910 400668008636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008637 Walker A/P-loop; other site 400668008638 ATP binding site [chemical binding]; other site 400668008639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668008640 ABC transporter signature motif; other site 400668008641 Walker B; other site 400668008642 D-loop; other site 400668008643 H-loop/switch region; other site 400668008644 Condensation domain; Region: Condensation; pfam00668 400668008645 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008646 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008647 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008648 acyl-activating enzyme (AAE) consensus motif; other site 400668008649 AMP binding site [chemical binding]; other site 400668008650 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008651 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 400668008652 Condensation domain; Region: Condensation; pfam00668 400668008653 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008654 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008655 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008656 acyl-activating enzyme (AAE) consensus motif; other site 400668008657 AMP binding site [chemical binding]; other site 400668008658 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008659 Condensation domain; Region: Condensation; pfam00668 400668008660 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008661 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 400668008662 Condensation domain; Region: Condensation; pfam00668 400668008663 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 400668008664 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008665 acyl-activating enzyme (AAE) consensus motif; other site 400668008666 AMP binding site [chemical binding]; other site 400668008667 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008668 peptide synthase; Provisional; Region: PRK12467 400668008669 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008670 acyl-activating enzyme (AAE) consensus motif; other site 400668008671 AMP binding site [chemical binding]; other site 400668008672 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008673 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 400668008674 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008675 acyl-activating enzyme (AAE) consensus motif; other site 400668008676 AMP binding site [chemical binding]; other site 400668008677 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008678 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 400668008679 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 400668008680 acyl-activating enzyme (AAE) consensus motif; other site 400668008681 AMP binding site [chemical binding]; other site 400668008682 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 400668008683 HTH-like domain; Region: HTH_21; pfam13276 400668008684 Integrase core domain; Region: rve; pfam00665 400668008685 DDE domain; Region: DDE_Tnp_IS240; pfam13610 400668008686 Integrase core domain; Region: rve_3; pfam13683 400668008687 DDE superfamily endonuclease; Region: DDE_3; pfam13358 400668008688 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400668008689 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 400668008690 Transposase [DNA replication, recombination, and repair]; Region: COG5433 400668008691 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 400668008692 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 400668008693 Integrase core domain; Region: rve_3; pfam13683 400668008694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668008695 Integrase core domain; Region: rve; pfam00665 400668008696 Integrase core domain; Region: rve_3; pfam13683 400668008697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668008698 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 400668008699 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 400668008700 IHF dimer interface [polypeptide binding]; other site 400668008701 IHF - DNA interface [nucleotide binding]; other site 400668008702 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 400668008703 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 400668008704 putative tRNA-binding site [nucleotide binding]; other site 400668008705 B3/4 domain; Region: B3_4; pfam03483 400668008706 tRNA synthetase B5 domain; Region: B5; smart00874 400668008707 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 400668008708 dimer interface [polypeptide binding]; other site 400668008709 motif 1; other site 400668008710 motif 3; other site 400668008711 motif 2; other site 400668008712 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 400668008713 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 400668008714 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 400668008715 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 400668008716 dimer interface [polypeptide binding]; other site 400668008717 motif 1; other site 400668008718 active site 400668008719 motif 2; other site 400668008720 motif 3; other site 400668008721 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 400668008722 23S rRNA binding site [nucleotide binding]; other site 400668008723 L21 binding site [polypeptide binding]; other site 400668008724 L13 binding site [polypeptide binding]; other site 400668008725 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 400668008726 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 400668008727 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 400668008728 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 400668008729 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 400668008730 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 400668008731 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 400668008732 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 400668008733 active site 400668008734 dimer interface [polypeptide binding]; other site 400668008735 motif 1; other site 400668008736 motif 2; other site 400668008737 motif 3; other site 400668008738 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 400668008739 anticodon binding site; other site 400668008740 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 400668008741 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 400668008742 S-adenosylmethionine binding site [chemical binding]; other site 400668008743 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 400668008744 GIY-YIG motif/motif A; other site 400668008745 putative active site [active] 400668008746 putative metal binding site [ion binding]; other site 400668008747 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 400668008748 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 400668008749 non-specific DNA binding site [nucleotide binding]; other site 400668008750 salt bridge; other site 400668008751 sequence-specific DNA binding site [nucleotide binding]; other site 400668008752 Cupin domain; Region: Cupin_2; pfam07883 400668008753 Putative phosphatase (DUF442); Region: DUF442; cl17385 400668008754 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 400668008755 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 400668008756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008757 Response regulator receiver domain; Region: Response_reg; pfam00072 400668008758 active site 400668008759 phosphorylation site [posttranslational modification] 400668008760 intermolecular recognition site; other site 400668008761 dimerization interface [polypeptide binding]; other site 400668008762 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 400668008763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008764 active site 400668008765 phosphorylation site [posttranslational modification] 400668008766 intermolecular recognition site; other site 400668008767 dimerization interface [polypeptide binding]; other site 400668008768 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 400668008769 active site 400668008770 8-oxo-dGMP binding site [chemical binding]; other site 400668008771 nudix motif; other site 400668008772 metal binding site [ion binding]; metal-binding site 400668008773 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 400668008774 heterotetramer interface [polypeptide binding]; other site 400668008775 active site pocket [active] 400668008776 cleavage site 400668008777 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 400668008778 DEAD/DEAH box helicase; Region: DEAD; pfam00270 400668008779 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 400668008780 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 400668008781 nucleotide binding region [chemical binding]; other site 400668008782 ATP-binding site [chemical binding]; other site 400668008783 SEC-C motif; Region: SEC-C; pfam02810 400668008784 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 400668008785 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 400668008786 cell division protein FtsZ; Validated; Region: PRK09330 400668008787 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 400668008788 nucleotide binding site [chemical binding]; other site 400668008789 SulA interaction site; other site 400668008790 cell division protein FtsA; Region: ftsA; TIGR01174 400668008791 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 400668008792 nucleotide binding site [chemical binding]; other site 400668008793 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 400668008794 Cell division protein FtsA; Region: FtsA; pfam14450 400668008795 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 400668008796 Cell division protein FtsQ; Region: FtsQ; pfam03799 400668008797 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 400668008798 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 400668008799 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668008800 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 400668008801 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 400668008802 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400668008803 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400668008804 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 400668008805 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 400668008806 active site 400668008807 homodimer interface [polypeptide binding]; other site 400668008808 cell division protein FtsW; Region: ftsW; TIGR02614 400668008809 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 400668008810 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 400668008811 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400668008812 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400668008813 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 400668008814 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 400668008815 Mg++ binding site [ion binding]; other site 400668008816 putative catalytic motif [active] 400668008817 putative substrate binding site [chemical binding]; other site 400668008818 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 400668008819 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 400668008820 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400668008821 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400668008822 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 400668008823 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 400668008824 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 400668008825 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 400668008826 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 400668008827 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 400668008828 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 400668008829 Cell division protein FtsL; Region: FtsL; pfam04999 400668008830 MraW methylase family; Region: Methyltransf_5; pfam01795 400668008831 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 400668008832 cell division protein MraZ; Reviewed; Region: PRK00326 400668008833 MraZ protein; Region: MraZ; pfam02381 400668008834 MraZ protein; Region: MraZ; pfam02381 400668008835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668008836 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 400668008837 dimerization interface [polypeptide binding]; other site 400668008838 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 400668008839 dimer interface [polypeptide binding]; other site 400668008840 phosphorylation site [posttranslational modification] 400668008841 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 400668008842 ATP binding site [chemical binding]; other site 400668008843 Mg2+ binding site [ion binding]; other site 400668008844 G-X-G motif; other site 400668008845 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668008846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008847 active site 400668008848 phosphorylation site [posttranslational modification] 400668008849 intermolecular recognition site; other site 400668008850 dimerization interface [polypeptide binding]; other site 400668008851 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 400668008852 DNA binding site [nucleotide binding] 400668008853 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 400668008854 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 400668008855 GDP-binding site [chemical binding]; other site 400668008856 ACT binding site; other site 400668008857 IMP binding site; other site 400668008858 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 400668008859 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 400668008860 dimer interface [polypeptide binding]; other site 400668008861 motif 1; other site 400668008862 active site 400668008863 motif 2; other site 400668008864 motif 3; other site 400668008865 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 400668008866 FtsH protease regulator HflC; Provisional; Region: PRK11029 400668008867 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 400668008868 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 400668008869 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 400668008870 HflK protein; Region: hflK; TIGR01933 400668008871 GTPase HflX; Provisional; Region: PRK11058 400668008872 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 400668008873 HflX GTPase family; Region: HflX; cd01878 400668008874 G1 box; other site 400668008875 GTP/Mg2+ binding site [chemical binding]; other site 400668008876 Switch I region; other site 400668008877 G2 box; other site 400668008878 G3 box; other site 400668008879 Switch II region; other site 400668008880 G4 box; other site 400668008881 G5 box; other site 400668008882 bacterial Hfq-like; Region: Hfq; cd01716 400668008883 hexamer interface [polypeptide binding]; other site 400668008884 Sm1 motif; other site 400668008885 RNA binding site [nucleotide binding]; other site 400668008886 Sm2 motif; other site 400668008887 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 400668008888 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 400668008889 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 400668008890 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 400668008891 ATP binding site [chemical binding]; other site 400668008892 Mg2+ binding site [ion binding]; other site 400668008893 G-X-G motif; other site 400668008894 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 400668008895 ATP binding site [chemical binding]; other site 400668008896 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 400668008897 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 400668008898 AMIN domain; Region: AMIN; pfam11741 400668008899 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 400668008900 active site 400668008901 metal binding site [ion binding]; metal-binding site 400668008902 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 400668008903 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668008904 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 400668008905 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668008906 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 400668008907 catalytic site [active] 400668008908 putative active site [active] 400668008909 putative substrate binding site [chemical binding]; other site 400668008910 dimer interface [polypeptide binding]; other site 400668008911 GTPase RsgA; Reviewed; Region: PRK12288 400668008912 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 400668008913 RNA binding site [nucleotide binding]; other site 400668008914 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 400668008915 GTPase/Zn-binding domain interface [polypeptide binding]; other site 400668008916 GTP/Mg2+ binding site [chemical binding]; other site 400668008917 G4 box; other site 400668008918 G5 box; other site 400668008919 G1 box; other site 400668008920 Switch I region; other site 400668008921 G2 box; other site 400668008922 G3 box; other site 400668008923 Switch II region; other site 400668008924 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 400668008925 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 400668008926 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 400668008927 ligand binding site [chemical binding]; other site 400668008928 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 400668008929 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 400668008930 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 400668008931 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 400668008932 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 400668008933 Protein export membrane protein; Region: SecD_SecF; pfam02355 400668008934 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 400668008935 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 400668008936 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 400668008937 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 400668008938 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 400668008939 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 400668008940 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 400668008941 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 400668008942 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 400668008943 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 400668008944 sequence-specific DNA binding site [nucleotide binding]; other site 400668008945 salt bridge; other site 400668008946 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 400668008947 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 400668008948 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 400668008949 Aspartase; Region: Aspartase; cd01357 400668008950 active sites [active] 400668008951 tetramer interface [polypeptide binding]; other site 400668008952 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 400668008953 active site 400668008954 homodimer interface [polypeptide binding]; other site 400668008955 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668008956 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 400668008957 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 400668008958 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 400668008959 FMN binding site [chemical binding]; other site 400668008960 substrate binding site [chemical binding]; other site 400668008961 putative catalytic residue [active] 400668008962 Predicted flavoprotein [General function prediction only]; Region: COG0431 400668008963 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668008964 Predicted membrane protein [Function unknown]; Region: COG2246 400668008965 GtrA-like protein; Region: GtrA; pfam04138 400668008966 Pirin; Region: Pirin; pfam02678 400668008967 Pirin-related protein [General function prediction only]; Region: COG1741 400668008968 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 400668008969 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668008970 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 400668008971 dimer interface [polypeptide binding]; other site 400668008972 phosphorylation site [posttranslational modification] 400668008973 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 400668008974 ATP binding site [chemical binding]; other site 400668008975 Mg2+ binding site [ion binding]; other site 400668008976 G-X-G motif; other site 400668008977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668008978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668008979 active site 400668008980 phosphorylation site [posttranslational modification] 400668008981 intermolecular recognition site; other site 400668008982 dimerization interface [polypeptide binding]; other site 400668008983 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 400668008984 DNA binding site [nucleotide binding] 400668008985 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 400668008986 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 400668008987 Ligand binding site; other site 400668008988 Putative Catalytic site; other site 400668008989 DXD motif; other site 400668008990 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 400668008991 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 400668008992 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 400668008993 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 400668008994 conserved cys residue [active] 400668008995 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668008996 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400668008997 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 400668008998 FAD binding pocket [chemical binding]; other site 400668008999 FAD binding motif [chemical binding]; other site 400668009000 phosphate binding motif [ion binding]; other site 400668009001 beta-alpha-beta structure motif; other site 400668009002 NAD binding pocket [chemical binding]; other site 400668009003 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 400668009004 catalytic loop [active] 400668009005 iron binding site [ion binding]; other site 400668009006 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400668009007 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 400668009008 [2Fe-2S] cluster binding site [ion binding]; other site 400668009009 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 400668009010 putative alpha subunit interface [polypeptide binding]; other site 400668009011 putative active site [active] 400668009012 putative substrate binding site [chemical binding]; other site 400668009013 Fe binding site [ion binding]; other site 400668009014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668009015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668009016 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 400668009017 substrate binding pocket [chemical binding]; other site 400668009018 dimerization interface [polypeptide binding]; other site 400668009019 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 400668009020 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 400668009021 catalytic loop [active] 400668009022 iron binding site [ion binding]; other site 400668009023 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 400668009024 FAD binding pocket [chemical binding]; other site 400668009025 FAD binding motif [chemical binding]; other site 400668009026 phosphate binding motif [ion binding]; other site 400668009027 beta-alpha-beta structure motif; other site 400668009028 NAD binding pocket [chemical binding]; other site 400668009029 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400668009030 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 400668009031 iron-sulfur cluster [ion binding]; other site 400668009032 [2Fe-2S] cluster binding site [ion binding]; other site 400668009033 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 400668009034 putative alpha subunit interface [polypeptide binding]; other site 400668009035 putative active site [active] 400668009036 putative substrate binding site [chemical binding]; other site 400668009037 Fe binding site [ion binding]; other site 400668009038 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 400668009039 inter-subunit interface; other site 400668009040 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 400668009041 [2Fe-2S] cluster binding site [ion binding]; other site 400668009042 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668009043 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668009044 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 400668009045 DctM-like transporters; Region: DctM; pfam06808 400668009046 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 400668009047 maleylacetoacetate isomerase; Region: maiA; TIGR01262 400668009048 C-terminal domain interface [polypeptide binding]; other site 400668009049 GSH binding site (G-site) [chemical binding]; other site 400668009050 putative dimer interface [polypeptide binding]; other site 400668009051 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 400668009052 dimer interface [polypeptide binding]; other site 400668009053 N-terminal domain interface [polypeptide binding]; other site 400668009054 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 400668009055 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 400668009056 Cupin domain; Region: Cupin_2; pfam07883 400668009057 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 400668009058 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668009059 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 400668009060 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 400668009061 domain interface [polypeptide binding]; other site 400668009062 putative active site [active] 400668009063 catalytic site [active] 400668009064 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 400668009065 domain interface [polypeptide binding]; other site 400668009066 putative active site [active] 400668009067 catalytic site [active] 400668009068 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668009069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668009070 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 400668009071 dimerization interface [polypeptide binding]; other site 400668009072 substrate binding pocket [chemical binding]; other site 400668009073 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 400668009074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668009075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668009076 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 400668009077 dimerization interface [polypeptide binding]; other site 400668009078 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400668009079 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400668009080 inhibitor site; inhibition site 400668009081 active site 400668009082 dimer interface [polypeptide binding]; other site 400668009083 catalytic residue [active] 400668009084 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668009085 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668009086 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668009087 DctM-like transporters; Region: DctM; pfam06808 400668009088 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 400668009089 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 400668009090 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 400668009091 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 400668009092 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 400668009093 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cd09748 400668009094 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 400668009095 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 400668009096 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 400668009097 GIY-YIG domain of uncharacterized proteins from bacteria and their eukaryotic homologs; Region: GIY-YIG_COG3680; cd10440 400668009098 GIY-YIG motif/motif A; other site 400668009099 putative active site [active] 400668009100 putative metal binding site [ion binding]; other site 400668009101 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 400668009102 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 400668009103 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 400668009104 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 400668009105 XdhC Rossmann domain; Region: XdhC_C; pfam13478 400668009106 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 400668009107 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 400668009108 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 400668009109 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 400668009110 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 400668009111 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 400668009112 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 400668009113 NMT1/THI5 like; Region: NMT1; pfam09084 400668009114 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 400668009115 substrate binding pocket [chemical binding]; other site 400668009116 membrane-bound complex binding site; other site 400668009117 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 400668009118 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400668009119 Walker A/P-loop; other site 400668009120 ATP binding site [chemical binding]; other site 400668009121 Q-loop/lid; other site 400668009122 ABC transporter signature motif; other site 400668009123 Walker B; other site 400668009124 D-loop; other site 400668009125 H-loop/switch region; other site 400668009126 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 400668009127 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 400668009128 dimer interface [polypeptide binding]; other site 400668009129 conserved gate region; other site 400668009130 ABC-ATPase subunit interface; other site 400668009131 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 400668009132 nucleoside/Zn binding site; other site 400668009133 dimer interface [polypeptide binding]; other site 400668009134 catalytic motif [active] 400668009135 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 400668009136 oxidase reductase; Provisional; Region: PTZ00273 400668009137 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 400668009138 YcfA-like protein; Region: YcfA; pfam07927 400668009139 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 400668009140 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 400668009141 salt bridge; other site 400668009142 non-specific DNA binding site [nucleotide binding]; other site 400668009143 sequence-specific DNA binding site [nucleotide binding]; other site 400668009144 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 400668009145 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 400668009146 active site 400668009147 homotetramer interface [polypeptide binding]; other site 400668009148 salicylate hydroxylase; Provisional; Region: PRK08163 400668009149 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668009150 Predicted transcriptional regulator [Transcription]; Region: COG4189 400668009151 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 400668009152 dimerization interface [polypeptide binding]; other site 400668009153 putative DNA binding site [nucleotide binding]; other site 400668009154 putative Zn2+ binding site [ion binding]; other site 400668009155 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 400668009156 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 400668009157 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668009158 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668009159 Walker A/P-loop; other site 400668009160 ATP binding site [chemical binding]; other site 400668009161 Q-loop/lid; other site 400668009162 ABC transporter signature motif; other site 400668009163 Walker B; other site 400668009164 D-loop; other site 400668009165 H-loop/switch region; other site 400668009166 TOBE domain; Region: TOBE_2; pfam08402 400668009167 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 400668009168 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668009169 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 400668009170 dimer interface [polypeptide binding]; other site 400668009171 conserved gate region; other site 400668009172 putative PBP binding loops; other site 400668009173 ABC-ATPase subunit interface; other site 400668009174 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668009175 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 400668009176 dimer interface [polypeptide binding]; other site 400668009177 conserved gate region; other site 400668009178 putative PBP binding loops; other site 400668009179 ABC-ATPase subunit interface; other site 400668009180 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668009181 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668009182 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 400668009183 active site 400668009184 catalytic residues [active] 400668009185 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668009186 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 400668009187 intersubunit interface [polypeptide binding]; other site 400668009188 Cache domain; Region: Cache_1; pfam02743 400668009189 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668009190 HAMP domain; Region: HAMP; pfam00672 400668009191 dimerization interface [polypeptide binding]; other site 400668009192 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668009193 dimer interface [polypeptide binding]; other site 400668009194 putative CheW interface [polypeptide binding]; other site 400668009195 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 400668009196 Ligand Binding Site [chemical binding]; other site 400668009197 Electron transfer flavoprotein domain; Region: ETF; pfam01012 400668009198 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 400668009199 Ligand Binding Site [chemical binding]; other site 400668009200 Electron transfer flavoprotein domain; Region: ETF; smart00893 400668009201 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 400668009202 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 400668009203 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 400668009204 Cysteine-rich domain; Region: CCG; pfam02754 400668009205 Cysteine-rich domain; Region: CCG; pfam02754 400668009206 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 400668009207 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 400668009208 putative active site [active] 400668009209 putative FMN binding site [chemical binding]; other site 400668009210 putative substrate binding site [chemical binding]; other site 400668009211 putative catalytic residue [active] 400668009212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668009213 V4R domain; Region: V4R; cl15268 400668009214 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 400668009215 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 400668009216 active site 400668009217 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 400668009218 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 400668009219 active site 400668009220 dimer interface [polypeptide binding]; other site 400668009221 motif 1; other site 400668009222 motif 2; other site 400668009223 motif 3; other site 400668009224 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 400668009225 anticodon binding site; other site 400668009226 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668009227 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668009228 metal binding site [ion binding]; metal-binding site 400668009229 active site 400668009230 I-site; other site 400668009231 Peptidase family M48; Region: Peptidase_M48; pfam01435 400668009232 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 400668009233 Two component regulator propeller; Region: Reg_prop; pfam07494 400668009234 Two component regulator propeller; Region: Reg_prop; pfam07494 400668009235 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 400668009236 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668009237 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668009238 metal binding site [ion binding]; metal-binding site 400668009239 active site 400668009240 I-site; other site 400668009241 beta-D-glucuronidase; Provisional; Region: PRK10150 400668009242 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 400668009243 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 400668009244 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 400668009245 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 400668009246 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 400668009247 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668009248 maleylacetoacetate isomerase; Region: maiA; TIGR01262 400668009249 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 400668009250 C-terminal domain interface [polypeptide binding]; other site 400668009251 GSH binding site (G-site) [chemical binding]; other site 400668009252 putative dimer interface [polypeptide binding]; other site 400668009253 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 400668009254 dimer interface [polypeptide binding]; other site 400668009255 N-terminal domain interface [polypeptide binding]; other site 400668009256 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 400668009257 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 400668009258 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 400668009259 dimer interface [polypeptide binding]; other site 400668009260 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 400668009261 active site 400668009262 Fe binding site [ion binding]; other site 400668009263 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 400668009264 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668009265 MarR family; Region: MarR_2; pfam12802 400668009266 mechanosensitive channel MscS; Provisional; Region: PRK10334 400668009267 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668009268 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 400668009269 PAS domain; Region: PAS; smart00091 400668009270 PAS domain; Region: PAS_9; pfam13426 400668009271 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668009272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668009273 dimer interface [polypeptide binding]; other site 400668009274 putative CheW interface [polypeptide binding]; other site 400668009275 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 400668009276 Uncharacterized conserved protein [Function unknown]; Region: COG1683 400668009277 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 400668009278 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 400668009279 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 400668009280 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 400668009281 active site 400668009282 Zn binding site [ion binding]; other site 400668009283 D-lactate dehydrogenase; Provisional; Region: PRK11183 400668009284 FAD binding domain; Region: FAD_binding_4; pfam01565 400668009285 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 400668009286 Sensors of blue-light using FAD; Region: BLUF; pfam04940 400668009287 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 400668009288 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668009289 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400668009290 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 400668009291 FAD binding domain; Region: FAD_binding_4; pfam01565 400668009292 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 400668009293 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 400668009294 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 400668009295 putative active site [active] 400668009296 putative substrate binding site [chemical binding]; other site 400668009297 putative cosubstrate binding site; other site 400668009298 catalytic site [active] 400668009299 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 400668009300 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 400668009301 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 400668009302 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 400668009303 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 400668009304 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 400668009305 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 400668009306 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668009307 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668009308 NADH kinase; Region: PLN02929 400668009309 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 400668009310 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 400668009311 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 400668009312 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668009313 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668009314 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 400668009315 dimer interface [polypeptide binding]; other site 400668009316 conserved gate region; other site 400668009317 putative PBP binding loops; other site 400668009318 ABC-ATPase subunit interface; other site 400668009319 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668009320 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 400668009321 dimer interface [polypeptide binding]; other site 400668009322 conserved gate region; other site 400668009323 putative PBP binding loops; other site 400668009324 ABC-ATPase subunit interface; other site 400668009325 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668009326 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668009327 Walker A/P-loop; other site 400668009328 ATP binding site [chemical binding]; other site 400668009329 Q-loop/lid; other site 400668009330 ABC transporter signature motif; other site 400668009331 Walker B; other site 400668009332 D-loop; other site 400668009333 H-loop/switch region; other site 400668009334 TOBE domain; Region: TOBE_2; pfam08402 400668009335 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 400668009336 putative active site pocket [active] 400668009337 dimerization interface [polypeptide binding]; other site 400668009338 putative catalytic residue [active] 400668009339 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668009340 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668009341 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 400668009342 dimerization interface [polypeptide binding]; other site 400668009343 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668009344 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 400668009345 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 400668009346 putative substrate translocation pore; other site 400668009347 Cupin; Region: Cupin_6; pfam12852 400668009348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668009349 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668009350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668009351 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 400668009352 ApbE family; Region: ApbE; pfam02424 400668009353 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 400668009354 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668009355 Walker A/P-loop; other site 400668009356 ATP binding site [chemical binding]; other site 400668009357 ABC transporter signature motif; other site 400668009358 Walker B; other site 400668009359 D-loop; other site 400668009360 H-loop/switch region; other site 400668009361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668009362 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 400668009363 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 400668009364 dimerization interface [polypeptide binding]; other site 400668009365 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668009366 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668009367 dimer interface [polypeptide binding]; other site 400668009368 putative CheW interface [polypeptide binding]; other site 400668009369 Predicted transcriptional regulator [Transcription]; Region: COG2378 400668009370 HTH domain; Region: HTH_11; pfam08279 400668009371 WYL domain; Region: WYL; pfam13280 400668009372 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 400668009373 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 400668009374 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 400668009375 mannonate dehydratase; Provisional; Region: PRK03906 400668009376 mannonate dehydratase; Region: uxuA; TIGR00695 400668009377 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 400668009378 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 400668009379 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 400668009380 Glucuronate isomerase; Region: UxaC; pfam02614 400668009381 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 400668009382 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 400668009383 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 400668009384 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 400668009385 putative active site [active] 400668009386 putative catalytic site [active] 400668009387 DctM-like transporters; Region: DctM; pfam06808 400668009388 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668009389 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668009390 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668009391 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668009392 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 400668009393 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668009394 DNA-binding site [nucleotide binding]; DNA binding site 400668009395 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400668009396 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 400668009397 PAS domain; Region: PAS_9; pfam13426 400668009398 putative active site [active] 400668009399 heme pocket [chemical binding]; other site 400668009400 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 400668009401 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 400668009402 putative active site [active] 400668009403 heme pocket [chemical binding]; other site 400668009404 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 400668009405 dimer interface [polypeptide binding]; other site 400668009406 phosphorylation site [posttranslational modification] 400668009407 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 400668009408 ATP binding site [chemical binding]; other site 400668009409 Mg2+ binding site [ion binding]; other site 400668009410 G-X-G motif; other site 400668009411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009412 Response regulator receiver domain; Region: Response_reg; pfam00072 400668009413 active site 400668009414 phosphorylation site [posttranslational modification] 400668009415 intermolecular recognition site; other site 400668009416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009417 active site 400668009418 phosphorylation site [posttranslational modification] 400668009419 intermolecular recognition site; other site 400668009420 dimerization interface [polypeptide binding]; other site 400668009421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668009422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668009423 metal binding site [ion binding]; metal-binding site 400668009424 active site 400668009425 I-site; other site 400668009426 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 400668009427 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 400668009428 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 400668009429 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 400668009430 ATP binding site [chemical binding]; other site 400668009431 Mg2+ binding site [ion binding]; other site 400668009432 G-X-G motif; other site 400668009433 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 400668009434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009435 active site 400668009436 phosphorylation site [posttranslational modification] 400668009437 intermolecular recognition site; other site 400668009438 dimerization interface [polypeptide binding]; other site 400668009439 Transcriptional regulator; Region: CitT; pfam12431 400668009440 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 400668009441 non-specific DNA interactions [nucleotide binding]; other site 400668009442 DNA binding site [nucleotide binding] 400668009443 sequence specific DNA binding site [nucleotide binding]; other site 400668009444 putative cAMP binding site [chemical binding]; other site 400668009445 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 400668009446 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668009447 Predicted dehydrogenase [General function prediction only]; Region: COG0579 400668009448 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 400668009449 CoA binding domain; Region: CoA_binding; pfam02629 400668009450 CoA-ligase; Region: Ligase_CoA; pfam00549 400668009451 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 400668009452 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 400668009453 CoA-ligase; Region: Ligase_CoA; pfam00549 400668009454 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 400668009455 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668009456 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 400668009457 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 400668009458 E3 interaction surface; other site 400668009459 lipoyl attachment site [posttranslational modification]; other site 400668009460 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 400668009461 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 400668009462 E3 interaction surface; other site 400668009463 lipoyl attachment site [posttranslational modification]; other site 400668009464 e3 binding domain; Region: E3_binding; pfam02817 400668009465 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400668009466 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 400668009467 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 400668009468 TPP-binding site [chemical binding]; other site 400668009469 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 400668009470 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 400668009471 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 400668009472 L-aspartate oxidase; Provisional; Region: PRK06175 400668009473 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 400668009474 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 400668009475 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 400668009476 SdhC subunit interface [polypeptide binding]; other site 400668009477 proximal heme binding site [chemical binding]; other site 400668009478 cardiolipin binding site; other site 400668009479 Iron-sulfur protein interface; other site 400668009480 proximal quinone binding site [chemical binding]; other site 400668009481 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 400668009482 proximal quinone binding site [chemical binding]; other site 400668009483 SdhD (CybS) interface [polypeptide binding]; other site 400668009484 proximal heme binding site [chemical binding]; other site 400668009485 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 400668009486 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 400668009487 dimer interface [polypeptide binding]; other site 400668009488 active site 400668009489 citrylCoA binding site [chemical binding]; other site 400668009490 NADH binding [chemical binding]; other site 400668009491 cationic pore residues; other site 400668009492 oxalacetate/citrate binding site [chemical binding]; other site 400668009493 coenzyme A binding site [chemical binding]; other site 400668009494 catalytic triad [active] 400668009495 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 400668009496 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 400668009497 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 400668009498 dimerization interface [polypeptide binding]; other site 400668009499 putative ATP binding site [chemical binding]; other site 400668009500 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 400668009501 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 400668009502 active site 400668009503 substrate binding site [chemical binding]; other site 400668009504 cosubstrate binding site; other site 400668009505 catalytic site [active] 400668009506 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 400668009507 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 400668009508 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 400668009509 GTP binding site; other site 400668009510 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 400668009511 hypothetical protein; Validated; Region: PRK09071 400668009512 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 400668009513 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 400668009514 [4Fe-4S] binding site [ion binding]; other site 400668009515 molybdopterin cofactor binding site; other site 400668009516 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 400668009517 molybdopterin cofactor binding site; other site 400668009518 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 400668009519 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 400668009520 nitrite reductase subunit NirD; Provisional; Region: PRK14989 400668009521 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668009522 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 400668009523 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400668009524 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668009525 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 400668009526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668009527 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 400668009528 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 400668009529 Walker A/P-loop; other site 400668009530 ATP binding site [chemical binding]; other site 400668009531 Q-loop/lid; other site 400668009532 ABC transporter signature motif; other site 400668009533 Walker B; other site 400668009534 D-loop; other site 400668009535 H-loop/switch region; other site 400668009536 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 400668009537 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 400668009538 dimer interface [polypeptide binding]; other site 400668009539 conserved gate region; other site 400668009540 putative PBP binding loops; other site 400668009541 ABC-ATPase subunit interface; other site 400668009542 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 400668009543 NMT1-like family; Region: NMT1_2; pfam13379 400668009544 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 400668009545 NMT1-like family; Region: NMT1_2; pfam13379 400668009546 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 400668009547 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009548 active site 400668009549 phosphorylation site [posttranslational modification] 400668009550 intermolecular recognition site; other site 400668009551 ANTAR domain; Region: ANTAR; pfam03861 400668009552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668009553 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 400668009554 DNA binding residues [nucleotide binding] 400668009555 dimerization interface [polypeptide binding]; other site 400668009556 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 400668009557 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668009558 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668009559 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 400668009560 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 400668009561 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668009562 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 400668009563 Walker A/P-loop; other site 400668009564 ATP binding site [chemical binding]; other site 400668009565 Q-loop/lid; other site 400668009566 ABC transporter signature motif; other site 400668009567 Walker B; other site 400668009568 D-loop; other site 400668009569 H-loop/switch region; other site 400668009570 biofilm formation regulator HmsP; Provisional; Region: PRK11829 400668009571 HAMP domain; Region: HAMP; pfam00672 400668009572 dimerization interface [polypeptide binding]; other site 400668009573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668009574 metal binding site [ion binding]; metal-binding site 400668009575 active site 400668009576 I-site; other site 400668009577 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 400668009578 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 400668009579 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 400668009580 DTW domain; Region: DTW; cl01221 400668009581 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 400668009582 active site 400668009583 hydrophilic channel; other site 400668009584 dimerization interface [polypeptide binding]; other site 400668009585 catalytic residues [active] 400668009586 active site lid [active] 400668009587 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668009588 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 400668009589 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 400668009590 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 400668009591 catalytic residues [active] 400668009592 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 400668009593 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 400668009594 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 400668009595 heme binding site [chemical binding]; other site 400668009596 ferroxidase pore; other site 400668009597 ferroxidase diiron center [ion binding]; other site 400668009598 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 400668009599 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 400668009600 heme binding site [chemical binding]; other site 400668009601 ferroxidase pore; other site 400668009602 ferroxidase diiron center [ion binding]; other site 400668009603 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 400668009604 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 400668009605 CAP-like domain; other site 400668009606 active site 400668009607 primary dimer interface [polypeptide binding]; other site 400668009608 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 400668009609 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 400668009610 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400668009611 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 400668009612 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 400668009613 putative active site; other site 400668009614 catalytic triad [active] 400668009615 putative dimer interface [polypeptide binding]; other site 400668009616 arginine decarboxylase; Provisional; Region: PRK05354 400668009617 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 400668009618 active site 400668009619 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668009620 catalytic residues [active] 400668009621 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 400668009622 lipoyl synthase; Provisional; Region: PRK05481 400668009623 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 400668009624 FeS/SAM binding site; other site 400668009625 lipoate-protein ligase B; Provisional; Region: PRK14342 400668009626 Protein of unknown function (DUF493); Region: DUF493; pfam04359 400668009627 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 400668009628 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 400668009629 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 400668009630 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 400668009631 rare lipoprotein A; Region: rlpA; TIGR00413 400668009632 Sporulation related domain; Region: SPOR; pfam05036 400668009633 Transglycosylase SLT domain; Region: SLT_2; pfam13406 400668009634 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 400668009635 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400668009636 catalytic residue [active] 400668009637 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 400668009638 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 400668009639 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 400668009640 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 400668009641 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 400668009642 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 400668009643 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 400668009644 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 400668009645 active site 400668009646 (T/H)XGH motif; other site 400668009647 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 400668009648 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 400668009649 putative catalytic cysteine [active] 400668009650 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 400668009651 homodimer interaction site [polypeptide binding]; other site 400668009652 cofactor binding site; other site 400668009653 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 400668009654 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 400668009655 RNA binding site [nucleotide binding]; other site 400668009656 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 400668009657 RNA binding site [nucleotide binding]; other site 400668009658 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 400668009659 RNA binding site [nucleotide binding]; other site 400668009660 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 400668009661 RNA binding site [nucleotide binding]; other site 400668009662 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 400668009663 RNA binding site [nucleotide binding]; other site 400668009664 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 400668009665 RNA binding site [nucleotide binding]; other site 400668009666 cytidylate kinase; Provisional; Region: cmk; PRK00023 400668009667 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 400668009668 CMP-binding site; other site 400668009669 The sites determining sugar specificity; other site 400668009670 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 400668009671 prephenate dehydrogenase; Validated; Region: PRK08507 400668009672 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 400668009673 putative active site [active] 400668009674 Chorismate mutase type II; Region: CM_2; cl00693 400668009675 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 400668009676 Prephenate dehydratase; Region: PDT; pfam00800 400668009677 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 400668009678 putative L-Phe binding site [chemical binding]; other site 400668009679 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 400668009680 homodimer interface [polypeptide binding]; other site 400668009681 substrate-cofactor binding pocket; other site 400668009682 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400668009683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668009684 catalytic residue [active] 400668009685 DNA gyrase subunit A; Validated; Region: PRK05560 400668009686 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 400668009687 CAP-like domain; other site 400668009688 active site 400668009689 primary dimer interface [polypeptide binding]; other site 400668009690 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400668009691 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400668009692 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400668009693 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 400668009694 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 400668009695 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 400668009696 S-adenosylmethionine binding site [chemical binding]; other site 400668009697 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 400668009698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668009699 NAD(P) binding site [chemical binding]; other site 400668009700 active site 400668009701 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 400668009702 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 400668009703 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668009704 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668009705 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 400668009706 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 400668009707 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 400668009708 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 400668009709 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 400668009710 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 400668009711 hypothetical protein; Provisional; Region: PRK12378 400668009712 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 400668009713 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 400668009714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668009715 homodimer interface [polypeptide binding]; other site 400668009716 catalytic residue [active] 400668009717 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668009718 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 400668009719 putative acyl-acceptor binding pocket; other site 400668009720 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 400668009721 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 400668009722 dimerization interface [polypeptide binding]; other site 400668009723 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 400668009724 dimer interface [polypeptide binding]; other site 400668009725 phosphorylation site [posttranslational modification] 400668009726 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 400668009727 ATP binding site [chemical binding]; other site 400668009728 Mg2+ binding site [ion binding]; other site 400668009729 G-X-G motif; other site 400668009730 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 400668009731 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009732 active site 400668009733 phosphorylation site [posttranslational modification] 400668009734 intermolecular recognition site; other site 400668009735 dimerization interface [polypeptide binding]; other site 400668009736 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 400668009737 DNA binding site [nucleotide binding] 400668009738 Predicted permeases [General function prediction only]; Region: COG0679 400668009739 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 400668009740 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 400668009741 PAS domain; Region: PAS_9; pfam13426 400668009742 putative active site [active] 400668009743 heme pocket [chemical binding]; other site 400668009744 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 400668009745 dimer interface [polypeptide binding]; other site 400668009746 phosphorylation site [posttranslational modification] 400668009747 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 400668009748 ATP binding site [chemical binding]; other site 400668009749 Mg2+ binding site [ion binding]; other site 400668009750 G-X-G motif; other site 400668009751 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668009752 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668009753 active site 400668009754 phosphorylation site [posttranslational modification] 400668009755 intermolecular recognition site; other site 400668009756 dimerization interface [polypeptide binding]; other site 400668009757 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 400668009758 Walker A motif; other site 400668009759 ATP binding site [chemical binding]; other site 400668009760 Walker B motif; other site 400668009761 arginine finger; other site 400668009762 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668009763 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668009764 flavodoxin FldA; Validated; Region: PRK09267 400668009765 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 400668009766 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668009767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668009768 dimer interface [polypeptide binding]; other site 400668009769 putative CheW interface [polypeptide binding]; other site 400668009770 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 400668009771 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 400668009772 HIGH motif; other site 400668009773 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 400668009774 active site 400668009775 KMSKS motif; other site 400668009776 flap endonuclease-like protein; Provisional; Region: PRK09482 400668009777 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 400668009778 active site 400668009779 metal binding site 1 [ion binding]; metal-binding site 400668009780 putative 5' ssDNA interaction site; other site 400668009781 metal binding site 3; metal-binding site 400668009782 metal binding site 2 [ion binding]; metal-binding site 400668009783 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 400668009784 putative DNA binding site [nucleotide binding]; other site 400668009785 putative metal binding site [ion binding]; other site 400668009786 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 400668009787 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 400668009788 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 400668009789 active site 400668009790 metal binding site [ion binding]; metal-binding site 400668009791 carboxy-terminal protease; Provisional; Region: PRK11186 400668009792 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 400668009793 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 400668009794 protein binding site [polypeptide binding]; other site 400668009795 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 400668009796 Catalytic dyad [active] 400668009797 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 400668009798 LexA regulated protein; Provisional; Region: PRK11675 400668009799 thymidine kinase; Provisional; Region: PRK04296 400668009800 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 400668009801 ATP binding site [chemical binding]; other site 400668009802 Walker A motif; other site 400668009803 Walker B motif; other site 400668009804 Putative exonuclease, RdgC; Region: RdgC; pfam04381 400668009805 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 400668009806 Cation efflux family; Region: Cation_efflux; pfam01545 400668009807 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 400668009808 RmuC family; Region: RmuC; pfam02646 400668009809 hypothetical protein; Provisional; Region: PRK11568 400668009810 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 400668009811 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 400668009812 ATP-dependent helicase HepA; Validated; Region: PRK04914 400668009813 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 400668009814 ATP binding site [chemical binding]; other site 400668009815 putative Mg++ binding site [ion binding]; other site 400668009816 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 400668009817 nucleotide binding region [chemical binding]; other site 400668009818 ATP-binding site [chemical binding]; other site 400668009819 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 400668009820 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400668009821 active site 400668009822 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 400668009823 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668009824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668009825 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 400668009826 dimer interface [polypeptide binding]; other site 400668009827 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400668009828 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 400668009829 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 400668009830 putative active site [active] 400668009831 Zn binding site [ion binding]; other site 400668009832 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 400668009833 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 400668009834 putative active site [active] 400668009835 Zn binding site [ion binding]; other site 400668009836 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 400668009837 putative binding surface; other site 400668009838 active site 400668009839 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668009840 Zn2+ binding site [ion binding]; other site 400668009841 Mg2+ binding site [ion binding]; other site 400668009842 Uncharacterized conserved protein [Function unknown]; Region: COG2947 400668009843 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 400668009844 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 400668009845 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 400668009846 FeS/SAM binding site; other site 400668009847 TRAM domain; Region: TRAM; pfam01938 400668009848 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 400668009849 PhoH-like protein; Region: PhoH; pfam02562 400668009850 metal-binding heat shock protein; Provisional; Region: PRK00016 400668009851 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 400668009852 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 400668009853 Transporter associated domain; Region: CorC_HlyC; smart01091 400668009854 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 400668009855 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 400668009856 putative active site [active] 400668009857 catalytic triad [active] 400668009858 putative dimer interface [polypeptide binding]; other site 400668009859 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 400668009860 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 400668009861 HIGH motif; other site 400668009862 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 400668009863 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 400668009864 active site 400668009865 KMSKS motif; other site 400668009866 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 400668009867 tRNA binding surface [nucleotide binding]; other site 400668009868 Lipopolysaccharide-assembly; Region: LptE; cl01125 400668009869 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 400668009870 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 400668009871 FIST N domain; Region: FIST; smart00897 400668009872 FIST C domain; Region: FIST_C; pfam10442 400668009873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668009874 dimer interface [polypeptide binding]; other site 400668009875 putative CheW interface [polypeptide binding]; other site 400668009876 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 400668009877 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 400668009878 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 400668009879 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 400668009880 ligand binding site [chemical binding]; other site 400668009881 flexible hinge region; other site 400668009882 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 400668009883 ligand binding site [chemical binding]; other site 400668009884 flexible hinge region; other site 400668009885 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 400668009886 putative acyl-acceptor binding pocket; other site 400668009887 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 400668009888 active site 400668009889 catalytic triad [active] 400668009890 oxyanion hole [active] 400668009891 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668009892 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400668009893 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 400668009894 dimer interface [polypeptide binding]; other site 400668009895 active site 400668009896 catalytic residue [active] 400668009897 conjugal transfer protein TraL; Provisional; Region: PRK13886 400668009898 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 400668009899 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 400668009900 tetramer interface [polypeptide binding]; other site 400668009901 active site 400668009902 Mg2+/Mn2+ binding site [ion binding]; other site 400668009903 Tannase and feruloyl esterase; Region: Tannase; pfam07519 400668009904 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668009905 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 400668009906 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668009907 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 400668009908 catalytic site [active] 400668009909 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 400668009910 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 400668009911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 400668009912 Protein of unknown function (DUF330); Region: DUF330; pfam03886 400668009913 paraquat-inducible protein B; Provisional; Region: PRK10807 400668009914 mce related protein; Region: MCE; pfam02470 400668009915 mce related protein; Region: MCE; pfam02470 400668009916 mce related protein; Region: MCE; pfam02470 400668009917 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 400668009918 Paraquat-inducible protein A; Region: PqiA; pfam04403 400668009919 Paraquat-inducible protein A; Region: PqiA; pfam04403 400668009920 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 400668009921 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 400668009922 Late embryogenesis abundant protein; Region: LEA_2; pfam03168 400668009923 Protein of unknown function, DUF486; Region: DUF486; pfam04342 400668009924 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 400668009925 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 400668009926 RNA binding surface [nucleotide binding]; other site 400668009927 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 400668009928 probable active site [active] 400668009929 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 400668009930 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 400668009931 intracellular protease, PfpI family; Region: PfpI; TIGR01382 400668009932 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 400668009933 conserved cys residue [active] 400668009934 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400668009935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668009936 MarC family integral membrane protein; Region: MarC; pfam01914 400668009937 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668009938 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668009939 NIPSNAP; Region: NIPSNAP; pfam07978 400668009940 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668009941 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668009942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668009943 Coenzyme A binding pocket [chemical binding]; other site 400668009944 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 400668009945 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 400668009946 trimer interface [polypeptide binding]; other site 400668009947 active site 400668009948 substrate binding site [chemical binding]; other site 400668009949 CoA binding site [chemical binding]; other site 400668009950 putative transposase OrfB; Reviewed; Region: PHA02517 400668009951 HTH-like domain; Region: HTH_21; pfam13276 400668009952 Integrase core domain; Region: rve; pfam00665 400668009953 Integrase core domain; Region: rve_3; pfam13683 400668009954 Transposase; Region: HTH_Tnp_1; pfam01527 400668009955 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668009956 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668009957 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 400668009958 active site 400668009959 metal binding site [ion binding]; metal-binding site 400668009960 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 400668009961 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 400668009962 Putative transposase; Region: Y2_Tnp; pfam04986 400668009963 integron integrase; Region: integrase_gron; TIGR02249 400668009964 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 400668009965 active site 400668009966 DNA binding site [nucleotide binding] 400668009967 Int/Topo IB signature motif; other site 400668009968 NAD synthetase; Provisional; Region: PRK13981 400668009969 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 400668009970 multimer interface [polypeptide binding]; other site 400668009971 active site 400668009972 catalytic triad [active] 400668009973 protein interface 1 [polypeptide binding]; other site 400668009974 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 400668009975 homodimer interface [polypeptide binding]; other site 400668009976 NAD binding pocket [chemical binding]; other site 400668009977 ATP binding pocket [chemical binding]; other site 400668009978 Mg binding site [ion binding]; other site 400668009979 active-site loop [active] 400668009980 LIM is a small protein-protein interaction domain, containing two zinc fingers; Region: LIM; cl02475 400668009981 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 400668009982 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 400668009983 Type II transport protein GspH; Region: GspH; pfam12019 400668009984 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668009985 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 400668009986 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 400668009987 chorismate binding enzyme; Region: Chorismate_bind; cl10555 400668009988 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 400668009989 putative active site [active] 400668009990 putative CoA binding site [chemical binding]; other site 400668009991 nudix motif; other site 400668009992 metal binding site [ion binding]; metal-binding site 400668009993 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 400668009994 Active Sites [active] 400668009995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668009996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668009997 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 400668009998 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668009999 Zn2+ binding site [ion binding]; other site 400668010000 Mg2+ binding site [ion binding]; other site 400668010001 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 400668010002 Transposase; Region: HTH_Tnp_1; pfam01527 400668010003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668010004 putative transposase OrfB; Reviewed; Region: PHA02517 400668010005 HTH-like domain; Region: HTH_21; pfam13276 400668010006 Integrase core domain; Region: rve; pfam00665 400668010007 Integrase core domain; Region: rve_3; pfam13683 400668010008 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 400668010009 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 400668010010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010012 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 400668010013 dimerization interface [polypeptide binding]; other site 400668010014 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668010015 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668010016 Coenzyme A binding pocket [chemical binding]; other site 400668010017 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 400668010018 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 400668010019 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 400668010020 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 400668010021 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 400668010022 DsbD alpha interface [polypeptide binding]; other site 400668010023 catalytic residues [active] 400668010024 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 400668010025 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 400668010026 carboxyltransferase (CT) interaction site; other site 400668010027 biotinylation site [posttranslational modification]; other site 400668010028 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 400668010029 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400668010030 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 400668010031 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400668010032 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 400668010033 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668010034 S-adenosylmethionine binding site [chemical binding]; other site 400668010035 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 400668010036 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 400668010037 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 400668010038 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 400668010039 FMN binding site [chemical binding]; other site 400668010040 active site 400668010041 catalytic residues [active] 400668010042 substrate binding site [chemical binding]; other site 400668010043 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 400668010044 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 400668010045 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 400668010046 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 400668010047 purine monophosphate binding site [chemical binding]; other site 400668010048 dimer interface [polypeptide binding]; other site 400668010049 putative catalytic residues [active] 400668010050 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 400668010051 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 400668010052 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 400668010053 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 400668010054 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 400668010055 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 400668010056 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 400668010057 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 400668010058 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 400668010059 nucleotide binding site/active site [active] 400668010060 HIT family signature motif; other site 400668010061 catalytic residue [active] 400668010062 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 400668010063 diiron binding motif [ion binding]; other site 400668010064 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 400668010065 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 400668010066 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 400668010067 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 400668010068 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 400668010069 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 400668010070 ATP cone domain; Region: ATP-cone; pfam03477 400668010071 Class I ribonucleotide reductase; Region: RNR_I; cd01679 400668010072 active site 400668010073 dimer interface [polypeptide binding]; other site 400668010074 catalytic residues [active] 400668010075 effector binding site; other site 400668010076 R2 peptide binding site; other site 400668010077 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 400668010078 dimer interface [polypeptide binding]; other site 400668010079 putative radical transfer pathway; other site 400668010080 diiron center [ion binding]; other site 400668010081 tyrosyl radical; other site 400668010082 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 400668010083 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 400668010084 catalytic loop [active] 400668010085 iron binding site [ion binding]; other site 400668010086 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 400668010087 PGAP1-like protein; Region: PGAP1; pfam07819 400668010088 acyl-CoA esterase; Provisional; Region: PRK10673 400668010089 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 400668010090 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 400668010091 prephenate dehydratase; Provisional; Region: PRK11899 400668010092 Prephenate dehydratase; Region: PDT; pfam00800 400668010093 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 400668010094 putative L-Phe binding site [chemical binding]; other site 400668010095 Haemolytic domain; Region: Haemolytic; pfam01809 400668010096 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668010097 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668010098 active site 400668010099 phosphorylation site [posttranslational modification] 400668010100 intermolecular recognition site; other site 400668010101 dimerization interface [polypeptide binding]; other site 400668010102 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 400668010103 DNA binding residues [nucleotide binding] 400668010104 dimerization interface [polypeptide binding]; other site 400668010105 acetyl-CoA synthetase; Provisional; Region: PRK00174 400668010106 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 400668010107 active site 400668010108 CoA binding site [chemical binding]; other site 400668010109 acyl-activating enzyme (AAE) consensus motif; other site 400668010110 AMP binding site [chemical binding]; other site 400668010111 acetate binding site [chemical binding]; other site 400668010112 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 400668010113 S-adenosylmethionine binding site [chemical binding]; other site 400668010114 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 400668010115 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 400668010116 motif II; other site 400668010117 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668010118 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668010119 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 400668010120 putative peptidase; Provisional; Region: PRK11649 400668010121 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 400668010122 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 400668010123 E3 interaction surface; other site 400668010124 lipoyl attachment site [posttranslational modification]; other site 400668010125 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 400668010126 Cation transport protein; Region: TrkH; cl17365 400668010127 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 400668010128 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 400668010129 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 400668010130 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 400668010131 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 400668010132 Ligand binding site [chemical binding]; other site 400668010133 Electron transfer flavoprotein domain; Region: ETF; pfam01012 400668010134 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 400668010135 active site 400668010136 feruloyl-CoA synthase; Reviewed; Region: PRK08180 400668010137 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 400668010138 acyl-activating enzyme (AAE) consensus motif; other site 400668010139 putative AMP binding site [chemical binding]; other site 400668010140 putative active site [active] 400668010141 putative CoA binding site [chemical binding]; other site 400668010142 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400668010143 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 400668010144 active site 400668010145 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 400668010146 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 400668010147 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 400668010148 NAD binding site [chemical binding]; other site 400668010149 homodimer interface [polypeptide binding]; other site 400668010150 homotetramer interface [polypeptide binding]; other site 400668010151 active site 400668010152 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 400668010153 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 400668010154 substrate binding site [chemical binding]; other site 400668010155 oxyanion hole (OAH) forming residues; other site 400668010156 trimer interface [polypeptide binding]; other site 400668010157 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 400668010158 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 400668010159 dimer interface [polypeptide binding]; other site 400668010160 active site 400668010161 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 400668010162 Coenzyme A transferase; Region: CoA_trans; smart00882 400668010163 Coenzyme A transferase; Region: CoA_trans; cl17247 400668010164 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010165 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668010166 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010167 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668010168 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668010169 DctM-like transporters; Region: DctM; pfam06808 400668010170 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668010171 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668010172 MarR family; Region: MarR_2; pfam12802 400668010173 CHASE domain; Region: CHASE; pfam03924 400668010174 PAS domain S-box; Region: sensory_box; TIGR00229 400668010175 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 400668010176 putative active site [active] 400668010177 heme pocket [chemical binding]; other site 400668010178 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400668010179 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 400668010180 putative active site [active] 400668010181 heme pocket [chemical binding]; other site 400668010182 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 400668010183 putative active site [active] 400668010184 heme pocket [chemical binding]; other site 400668010185 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 400668010186 dimer interface [polypeptide binding]; other site 400668010187 phosphorylation site [posttranslational modification] 400668010188 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 400668010189 ATP binding site [chemical binding]; other site 400668010190 Mg2+ binding site [ion binding]; other site 400668010191 G-X-G motif; other site 400668010192 Response regulator receiver domain; Region: Response_reg; pfam00072 400668010193 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 400668010194 active site 400668010195 phosphorylation site [posttranslational modification] 400668010196 intermolecular recognition site; other site 400668010197 dimerization interface [polypeptide binding]; other site 400668010198 Response regulator receiver domain; Region: Response_reg; pfam00072 400668010199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668010200 active site 400668010201 phosphorylation site [posttranslational modification] 400668010202 intermolecular recognition site; other site 400668010203 dimerization interface [polypeptide binding]; other site 400668010204 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 400668010205 putative binding surface; other site 400668010206 active site 400668010207 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 400668010208 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 400668010209 putative ligand binding site [chemical binding]; other site 400668010210 putative NAD binding site [chemical binding]; other site 400668010211 catalytic site [active] 400668010212 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668010213 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 400668010214 active site 400668010215 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 400668010216 active site 400668010217 NTP binding site [chemical binding]; other site 400668010218 metal binding triad [ion binding]; metal-binding site 400668010219 antibiotic binding site [chemical binding]; other site 400668010220 Uncharacterized conserved protein [Function unknown]; Region: COG2361 400668010221 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 400668010222 FeS/SAM binding site; other site 400668010223 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010224 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010225 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 400668010226 putative effector binding pocket; other site 400668010227 dimerization interface [polypeptide binding]; other site 400668010228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 400668010229 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 400668010230 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 400668010231 catalytic residues [active] 400668010232 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 400668010233 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 400668010234 dimer interface [polypeptide binding]; other site 400668010235 active site 400668010236 Muconolactone delta-isomerase; Region: MIase; pfam02426 400668010237 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 400668010238 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 400668010239 metal binding site [ion binding]; metal-binding site 400668010240 substrate binding pocket [chemical binding]; other site 400668010241 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010242 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668010243 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 400668010244 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010245 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 400668010246 dimerizarion interface [polypeptide binding]; other site 400668010247 CrgA pocket; other site 400668010248 substrate binding pocket [chemical binding]; other site 400668010249 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 400668010250 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 400668010251 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668010252 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 400668010253 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 400668010254 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 400668010255 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 400668010256 dimer interface [polypeptide binding]; other site 400668010257 active site 400668010258 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 400668010259 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 400668010260 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 400668010261 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 400668010262 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 400668010263 putative acyltransferase; Provisional; Region: PRK05790 400668010264 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 400668010265 dimer interface [polypeptide binding]; other site 400668010266 active site 400668010267 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 400668010268 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 400668010269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010271 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 400668010272 putative dimerization interface [polypeptide binding]; other site 400668010273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010275 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 400668010276 putative substrate binding pocket [chemical binding]; other site 400668010277 putative dimerization interface [polypeptide binding]; other site 400668010278 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 400668010279 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 400668010280 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 400668010281 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 400668010282 NAD binding site [chemical binding]; other site 400668010283 catalytic Zn binding site [ion binding]; other site 400668010284 structural Zn binding site [ion binding]; other site 400668010285 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 400668010286 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 400668010287 Surface antigen; Region: Bac_surface_Ag; pfam01103 400668010288 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 400668010289 haemagglutination activity domain; Region: Haemagg_act; smart00912 400668010290 Uncharacterized conserved protein [Function unknown]; Region: COG0062 400668010291 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 400668010292 putative substrate binding site [chemical binding]; other site 400668010293 putative ATP binding site [chemical binding]; other site 400668010294 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 400668010295 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 400668010296 putative ligand binding site [chemical binding]; other site 400668010297 NAD binding site [chemical binding]; other site 400668010298 dimerization interface [polypeptide binding]; other site 400668010299 catalytic site [active] 400668010300 hypothetical protein; Provisional; Region: PRK05965 400668010301 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 400668010302 inhibitor-cofactor binding pocket; inhibition site 400668010303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668010304 catalytic residue [active] 400668010305 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668010306 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 400668010307 putative DNA binding site [nucleotide binding]; other site 400668010308 putative Zn2+ binding site [ion binding]; other site 400668010309 AsnC family; Region: AsnC_trans_reg; pfam01037 400668010310 succinic semialdehyde dehydrogenase; Region: PLN02278 400668010311 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668010312 tetramerization interface [polypeptide binding]; other site 400668010313 NAD(P) binding site [chemical binding]; other site 400668010314 catalytic residues [active] 400668010315 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 400668010316 putative active site [active] 400668010317 Zn binding site [ion binding]; other site 400668010318 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668010319 hydroxyglutarate oxidase; Provisional; Region: PRK11728 400668010320 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668010321 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668010322 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 400668010323 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668010324 Walker A/P-loop; other site 400668010325 ATP binding site [chemical binding]; other site 400668010326 Q-loop/lid; other site 400668010327 ABC transporter signature motif; other site 400668010328 Walker B; other site 400668010329 D-loop; other site 400668010330 H-loop/switch region; other site 400668010331 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668010332 Walker A/P-loop; other site 400668010333 ATP binding site [chemical binding]; other site 400668010334 Q-loop/lid; other site 400668010335 ABC transporter signature motif; other site 400668010336 Walker B; other site 400668010337 D-loop; other site 400668010338 H-loop/switch region; other site 400668010339 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 400668010340 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 400668010341 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 400668010342 dimer interface [polypeptide binding]; other site 400668010343 conserved gate region; other site 400668010344 ABC-ATPase subunit interface; other site 400668010345 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668010346 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 400668010347 dimer interface [polypeptide binding]; other site 400668010348 conserved gate region; other site 400668010349 putative PBP binding loops; other site 400668010350 ABC-ATPase subunit interface; other site 400668010351 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668010352 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_17; cd08503 400668010353 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668010354 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668010355 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 400668010356 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 400668010357 motif II; other site 400668010358 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400668010359 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668010360 NAD(P) binding site [chemical binding]; other site 400668010361 catalytic residues [active] 400668010362 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 400668010363 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668010364 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668010365 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400668010366 Coenzyme A binding pocket [chemical binding]; other site 400668010367 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 400668010368 tartrate dehydrogenase; Region: TTC; TIGR02089 400668010369 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 400668010370 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 400668010371 tetramer interface [polypeptide binding]; other site 400668010372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668010373 catalytic residue [active] 400668010374 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 400668010375 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 400668010376 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 400668010377 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 400668010378 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 400668010379 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010380 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010381 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 400668010382 dimerization interface [polypeptide binding]; other site 400668010383 aldolase II superfamily protein; Provisional; Region: PRK07044 400668010384 intersubunit interface [polypeptide binding]; other site 400668010385 active site 400668010386 Zn2+ binding site [ion binding]; other site 400668010387 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010388 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668010389 DctM-like transporters; Region: DctM; pfam06808 400668010390 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668010391 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668010392 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 400668010393 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 400668010394 substrate binding site [chemical binding]; other site 400668010395 dimer interface [polypeptide binding]; other site 400668010396 NADP binding site [chemical binding]; other site 400668010397 catalytic residues [active] 400668010398 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 400668010399 substrate binding site [chemical binding]; other site 400668010400 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 400668010401 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 400668010402 FAD binding pocket [chemical binding]; other site 400668010403 FAD binding motif [chemical binding]; other site 400668010404 phosphate binding motif [ion binding]; other site 400668010405 beta-alpha-beta structure motif; other site 400668010406 NAD(p) ribose binding residues [chemical binding]; other site 400668010407 NAD binding pocket [chemical binding]; other site 400668010408 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 400668010409 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 400668010410 catalytic loop [active] 400668010411 iron binding site [ion binding]; other site 400668010412 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 400668010413 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 400668010414 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 400668010415 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 400668010416 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 400668010417 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 400668010418 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668010419 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 400668010420 acyl-activating enzyme (AAE) consensus motif; other site 400668010421 AMP binding site [chemical binding]; other site 400668010422 active site 400668010423 CoA binding site [chemical binding]; other site 400668010424 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 400668010425 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 400668010426 dimer interface [polypeptide binding]; other site 400668010427 active site 400668010428 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 400668010429 CoenzymeA binding site [chemical binding]; other site 400668010430 subunit interaction site [polypeptide binding]; other site 400668010431 PHB binding site; other site 400668010432 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 400668010433 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400668010434 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400668010435 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 400668010436 enoyl-CoA hydratase; Provisional; Region: PRK08140 400668010437 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 400668010438 substrate binding site [chemical binding]; other site 400668010439 oxyanion hole (OAH) forming residues; other site 400668010440 trimer interface [polypeptide binding]; other site 400668010441 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 400668010442 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 400668010443 substrate binding site [chemical binding]; other site 400668010444 oxyanion hole (OAH) forming residues; other site 400668010445 trimer interface [polypeptide binding]; other site 400668010446 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 400668010447 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 400668010448 putative trimer interface [polypeptide binding]; other site 400668010449 putative metal binding site [ion binding]; other site 400668010450 PaaX-like protein; Region: PaaX; pfam07848 400668010451 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 400668010452 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 400668010453 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 400668010454 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668010455 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 400668010456 Walker A/P-loop; other site 400668010457 ATP binding site [chemical binding]; other site 400668010458 Q-loop/lid; other site 400668010459 ABC transporter signature motif; other site 400668010460 Walker B; other site 400668010461 D-loop; other site 400668010462 H-loop/switch region; other site 400668010463 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668010464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668010465 DNA binding site [nucleotide binding] 400668010466 domain linker motif; other site 400668010467 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 400668010468 dimerization interface [polypeptide binding]; other site 400668010469 ligand binding site [chemical binding]; other site 400668010470 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 400668010471 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 400668010472 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668010473 substrate binding site [chemical binding]; other site 400668010474 ATP binding site [chemical binding]; other site 400668010475 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668010476 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 400668010477 TM-ABC transporter signature motif; other site 400668010478 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668010479 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668010480 Walker A/P-loop; other site 400668010481 ATP binding site [chemical binding]; other site 400668010482 Q-loop/lid; other site 400668010483 ABC transporter signature motif; other site 400668010484 Walker B; other site 400668010485 D-loop; other site 400668010486 H-loop/switch region; other site 400668010487 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668010488 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668010489 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_12; cd06322 400668010490 putative ligand binding site [chemical binding]; other site 400668010491 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668010492 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 400668010493 active site 400668010494 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 400668010495 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 400668010496 triosephosphate isomerase; Provisional; Region: PRK14565 400668010497 substrate binding site [chemical binding]; other site 400668010498 dimer interface [polypeptide binding]; other site 400668010499 catalytic triad [active] 400668010500 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 400668010501 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 400668010502 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668010503 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 400668010504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668010505 DNA-binding site [nucleotide binding]; DNA binding site 400668010506 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668010507 DctM-like transporters; Region: DctM; pfam06808 400668010508 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668010509 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668010510 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010511 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668010512 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 400668010513 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 400668010514 ribulose bisphosphate carboxylase, type III; Region: rubisco_III; TIGR03326 400668010515 dimer interface [polypeptide binding]; other site 400668010516 active site 400668010517 catalytic residue [active] 400668010518 metal binding site [ion binding]; metal-binding site 400668010519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 400668010520 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 400668010521 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 400668010522 E3 interaction surface; other site 400668010523 lipoyl attachment site [posttranslational modification]; other site 400668010524 e3 binding domain; Region: E3_binding; pfam02817 400668010525 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 400668010526 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 400668010527 TPP-binding site [chemical binding]; other site 400668010528 tetramer interface [polypeptide binding]; other site 400668010529 heterodimer interface [polypeptide binding]; other site 400668010530 phosphorylation loop region [posttranslational modification] 400668010531 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 400668010532 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 400668010533 alpha subunit interface [polypeptide binding]; other site 400668010534 TPP binding site [chemical binding]; other site 400668010535 heterodimer interface [polypeptide binding]; other site 400668010536 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400668010537 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668010538 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 400668010539 putative DNA binding site [nucleotide binding]; other site 400668010540 putative Zn2+ binding site [ion binding]; other site 400668010541 AsnC family; Region: AsnC_trans_reg; pfam01037 400668010542 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 400668010543 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 400668010544 Ligand binding site; other site 400668010545 DXD motif; other site 400668010546 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 400668010547 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 400668010548 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 400668010549 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010550 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010551 phenol 2-monooxygenase; Provisional; Region: PRK08294 400668010552 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668010553 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 400668010554 dimer interface [polypeptide binding]; other site 400668010555 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 400668010556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668010557 Coenzyme A binding pocket [chemical binding]; other site 400668010558 Predicted amidohydrolase [General function prediction only]; Region: COG0388 400668010559 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 400668010560 putative active site [active] 400668010561 catalytic triad [active] 400668010562 putative dimer interface [polypeptide binding]; other site 400668010563 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 400668010564 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668010565 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668010566 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 400668010567 NAD(P) binding site [chemical binding]; other site 400668010568 catalytic residues [active] 400668010569 choline dehydrogenase; Validated; Region: PRK02106 400668010570 TrkA-N domain; Region: TrkA_N; pfam02254 400668010571 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 400668010572 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 400668010573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668010574 NAD(P) binding site [chemical binding]; other site 400668010575 active site 400668010576 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 400668010577 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668010578 Cupin domain; Region: Cupin_2; pfam07883 400668010579 hypothetical protein; Provisional; Region: PRK06847 400668010580 hypothetical protein; Provisional; Region: PRK07236 400668010581 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 400668010582 iron-sulfur cluster [ion binding]; other site 400668010583 [2Fe-2S] cluster binding site [ion binding]; other site 400668010584 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 400668010585 Protein export membrane protein; Region: SecD_SecF; cl14618 400668010586 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 400668010587 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 400668010588 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 400668010589 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668010590 putative active site [active] 400668010591 putative metal binding site [ion binding]; other site 400668010592 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 400668010593 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 400668010594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010596 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 400668010597 putative substrate binding pocket [chemical binding]; other site 400668010598 putative dimerization interface [polypeptide binding]; other site 400668010599 Putative cyclase; Region: Cyclase; pfam04199 400668010600 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 400668010601 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 400668010602 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 400668010603 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 400668010604 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 400668010605 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 400668010606 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668010607 DNA-binding site [nucleotide binding]; DNA binding site 400668010608 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 400668010609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668010610 homodimer interface [polypeptide binding]; other site 400668010611 catalytic residue [active] 400668010612 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 400668010613 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 400668010614 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400668010615 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 400668010616 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 400668010617 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 400668010618 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 400668010619 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 400668010620 Ligand binding site [chemical binding]; other site 400668010621 Electron transfer flavoprotein domain; Region: ETF; pfam01012 400668010622 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 400668010623 FAD binding domain; Region: FAD_binding_4; pfam01565 400668010624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 400668010625 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668010626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668010627 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 400668010628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 400668010629 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668010630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668010631 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 400668010632 homotrimer interaction site [polypeptide binding]; other site 400668010633 putative active site [active] 400668010634 ornithine cyclodeaminase; Validated; Region: PRK06199 400668010635 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 400668010636 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 400668010637 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400668010638 putative active site [active] 400668010639 putative metal binding site [ion binding]; other site 400668010640 DctM-like transporters; Region: DctM; pfam06808 400668010641 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668010642 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668010643 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668010644 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668010645 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 400668010646 putative substrate binding pocket [chemical binding]; other site 400668010647 trimer interface [polypeptide binding]; other site 400668010648 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 400668010649 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 400668010650 NAD binding site [chemical binding]; other site 400668010651 catalytic residues [active] 400668010652 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668010653 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 400668010654 DNA binding residues [nucleotide binding] 400668010655 dimerization interface [polypeptide binding]; other site 400668010656 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 400668010657 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 400668010658 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 400668010659 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668010660 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 400668010661 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 400668010662 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 400668010663 Cupin domain; Region: Cupin_2; cl17218 400668010664 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668010665 Domain of unknown function (DUF336); Region: DUF336; pfam03928 400668010666 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 400668010667 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 400668010668 putative substrate translocation pore; other site 400668010669 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 400668010670 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 400668010671 Ligand Binding Site [chemical binding]; other site 400668010672 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668010673 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 400668010674 NAD(P) binding site [chemical binding]; other site 400668010675 catalytic residues [active] 400668010676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668010677 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 400668010678 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 400668010679 Flavin binding site [chemical binding]; other site 400668010680 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 400668010681 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668010682 putative transporter; Provisional; Region: PRK11043 400668010683 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 400668010684 putative substrate translocation pore; other site 400668010685 MarR family; Region: MarR_2; cl17246 400668010686 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 400668010687 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 400668010688 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 400668010689 succinic semialdehyde dehydrogenase; Region: PLN02278 400668010690 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668010691 tetramerization interface [polypeptide binding]; other site 400668010692 NAD(P) binding site [chemical binding]; other site 400668010693 catalytic residues [active] 400668010694 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668010695 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 400668010696 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 400668010697 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668010698 putative substrate translocation pore; other site 400668010699 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 400668010700 Amidase; Region: Amidase; pfam01425 400668010701 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 400668010702 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 400668010703 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 400668010704 HsdM N-terminal domain; Region: HsdM_N; pfam12161 400668010705 Methyltransferase domain; Region: Methyltransf_26; pfam13659 400668010706 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 400668010707 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 400668010708 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 400668010709 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 400668010710 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 400668010711 ATP binding site [chemical binding]; other site 400668010712 putative Mg++ binding site [ion binding]; other site 400668010713 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 400668010714 nucleotide binding region [chemical binding]; other site 400668010715 ATP-binding site [chemical binding]; other site 400668010716 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 400668010717 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 400668010718 Walker A motif; other site 400668010719 ATP binding site [chemical binding]; other site 400668010720 Walker B motif; other site 400668010721 arginine finger; other site 400668010722 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668010723 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 400668010724 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 400668010725 putative amidase; Provisional; Region: PRK06169 400668010726 Amidase; Region: Amidase; pfam01425 400668010727 allantoate amidohydrolase; Reviewed; Region: PRK12893 400668010728 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 400668010729 active site 400668010730 metal binding site [ion binding]; metal-binding site 400668010731 dimer interface [polypeptide binding]; other site 400668010732 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 400668010733 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 400668010734 Walker A/P-loop; other site 400668010735 ATP binding site [chemical binding]; other site 400668010736 Q-loop/lid; other site 400668010737 ABC transporter signature motif; other site 400668010738 Walker B; other site 400668010739 D-loop; other site 400668010740 H-loop/switch region; other site 400668010741 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 400668010742 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 400668010743 Walker A/P-loop; other site 400668010744 ATP binding site [chemical binding]; other site 400668010745 Q-loop/lid; other site 400668010746 ABC transporter signature motif; other site 400668010747 Walker B; other site 400668010748 D-loop; other site 400668010749 H-loop/switch region; other site 400668010750 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 400668010751 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 400668010752 TM-ABC transporter signature motif; other site 400668010753 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668010754 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 400668010755 TM-ABC transporter signature motif; other site 400668010756 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 400668010757 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 400668010758 putative ligand binding site [chemical binding]; other site 400668010759 Transcriptional regulators [Transcription]; Region: FadR; COG2186 400668010760 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668010761 DNA-binding site [nucleotide binding]; DNA binding site 400668010762 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 400668010763 Sporulation related domain; Region: SPOR; pfam05036 400668010764 excinuclease ABC subunit B; Provisional; Region: PRK05298 400668010765 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 400668010766 ATP binding site [chemical binding]; other site 400668010767 putative Mg++ binding site [ion binding]; other site 400668010768 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 400668010769 nucleotide binding region [chemical binding]; other site 400668010770 ATP-binding site [chemical binding]; other site 400668010771 Ultra-violet resistance protein B; Region: UvrB; pfam12344 400668010772 UvrB/uvrC motif; Region: UVR; pfam02151 400668010773 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 400668010774 high affinity sulphate transporter 1; Region: sulP; TIGR00815 400668010775 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400668010776 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 400668010777 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 400668010778 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 400668010779 active site 400668010780 dimer interface [polypeptide binding]; other site 400668010781 tetratricopeptide repeat protein; Provisional; Region: PRK11788 400668010782 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 400668010783 binding surface 400668010784 TPR motif; other site 400668010785 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 400668010786 binding surface 400668010787 TPR motif; other site 400668010788 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 400668010789 iron binding site [ion binding]; other site 400668010790 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 400668010791 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 400668010792 IHF dimer interface [polypeptide binding]; other site 400668010793 IHF - DNA interface [nucleotide binding]; other site 400668010794 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 400668010795 dimer interface [polypeptide binding]; other site 400668010796 substrate binding site [chemical binding]; other site 400668010797 metal binding sites [ion binding]; metal-binding site 400668010798 thioredoxin reductase; Provisional; Region: PRK10262 400668010799 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668010800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 400668010801 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 400668010802 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 400668010803 ATP binding site [chemical binding]; other site 400668010804 substrate interface [chemical binding]; other site 400668010805 inosine/guanosine kinase; Provisional; Region: PRK15074 400668010806 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668010807 substrate binding site [chemical binding]; other site 400668010808 ATP binding site [chemical binding]; other site 400668010809 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 400668010810 putative CheA interaction surface; other site 400668010811 Tim44-like domain; Region: Tim44; pfam04280 400668010812 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 400668010813 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 400668010814 active site 400668010815 HIGH motif; other site 400668010816 dimer interface [polypeptide binding]; other site 400668010817 KMSKS motif; other site 400668010818 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 400668010819 AAA domain; Region: AAA_30; pfam13604 400668010820 Family description; Region: UvrD_C_2; pfam13538 400668010821 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 400668010822 Family description; Region: UvrD_C_2; pfam13538 400668010823 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 400668010824 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 400668010825 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 400668010826 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 400668010827 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 400668010828 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 400668010829 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 400668010830 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 400668010831 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 400668010832 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 400668010833 GIY-YIG motif/motif A; other site 400668010834 active site 400668010835 catalytic site [active] 400668010836 putative DNA binding site [nucleotide binding]; other site 400668010837 metal binding site [ion binding]; metal-binding site 400668010838 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 400668010839 response regulator; Provisional; Region: PRK09483 400668010840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668010841 active site 400668010842 phosphorylation site [posttranslational modification] 400668010843 intermolecular recognition site; other site 400668010844 dimerization interface [polypeptide binding]; other site 400668010845 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 400668010846 DNA binding residues [nucleotide binding] 400668010847 dimerization interface [polypeptide binding]; other site 400668010848 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 400668010849 30S subunit binding site; other site 400668010850 YccA-like proteins; Region: YccA_like; cd10433 400668010851 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 400668010852 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 400668010853 DsrE/DsrF-like family; Region: DrsE; cl00672 400668010854 DsrH like protein; Region: DsrH; cl17347 400668010855 DsrC like protein; Region: DsrC; pfam04358 400668010856 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 400668010857 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 400668010858 active site 400668010859 SAM binding site [chemical binding]; other site 400668010860 homodimer interface [polypeptide binding]; other site 400668010861 seryl-tRNA synthetase; Provisional; Region: PRK05431 400668010862 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 400668010863 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 400668010864 dimer interface [polypeptide binding]; other site 400668010865 active site 400668010866 motif 1; other site 400668010867 motif 2; other site 400668010868 motif 3; other site 400668010869 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 400668010870 recombination factor protein RarA; Reviewed; Region: PRK13342 400668010871 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 400668010872 Walker A motif; other site 400668010873 ATP binding site [chemical binding]; other site 400668010874 Walker B motif; other site 400668010875 arginine finger; other site 400668010876 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 400668010877 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 400668010878 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 400668010879 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 400668010880 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 400668010881 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 400668010882 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 400668010883 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 400668010884 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 400668010885 rRNA binding site [nucleotide binding]; other site 400668010886 predicted 30S ribosome binding site; other site 400668010887 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 400668010888 Clp amino terminal domain; Region: Clp_N; pfam02861 400668010889 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 400668010890 Walker A motif; other site 400668010891 ATP binding site [chemical binding]; other site 400668010892 Walker B motif; other site 400668010893 arginine finger; other site 400668010894 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 400668010895 Walker A motif; other site 400668010896 ATP binding site [chemical binding]; other site 400668010897 Walker B motif; other site 400668010898 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 400668010899 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 400668010900 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668010901 DNA-binding site [nucleotide binding]; DNA binding site 400668010902 RNA-binding motif; other site 400668010903 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 400668010904 nudix motif; other site 400668010905 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 400668010906 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 400668010907 putative lysogenization regulator; Reviewed; Region: PRK00218 400668010908 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 400668010909 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 400668010910 adenylosuccinate lyase; Provisional; Region: PRK09285 400668010911 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 400668010912 tetramer interface [polypeptide binding]; other site 400668010913 active site 400668010914 Cupin superfamily protein; Region: Cupin_4; pfam08007 400668010915 Cupin-like domain; Region: Cupin_8; pfam13621 400668010916 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 400668010917 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668010918 Coenzyme A binding pocket [chemical binding]; other site 400668010919 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668010920 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668010921 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 400668010922 dimerization interface [polypeptide binding]; other site 400668010923 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 400668010924 NAD(P) binding site [chemical binding]; other site 400668010925 catalytic residues [active] 400668010926 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 400668010927 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 400668010928 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668010929 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 400668010930 Ligand Binding Site [chemical binding]; other site 400668010931 DNA topoisomerase III; Provisional; Region: PRK07726 400668010932 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 400668010933 active site 400668010934 putative interdomain interaction site [polypeptide binding]; other site 400668010935 putative metal-binding site [ion binding]; other site 400668010936 putative nucleotide binding site [chemical binding]; other site 400668010937 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 400668010938 DNA binding groove [nucleotide binding] 400668010939 domain I; other site 400668010940 phosphate binding site [ion binding]; other site 400668010941 domain II; other site 400668010942 domain III; other site 400668010943 nucleotide binding site [chemical binding]; other site 400668010944 catalytic site [active] 400668010945 domain IV; other site 400668010946 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668010947 Phosphate transporter family; Region: PHO4; pfam01384 400668010948 Phosphate transporter family; Region: PHO4; pfam01384 400668010949 Phosphate transporter family; Region: PHO4; cl00396 400668010950 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 400668010951 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 400668010952 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 400668010953 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400668010954 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668010955 NAD(P) binding site [chemical binding]; other site 400668010956 catalytic residues [active] 400668010957 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668010958 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668010959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668010960 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 400668010961 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668010962 putative substrate translocation pore; other site 400668010963 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 400668010964 H+ Antiporter protein; Region: 2A0121; TIGR00900 400668010965 putative substrate translocation pore; other site 400668010966 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 400668010967 active site 400668010968 dihydromonapterin reductase; Provisional; Region: PRK06483 400668010969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668010970 NAD(P) binding site [chemical binding]; other site 400668010971 active site 400668010972 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 400668010973 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 400668010974 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 400668010975 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 400668010976 active site 400668010977 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 400668010978 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 400668010979 dimerization interface [polypeptide binding]; other site 400668010980 substrate binding site [chemical binding]; other site 400668010981 active site 400668010982 calcium binding site [ion binding]; other site 400668010983 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 400668010984 putative substrate binding pocket [chemical binding]; other site 400668010985 trimer interface [polypeptide binding]; other site 400668010986 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 400668010987 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 400668010988 putative ligand binding site [chemical binding]; other site 400668010989 NAD binding site [chemical binding]; other site 400668010990 dimerization interface [polypeptide binding]; other site 400668010991 catalytic site [active] 400668010992 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668010993 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_18; cd08357 400668010994 putative metal binding site [ion binding]; other site 400668010995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668010996 dimer interface [polypeptide binding]; other site 400668010997 putative CheW interface [polypeptide binding]; other site 400668010998 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 400668010999 anti sigma factor interaction site; other site 400668011000 regulatory phosphorylation site [posttranslational modification]; other site 400668011001 Response regulator receiver domain; Region: Response_reg; pfam00072 400668011002 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011003 active site 400668011004 phosphorylation site [posttranslational modification] 400668011005 intermolecular recognition site; other site 400668011006 dimerization interface [polypeptide binding]; other site 400668011007 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 400668011008 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 400668011009 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668011010 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011011 active site 400668011012 phosphorylation site [posttranslational modification] 400668011013 intermolecular recognition site; other site 400668011014 dimerization interface [polypeptide binding]; other site 400668011015 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 400668011016 putative binding surface; other site 400668011017 active site 400668011018 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 400668011019 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 400668011020 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 400668011021 ATP binding site [chemical binding]; other site 400668011022 Mg2+ binding site [ion binding]; other site 400668011023 G-X-G motif; other site 400668011024 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 400668011025 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 400668011026 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 400668011027 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400668011028 putative active site [active] 400668011029 heme pocket [chemical binding]; other site 400668011030 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 400668011031 putative active site [active] 400668011032 heme pocket [chemical binding]; other site 400668011033 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668011034 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011035 dimer interface [polypeptide binding]; other site 400668011036 putative CheW interface [polypeptide binding]; other site 400668011037 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 400668011038 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 400668011039 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 400668011040 S-adenosylmethionine binding site [chemical binding]; other site 400668011041 CheD chemotactic sensory transduction; Region: CheD; cl00810 400668011042 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 400668011043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011044 active site 400668011045 phosphorylation site [posttranslational modification] 400668011046 intermolecular recognition site; other site 400668011047 dimerization interface [polypeptide binding]; other site 400668011048 CheB methylesterase; Region: CheB_methylest; pfam01339 400668011049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668011050 Integrase core domain; Region: rve; pfam00665 400668011051 Integrase core domain; Region: rve_3; pfam13683 400668011052 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668011053 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 400668011054 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 400668011055 active site 400668011056 FMN binding site [chemical binding]; other site 400668011057 substrate binding site [chemical binding]; other site 400668011058 3Fe-4S cluster binding site [ion binding]; other site 400668011059 PAS domain S-box; Region: sensory_box; TIGR00229 400668011060 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 400668011061 putative active site [active] 400668011062 heme pocket [chemical binding]; other site 400668011063 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668011064 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668011065 metal binding site [ion binding]; metal-binding site 400668011066 active site 400668011067 I-site; other site 400668011068 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 400668011069 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 400668011070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 400668011071 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 400668011072 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668011073 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668011074 ABC transporter; Region: ABC_tran_2; pfam12848 400668011075 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668011076 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 400668011077 Domain of unknown function DUF21; Region: DUF21; pfam01595 400668011078 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 400668011079 Transporter associated domain; Region: CorC_HlyC; smart01091 400668011080 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 400668011081 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 400668011082 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 400668011083 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400668011084 catalytic residues [active] 400668011085 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 400668011086 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668011087 Flagellin N-methylase; Region: FliB; cl00497 400668011088 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 400668011089 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668011090 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 400668011091 dimerization interface [polypeptide binding]; other site 400668011092 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011093 dimer interface [polypeptide binding]; other site 400668011094 putative CheW interface [polypeptide binding]; other site 400668011095 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 400668011096 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 400668011097 dimerization interface [polypeptide binding]; other site 400668011098 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011099 dimer interface [polypeptide binding]; other site 400668011100 putative CheW interface [polypeptide binding]; other site 400668011101 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 400668011102 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 400668011103 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 400668011104 non-specific DNA binding site [nucleotide binding]; other site 400668011105 salt bridge; other site 400668011106 sequence-specific DNA binding site [nucleotide binding]; other site 400668011107 Haemolysin-III related; Region: HlyIII; cl03831 400668011108 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 400668011109 Amidohydrolase; Region: Amidohydro_2; pfam04909 400668011110 Bacitracin resistance protein BacA; Region: BacA; pfam02673 400668011111 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 400668011112 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 400668011113 DNA binding residues [nucleotide binding] 400668011114 dimer interface [polypeptide binding]; other site 400668011115 metal binding site [ion binding]; metal-binding site 400668011116 HAMP domain; Region: HAMP; pfam00672 400668011117 dimerization interface [polypeptide binding]; other site 400668011118 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668011119 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668011120 metal binding site [ion binding]; metal-binding site 400668011121 active site 400668011122 I-site; other site 400668011123 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 400668011124 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 400668011125 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 400668011126 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 400668011127 HSP70 interaction site [polypeptide binding]; other site 400668011128 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 400668011129 substrate binding site [polypeptide binding]; other site 400668011130 dimer interface [polypeptide binding]; other site 400668011131 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 400668011132 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 400668011133 DNA binding residues [nucleotide binding] 400668011134 dimerization interface [polypeptide binding]; other site 400668011135 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 400668011136 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 400668011137 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 400668011138 Carbon starvation protein CstA; Region: CstA; pfam02554 400668011139 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 400668011140 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 400668011141 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011142 active site 400668011143 phosphorylation site [posttranslational modification] 400668011144 intermolecular recognition site; other site 400668011145 dimerization interface [polypeptide binding]; other site 400668011146 LytTr DNA-binding domain; Region: LytTR; smart00850 400668011147 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 400668011148 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 400668011149 Histidine kinase; Region: His_kinase; pfam06580 400668011150 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 400668011151 ATP binding site [chemical binding]; other site 400668011152 Mg2+ binding site [ion binding]; other site 400668011153 G-X-G motif; other site 400668011154 YcaO domain protein; Region: TIGR03549 400668011155 OsmC-like protein; Region: OsmC; pfam02566 400668011156 YcaO-like family; Region: YcaO; pfam02624 400668011157 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 400668011158 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 400668011159 N-acetyl-D-glucosamine binding site [chemical binding]; other site 400668011160 catalytic residue [active] 400668011161 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 400668011162 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668011163 HAMP domain; Region: HAMP; pfam00672 400668011164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011165 dimer interface [polypeptide binding]; other site 400668011166 putative CheW interface [polypeptide binding]; other site 400668011167 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 400668011168 fructuronate transporter; Provisional; Region: PRK10034; cl15264 400668011169 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668011170 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 400668011171 putative active site [active] 400668011172 metal binding site [ion binding]; metal-binding site 400668011173 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 400668011174 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 400668011175 tetrameric interface [polypeptide binding]; other site 400668011176 NAD binding site [chemical binding]; other site 400668011177 catalytic residues [active] 400668011178 Transcriptional regulator [Transcription]; Region: IclR; COG1414 400668011179 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 400668011180 putative DNA binding site [nucleotide binding]; other site 400668011181 putative Zn2+ binding site [ion binding]; other site 400668011182 Bacterial transcriptional regulator; Region: IclR; pfam01614 400668011183 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 400668011184 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 400668011185 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668011186 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668011187 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 400668011188 RibD C-terminal domain; Region: RibD_C; cl17279 400668011189 MafB19-like deaminase; Region: MafB19-deam; pfam14437 400668011190 DNA/RNA non-specific endonuclease; Region: Endonuclea_NS_2; cl17626 400668011191 putative transposase OrfB; Reviewed; Region: PHA02517 400668011192 HTH-like domain; Region: HTH_21; pfam13276 400668011193 Integrase core domain; Region: rve; pfam00665 400668011194 Integrase core domain; Region: rve_3; pfam13683 400668011195 Transposase; Region: HTH_Tnp_1; pfam01527 400668011196 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668011197 Penicillin amidase; Region: Penicil_amidase; pfam01804 400668011198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 400668011199 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400668011200 Sel1-like repeats; Region: SEL1; smart00671 400668011201 Sel1-like repeats; Region: SEL1; smart00671 400668011202 Sel1-like repeats; Region: SEL1; smart00671 400668011203 Sel1-like repeats; Region: SEL1; smart00671 400668011204 Sel1-like repeats; Region: SEL1; smart00671 400668011205 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400668011206 Sel1-like repeats; Region: SEL1; smart00671 400668011207 Sel1-like repeats; Region: SEL1; smart00671 400668011208 Sel1-like repeats; Region: SEL1; smart00671 400668011209 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 400668011210 Sel1-like repeats; Region: SEL1; smart00671 400668011211 Sel1-like repeats; Region: SEL1; smart00671 400668011212 Sel1-like repeats; Region: SEL1; smart00671 400668011213 Sel1-like repeats; Region: SEL1; smart00671 400668011214 Sel1-like repeats; Region: SEL1; smart00671 400668011215 Sel1-like repeats; Region: SEL1; smart00671 400668011216 Sel1-like repeats; Region: SEL1; smart00671 400668011217 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 400668011218 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 400668011219 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 400668011220 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 400668011221 active site 400668011222 SAM binding site [chemical binding]; other site 400668011223 homodimer interface [polypeptide binding]; other site 400668011224 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 400668011225 active site 400668011226 putative homodimer interface [polypeptide binding]; other site 400668011227 SAM binding site [chemical binding]; other site 400668011228 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 400668011229 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 400668011230 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 400668011231 Precorrin-8X methylmutase; Region: CbiC; pfam02570 400668011232 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 400668011233 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 400668011234 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 400668011235 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 400668011236 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 400668011237 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 400668011238 catalytic triad [active] 400668011239 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 400668011240 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 400668011241 Walker A motif; other site 400668011242 ATP binding site [chemical binding]; other site 400668011243 Walker B motif; other site 400668011244 arginine finger; other site 400668011245 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 400668011246 metal ion-dependent adhesion site (MIDAS); other site 400668011247 PAS fold; Region: PAS_4; pfam08448 400668011248 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 400668011249 putative active site [active] 400668011250 heme pocket [chemical binding]; other site 400668011251 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 400668011252 PAS domain; Region: PAS_9; pfam13426 400668011253 putative active site [active] 400668011254 heme pocket [chemical binding]; other site 400668011255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668011256 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 400668011257 dimer interface [polypeptide binding]; other site 400668011258 phosphorylation site [posttranslational modification] 400668011259 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 400668011260 ATP binding site [chemical binding]; other site 400668011261 Mg2+ binding site [ion binding]; other site 400668011262 G-X-G motif; other site 400668011263 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668011264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011265 active site 400668011266 phosphorylation site [posttranslational modification] 400668011267 intermolecular recognition site; other site 400668011268 dimerization interface [polypeptide binding]; other site 400668011269 Response regulator receiver domain; Region: Response_reg; pfam00072 400668011270 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011271 active site 400668011272 phosphorylation site [posttranslational modification] 400668011273 intermolecular recognition site; other site 400668011274 dimerization interface [polypeptide binding]; other site 400668011275 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668011276 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668011277 metal binding site [ion binding]; metal-binding site 400668011278 active site 400668011279 I-site; other site 400668011280 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 400668011281 Uncharacterized conserved protein [Function unknown]; Region: COG1284 400668011282 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 400668011283 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 400668011284 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 400668011285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011286 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 400668011287 putative dimerization interface [polypeptide binding]; other site 400668011288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668011289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011290 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668011291 substrate binding pocket [chemical binding]; other site 400668011292 dimerization interface [polypeptide binding]; other site 400668011293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668011294 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_1; cd08352 400668011295 putative metal binding site [ion binding]; other site 400668011296 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 400668011297 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 400668011298 dimer interface [polypeptide binding]; other site 400668011299 decamer (pentamer of dimers) interface [polypeptide binding]; other site 400668011300 catalytic triad [active] 400668011301 peroxidatic and resolving cysteines [active] 400668011302 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 400668011303 putative GSH binding site [chemical binding]; other site 400668011304 catalytic residues [active] 400668011305 ornithine carbamoyltransferase; Provisional; Region: PRK00779 400668011306 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 400668011307 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 400668011308 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668011309 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011310 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 400668011311 putative dimerization interface [polypeptide binding]; other site 400668011312 sensor protein RstB; Provisional; Region: PRK10604 400668011313 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 400668011314 dimer interface [polypeptide binding]; other site 400668011315 phosphorylation site [posttranslational modification] 400668011316 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 400668011317 ATP binding site [chemical binding]; other site 400668011318 Mg2+ binding site [ion binding]; other site 400668011319 G-X-G motif; other site 400668011320 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 400668011321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011322 active site 400668011323 phosphorylation site [posttranslational modification] 400668011324 intermolecular recognition site; other site 400668011325 dimerization interface [polypeptide binding]; other site 400668011326 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 400668011327 DNA binding site [nucleotide binding] 400668011328 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 400668011329 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 400668011330 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 400668011331 RNA binding surface [nucleotide binding]; other site 400668011332 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 400668011333 probable active site [active] 400668011334 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 400668011335 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 400668011336 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 400668011337 active site 400668011338 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 400668011339 intracellular septation protein A; Reviewed; Region: PRK00259 400668011340 YciI-like protein; Reviewed; Region: PRK11370 400668011341 Rdx family; Region: Rdx; cl01407 400668011342 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 400668011343 substrate binding site [chemical binding]; other site 400668011344 Uncharacterized conserved protein [Function unknown]; Region: COG4121 400668011345 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 400668011346 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668011347 serine acetyltransferase; Provisional; Region: cysE; PRK11132 400668011348 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 400668011349 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 400668011350 trimer interface [polypeptide binding]; other site 400668011351 active site 400668011352 substrate binding site [chemical binding]; other site 400668011353 CoA binding site [chemical binding]; other site 400668011354 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 400668011355 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 400668011356 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 400668011357 nucleotide binding pocket [chemical binding]; other site 400668011358 K-X-D-G motif; other site 400668011359 catalytic site [active] 400668011360 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 400668011361 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 400668011362 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 400668011363 Dimer interface [polypeptide binding]; other site 400668011364 BRCT sequence motif; other site 400668011365 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 400668011366 FtsZ protein binding site [polypeptide binding]; other site 400668011367 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 400668011368 binding surface 400668011369 TPR repeat; Region: TPR_11; pfam13414 400668011370 TPR motif; other site 400668011371 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 400668011372 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 400668011373 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 400668011374 catalytic residues [active] 400668011375 central insert; other site 400668011376 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 400668011377 CcmE; Region: CcmE; pfam03100 400668011378 Heme exporter protein D (CcmD); Region: CcmD; cl11475 400668011379 heme exporter protein CcmC; Region: ccmC; TIGR01191 400668011380 heme exporter protein CcmB; Region: ccmB; TIGR01190 400668011381 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 400668011382 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668011383 Walker A/P-loop; other site 400668011384 ATP binding site [chemical binding]; other site 400668011385 Q-loop/lid; other site 400668011386 ABC transporter signature motif; other site 400668011387 Walker B; other site 400668011388 D-loop; other site 400668011389 H-loop/switch region; other site 400668011390 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 400668011391 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 400668011392 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 400668011393 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 400668011394 putative CheA interaction surface; other site 400668011395 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 400668011396 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400668011397 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 400668011398 P-loop; other site 400668011399 Magnesium ion binding site [ion binding]; other site 400668011400 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 400668011401 Magnesium ion binding site [ion binding]; other site 400668011402 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 400668011403 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 400668011404 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 400668011405 ligand binding site [chemical binding]; other site 400668011406 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 400668011407 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 400668011408 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 400668011409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011410 active site 400668011411 phosphorylation site [posttranslational modification] 400668011412 intermolecular recognition site; other site 400668011413 dimerization interface [polypeptide binding]; other site 400668011414 CheB methylesterase; Region: CheB_methylest; pfam01339 400668011415 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 400668011416 putative binding surface; other site 400668011417 active site 400668011418 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 400668011419 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 400668011420 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 400668011421 ATP binding site [chemical binding]; other site 400668011422 Mg2+ binding site [ion binding]; other site 400668011423 G-X-G motif; other site 400668011424 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 400668011425 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 400668011426 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 400668011427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011428 active site 400668011429 phosphorylation site [posttranslational modification] 400668011430 intermolecular recognition site; other site 400668011431 dimerization interface [polypeptide binding]; other site 400668011432 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 400668011433 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668011434 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 400668011435 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 400668011436 DNA binding residues [nucleotide binding] 400668011437 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 400668011438 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 400668011439 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 400668011440 FHIPEP family; Region: FHIPEP; pfam00771 400668011441 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 400668011442 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 400668011443 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 400668011444 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 400668011445 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 400668011446 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 400668011447 flagellar motor switch protein; Validated; Region: fliN; PRK05698 400668011448 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 400668011449 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 400668011450 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 400668011451 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 400668011452 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 400668011453 Response regulator receiver domain; Region: Response_reg; pfam00072 400668011454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011455 active site 400668011456 phosphorylation site [posttranslational modification] 400668011457 intermolecular recognition site; other site 400668011458 dimerization interface [polypeptide binding]; other site 400668011459 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 400668011460 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 400668011461 anti sigma factor interaction site; other site 400668011462 regulatory phosphorylation site [posttranslational modification]; other site 400668011463 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 400668011464 Flagellar FliJ protein; Region: FliJ; pfam02050 400668011465 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 400668011466 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 400668011467 Walker A motif/ATP binding site; other site 400668011468 Walker B motif; other site 400668011469 flagellar assembly protein H; Validated; Region: fliH; PRK05687 400668011470 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 400668011471 Flagellar assembly protein FliH; Region: FliH; pfam02108 400668011472 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 400668011473 MgtE intracellular N domain; Region: MgtE_N; smart00924 400668011474 FliG C-terminal domain; Region: FliG_C; pfam01706 400668011475 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 400668011476 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 400668011477 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 400668011478 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 400668011479 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668011480 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668011481 active site 400668011482 phosphorylation site [posttranslational modification] 400668011483 intermolecular recognition site; other site 400668011484 dimerization interface [polypeptide binding]; other site 400668011485 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 400668011486 Walker A motif; other site 400668011487 ATP binding site [chemical binding]; other site 400668011488 Walker B motif; other site 400668011489 arginine finger; other site 400668011490 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668011491 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 400668011492 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 400668011493 dimer interface [polypeptide binding]; other site 400668011494 phosphorylation site [posttranslational modification] 400668011495 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 400668011496 ATP binding site [chemical binding]; other site 400668011497 G-X-G motif; other site 400668011498 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668011499 AAA domain; Region: AAA_26; pfam13500 400668011500 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 400668011501 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 400668011502 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 400668011503 S-adenosylmethionine binding site [chemical binding]; other site 400668011504 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 400668011505 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 400668011506 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 400668011507 substrate-cofactor binding pocket; other site 400668011508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668011509 catalytic residue [active] 400668011510 biotin synthase; Provisional; Region: PRK15108 400668011511 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 400668011512 FeS/SAM binding site; other site 400668011513 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 400668011514 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 400668011515 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668011516 active site 400668011517 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 400668011518 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 400668011519 inhibitor-cofactor binding pocket; inhibition site 400668011520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668011521 catalytic residue [active] 400668011522 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 400668011523 PAS fold; Region: PAS_3; pfam08447 400668011524 putative active site [active] 400668011525 heme pocket [chemical binding]; other site 400668011526 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011527 dimer interface [polypeptide binding]; other site 400668011528 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 400668011529 putative CheW interface [polypeptide binding]; other site 400668011530 replicative DNA helicase; Provisional; Region: PRK05748 400668011531 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 400668011532 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 400668011533 Walker A motif; other site 400668011534 ATP binding site [chemical binding]; other site 400668011535 Walker B motif; other site 400668011536 DNA binding loops [nucleotide binding] 400668011537 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 400668011538 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 400668011539 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 400668011540 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 400668011541 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 400668011542 MltA-interacting protein MipA; Region: MipA; cl01504 400668011543 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668011544 EamA-like transporter family; Region: EamA; pfam00892 400668011545 EamA-like transporter family; Region: EamA; pfam00892 400668011546 EamA-like transporter family; Region: EamA; pfam00892 400668011547 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 400668011548 EamA-like transporter family; Region: EamA; pfam00892 400668011549 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668011550 EamA-like transporter family; Region: EamA; pfam00892 400668011551 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 400668011552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668011553 Walker A/P-loop; other site 400668011554 ATP binding site [chemical binding]; other site 400668011555 Q-loop/lid; other site 400668011556 ABC transporter signature motif; other site 400668011557 Walker B; other site 400668011558 D-loop; other site 400668011559 H-loop/switch region; other site 400668011560 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 400668011561 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 400668011562 dimer interface [polypeptide binding]; other site 400668011563 conserved gate region; other site 400668011564 putative PBP binding loops; other site 400668011565 ABC-ATPase subunit interface; other site 400668011566 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 400668011567 dimer interface [polypeptide binding]; other site 400668011568 conserved gate region; other site 400668011569 putative PBP binding loops; other site 400668011570 ABC-ATPase subunit interface; other site 400668011571 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 400668011572 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 400668011573 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 400668011574 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 400668011575 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 400668011576 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668011577 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 400668011578 Walker A/P-loop; other site 400668011579 ATP binding site [chemical binding]; other site 400668011580 Q-loop/lid; other site 400668011581 ABC transporter signature motif; other site 400668011582 Walker B; other site 400668011583 D-loop; other site 400668011584 H-loop/switch region; other site 400668011585 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 400668011586 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 400668011587 putative ribose interaction site [chemical binding]; other site 400668011588 putative ADP binding site [chemical binding]; other site 400668011589 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 400668011590 active site 400668011591 nucleotide binding site [chemical binding]; other site 400668011592 HIGH motif; other site 400668011593 KMSKS motif; other site 400668011594 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 400668011595 dimerization interface [polypeptide binding]; other site 400668011596 putative active cleft [active] 400668011597 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 400668011598 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 400668011599 NADP binding site [chemical binding]; other site 400668011600 homopentamer interface [polypeptide binding]; other site 400668011601 substrate binding site [chemical binding]; other site 400668011602 active site 400668011603 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 400668011604 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 400668011605 putative active site [active] 400668011606 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 400668011607 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 400668011608 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 400668011609 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 400668011610 putative metal binding site; other site 400668011611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 400668011612 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 400668011613 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 400668011614 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 400668011615 Sulfatase; Region: Sulfatase; cl17466 400668011616 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 400668011617 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 400668011618 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 400668011619 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 400668011620 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 400668011621 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 400668011622 active site residue [active] 400668011623 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 400668011624 active site residue [active] 400668011625 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 400668011626 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 400668011627 RNA binding surface [nucleotide binding]; other site 400668011628 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 400668011629 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 400668011630 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 400668011631 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 400668011632 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 400668011633 Walker A motif; other site 400668011634 ATP binding site [chemical binding]; other site 400668011635 Walker B motif; other site 400668011636 arginine finger; other site 400668011637 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 400668011638 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668011639 active site 400668011640 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 400668011641 Integrase core domain; Region: rve; pfam00665 400668011642 Integrase core domain; Region: rve_3; pfam13683 400668011643 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 400668011644 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668011645 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 400668011646 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668011647 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 400668011648 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668011649 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668011650 metal binding site [ion binding]; metal-binding site 400668011651 active site 400668011652 I-site; other site 400668011653 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 400668011654 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 400668011655 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 400668011656 putative dimer interface [polypeptide binding]; other site 400668011657 N-terminal domain interface [polypeptide binding]; other site 400668011658 putative substrate binding pocket (H-site) [chemical binding]; other site 400668011659 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 400668011660 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 400668011661 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 400668011662 active site 400668011663 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668011664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011665 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 400668011666 putative effector binding pocket; other site 400668011667 dimerization interface [polypeptide binding]; other site 400668011668 YceI-like domain; Region: YceI; cl01001 400668011669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668011670 active site 400668011671 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 400668011672 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 400668011673 active site 400668011674 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 400668011675 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 400668011676 active site 400668011677 substrate-binding site [chemical binding]; other site 400668011678 metal-binding site [ion binding] 400668011679 ATP binding site [chemical binding]; other site 400668011680 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 400668011681 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 400668011682 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 400668011683 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 400668011684 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 400668011685 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668011686 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 400668011687 active site 400668011688 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668011689 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668011690 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668011691 hypothetical protein; Provisional; Region: PRK11239 400668011692 Protein of unknown function, DUF480; Region: DUF480; pfam04337 400668011693 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 400668011694 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 400668011695 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 400668011696 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 400668011697 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 400668011698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668011699 homodimer interface [polypeptide binding]; other site 400668011700 catalytic residue [active] 400668011701 transcriptional regulator BetI; Validated; Region: PRK00767 400668011702 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668011703 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 400668011704 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 400668011705 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 400668011706 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 400668011707 dimer interface [polypeptide binding]; other site 400668011708 conserved gate region; other site 400668011709 putative PBP binding loops; other site 400668011710 ABC-ATPase subunit interface; other site 400668011711 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 400668011712 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668011713 Walker A/P-loop; other site 400668011714 ATP binding site [chemical binding]; other site 400668011715 Q-loop/lid; other site 400668011716 ABC transporter signature motif; other site 400668011717 Walker B; other site 400668011718 D-loop; other site 400668011719 H-loop/switch region; other site 400668011720 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 400668011721 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 400668011722 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400668011723 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668011724 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668011725 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 400668011726 catalytic triad [active] 400668011727 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668011728 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 400668011729 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 400668011730 dimer interface [polypeptide binding]; other site 400668011731 conserved gate region; other site 400668011732 putative PBP binding loops; other site 400668011733 ABC-ATPase subunit interface; other site 400668011734 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668011735 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 400668011736 dimer interface [polypeptide binding]; other site 400668011737 conserved gate region; other site 400668011738 putative PBP binding loops; other site 400668011739 ABC-ATPase subunit interface; other site 400668011740 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668011741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668011742 Walker A/P-loop; other site 400668011743 ATP binding site [chemical binding]; other site 400668011744 Q-loop/lid; other site 400668011745 ABC transporter signature motif; other site 400668011746 Walker B; other site 400668011747 D-loop; other site 400668011748 H-loop/switch region; other site 400668011749 TOBE domain; Region: TOBE_2; pfam08402 400668011750 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 400668011751 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400668011752 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 400668011753 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 400668011754 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 400668011755 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 400668011756 DNA binding residues [nucleotide binding] 400668011757 dimerization interface [polypeptide binding]; other site 400668011758 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 400668011759 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668011760 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 400668011761 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 400668011762 NAD(P) binding site [chemical binding]; other site 400668011763 catalytic residues [active] 400668011764 putative MFS family transporter protein; Provisional; Region: PRK03633 400668011765 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 400668011766 putative substrate translocation pore; other site 400668011767 Lysine efflux permease [General function prediction only]; Region: COG1279 400668011768 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 400668011769 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011770 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 400668011771 dimerization interface [polypeptide binding]; other site 400668011772 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 400668011773 active site 400668011774 tetramer interface; other site 400668011775 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668011776 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 400668011777 TM-ABC transporter signature motif; other site 400668011778 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668011779 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 400668011780 TM-ABC transporter signature motif; other site 400668011781 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668011782 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668011783 Walker A/P-loop; other site 400668011784 ATP binding site [chemical binding]; other site 400668011785 Q-loop/lid; other site 400668011786 ABC transporter signature motif; other site 400668011787 Walker B; other site 400668011788 D-loop; other site 400668011789 H-loop/switch region; other site 400668011790 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668011791 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668011792 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 400668011793 putative ligand binding site [chemical binding]; other site 400668011794 Membrane transport protein; Region: Mem_trans; cl09117 400668011795 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668011796 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 400668011797 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 400668011798 putative dimerization interface [polypeptide binding]; other site 400668011799 Pirin-related protein [General function prediction only]; Region: COG1741 400668011800 Pirin; Region: Pirin; pfam02678 400668011801 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 400668011802 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 400668011803 FAD binding pocket [chemical binding]; other site 400668011804 FAD binding motif [chemical binding]; other site 400668011805 phosphate binding motif [ion binding]; other site 400668011806 NAD binding pocket [chemical binding]; other site 400668011807 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 400668011808 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 400668011809 KilA-N domain; Region: KilA-N; pfam04383 400668011810 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 400668011811 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 400668011812 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 400668011813 CT1975-like protein; Region: Cas_CT1975; pfam09344 400668011814 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 400668011815 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 400668011816 helicase Cas3; Provisional; Region: PRK09694 400668011817 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 400668011818 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 400668011819 WYL domain; Region: WYL; pfam13280 400668011820 Methyltransferase domain; Region: Methyltransf_32; pfam13679 400668011821 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 400668011822 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 400668011823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668011824 homodimer interface [polypeptide binding]; other site 400668011825 catalytic residue [active] 400668011826 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 400668011827 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 400668011828 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 400668011829 Mg2+ binding site [ion binding]; other site 400668011830 G-X-G motif; other site 400668011831 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 400668011832 anchoring element; other site 400668011833 dimer interface [polypeptide binding]; other site 400668011834 ATP binding site [chemical binding]; other site 400668011835 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 400668011836 active site 400668011837 metal binding site [ion binding]; metal-binding site 400668011838 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 400668011839 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 400668011840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 400668011841 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 400668011842 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668011843 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 400668011844 putative acyl-acceptor binding pocket; other site 400668011845 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 400668011846 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 400668011847 dimer interface [polypeptide binding]; other site 400668011848 ADP-ribose binding site [chemical binding]; other site 400668011849 active site 400668011850 nudix motif; other site 400668011851 metal binding site [ion binding]; metal-binding site 400668011852 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 400668011853 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 400668011854 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 400668011855 NAD(P) binding site [chemical binding]; other site 400668011856 homodimer interface [polypeptide binding]; other site 400668011857 substrate binding site [chemical binding]; other site 400668011858 active site 400668011859 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 400668011860 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 400668011861 inhibitor-cofactor binding pocket; inhibition site 400668011862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668011863 catalytic residue [active] 400668011864 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 400668011865 ligand binding site; other site 400668011866 tetramer interface; other site 400668011867 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 400668011868 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 400668011869 pseudaminic acid synthase; Region: PseI; TIGR03586 400668011870 NeuB family; Region: NeuB; pfam03102 400668011871 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 400668011872 NeuB binding interface [polypeptide binding]; other site 400668011873 putative substrate binding site [chemical binding]; other site 400668011874 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 400668011875 flagellar protein FliS; Validated; Region: fliS; PRK05685 400668011876 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 400668011877 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 400668011878 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 400668011879 FlaG protein; Region: FlaG; pfam03646 400668011880 flagellin; Provisional; Region: PRK12802 400668011881 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 400668011882 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 400668011883 flagellin; Provisional; Region: PRK12802 400668011884 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 400668011885 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 400668011886 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 400668011887 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668011888 Zn2+ binding site [ion binding]; other site 400668011889 Mg2+ binding site [ion binding]; other site 400668011890 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 400668011891 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 400668011892 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 400668011893 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 400668011894 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 400668011895 Rod binding protein; Region: Rod-binding; cl01626 400668011896 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 400668011897 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 400668011898 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 400668011899 Flagellar L-ring protein; Region: FlgH; pfam02107 400668011900 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 400668011901 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 400668011902 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 400668011903 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 400668011904 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 400668011905 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 400668011906 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 400668011907 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 400668011908 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 400668011909 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 400668011910 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 400668011911 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 400668011912 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 400668011913 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 400668011914 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 400668011915 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 400668011916 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 400668011917 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 400668011918 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 400668011919 catalytic residues [active] 400668011920 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 400668011921 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 400668011922 motif II; other site 400668011923 Protein of unknown function, DUF484; Region: DUF484; cl17449 400668011924 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 400668011925 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400668011926 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 400668011927 diaminopimelate decarboxylase; Region: lysA; TIGR01048 400668011928 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 400668011929 active site 400668011930 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668011931 substrate binding site [chemical binding]; other site 400668011932 catalytic residues [active] 400668011933 dimer interface [polypeptide binding]; other site 400668011934 argininosuccinate lyase; Provisional; Region: PRK00855 400668011935 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 400668011936 active sites [active] 400668011937 tetramer interface [polypeptide binding]; other site 400668011938 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 400668011939 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 400668011940 domain interfaces; other site 400668011941 active site 400668011942 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 400668011943 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 400668011944 active site 400668011945 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 400668011946 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 400668011947 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 400668011948 HemY protein N-terminus; Region: HemY_N; pfam07219 400668011949 PAS domain; Region: PAS_9; pfam13426 400668011950 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 400668011951 putative active site [active] 400668011952 heme pocket [chemical binding]; other site 400668011953 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668011954 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668011955 dimer interface [polypeptide binding]; other site 400668011956 putative CheW interface [polypeptide binding]; other site 400668011957 hypothetical protein; Validated; Region: PRK02101 400668011958 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 400668011959 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 400668011960 S-adenosylmethionine binding site [chemical binding]; other site 400668011961 peptide chain release factor 1; Validated; Region: prfA; PRK00591 400668011962 This domain is found in peptide chain release factors; Region: PCRF; smart00937 400668011963 RF-1 domain; Region: RF-1; pfam00472 400668011964 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 400668011965 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 400668011966 tRNA; other site 400668011967 putative tRNA binding site [nucleotide binding]; other site 400668011968 putative NADP binding site [chemical binding]; other site 400668011969 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 400668011970 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 400668011971 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 400668011972 TPR motif; other site 400668011973 binding surface 400668011974 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 400668011975 binding surface 400668011976 TPR motif; other site 400668011977 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 400668011978 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 400668011979 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 400668011980 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 400668011981 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 400668011982 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 400668011983 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 400668011984 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668011985 active site 400668011986 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 400668011987 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 400668011988 5S rRNA interface [nucleotide binding]; other site 400668011989 CTC domain interface [polypeptide binding]; other site 400668011990 L16 interface [polypeptide binding]; other site 400668011991 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 400668011992 putative active site [active] 400668011993 catalytic residue [active] 400668011994 GTP-binding protein YchF; Reviewed; Region: PRK09601 400668011995 YchF GTPase; Region: YchF; cd01900 400668011996 G1 box; other site 400668011997 GTP/Mg2+ binding site [chemical binding]; other site 400668011998 Switch I region; other site 400668011999 G2 box; other site 400668012000 Switch II region; other site 400668012001 G3 box; other site 400668012002 G4 box; other site 400668012003 G5 box; other site 400668012004 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 400668012005 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 400668012006 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 400668012007 Clp amino terminal domain; Region: Clp_N; pfam02861 400668012008 Clp amino terminal domain; Region: Clp_N; pfam02861 400668012009 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 400668012010 Walker A motif; other site 400668012011 ATP binding site [chemical binding]; other site 400668012012 Walker B motif; other site 400668012013 arginine finger; other site 400668012014 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 400668012015 Walker A motif; other site 400668012016 ATP binding site [chemical binding]; other site 400668012017 Walker B motif; other site 400668012018 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 400668012019 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 400668012020 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 400668012021 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 400668012022 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 400668012023 RNA binding surface [nucleotide binding]; other site 400668012024 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 400668012025 active site 400668012026 Outer membrane lipoprotein; Region: YfiO; pfam13525 400668012027 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 400668012028 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668012029 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 400668012030 putative N-terminal domain interface [polypeptide binding]; other site 400668012031 putative dimer interface [polypeptide binding]; other site 400668012032 putative substrate binding pocket (H-site) [chemical binding]; other site 400668012033 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668012034 DNA-binding site [nucleotide binding]; DNA binding site 400668012035 RNA-binding motif; other site 400668012036 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 400668012037 DTW domain; Region: DTW; cl01221 400668012038 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 400668012039 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668012040 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 400668012041 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 400668012042 Gram-negative porin; Region: Porin_4; pfam13609 400668012043 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 400668012044 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668012045 DNA-binding site [nucleotide binding]; DNA binding site 400668012046 RNA-binding motif; other site 400668012047 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 400668012048 oxaloacetate decarboxylase; Provisional; Region: PRK14040 400668012049 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 400668012050 active site 400668012051 catalytic residues [active] 400668012052 metal binding site [ion binding]; metal-binding site 400668012053 homodimer binding site [polypeptide binding]; other site 400668012054 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 400668012055 carboxyltransferase (CT) interaction site; other site 400668012056 biotinylation site [posttranslational modification]; other site 400668012057 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 400668012058 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 400668012059 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 400668012060 FMN binding site [chemical binding]; other site 400668012061 active site 400668012062 catalytic residues [active] 400668012063 substrate binding site [chemical binding]; other site 400668012064 carbon storage regulator; Provisional; Region: PRK01712 400668012065 aspartate kinase; Reviewed; Region: PRK06635 400668012066 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 400668012067 putative nucleotide binding site [chemical binding]; other site 400668012068 putative catalytic residues [active] 400668012069 putative Mg ion binding site [ion binding]; other site 400668012070 putative aspartate binding site [chemical binding]; other site 400668012071 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 400668012072 putative allosteric regulatory site; other site 400668012073 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 400668012074 putative allosteric regulatory residue; other site 400668012075 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 400668012076 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 400668012077 motif 1; other site 400668012078 active site 400668012079 motif 2; other site 400668012080 motif 3; other site 400668012081 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 400668012082 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 400668012083 DHHA1 domain; Region: DHHA1; pfam02272 400668012084 alanine racemase; Reviewed; Region: alr; PRK00053 400668012085 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 400668012086 active site 400668012087 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 400668012088 substrate binding site [chemical binding]; other site 400668012089 catalytic residues [active] 400668012090 dimer interface [polypeptide binding]; other site 400668012091 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 400668012092 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668012093 recombination regulator RecX; Reviewed; Region: recX; PRK00117 400668012094 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cl00250 400668012095 30S subunit binding site; other site 400668012096 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 400668012097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012098 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 400668012099 putative dimerization interface [polypeptide binding]; other site 400668012100 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 400668012101 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668012102 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 400668012103 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 400668012104 siderophore binding site; other site 400668012105 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 400668012106 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 400668012107 ABC-ATPase subunit interface; other site 400668012108 dimer interface [polypeptide binding]; other site 400668012109 putative PBP binding regions; other site 400668012110 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 400668012111 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 400668012112 ABC-ATPase subunit interface; other site 400668012113 dimer interface [polypeptide binding]; other site 400668012114 putative PBP binding regions; other site 400668012115 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 400668012116 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 400668012117 Walker A/P-loop; other site 400668012118 ATP binding site [chemical binding]; other site 400668012119 Q-loop/lid; other site 400668012120 ABC transporter signature motif; other site 400668012121 Walker B; other site 400668012122 D-loop; other site 400668012123 H-loop/switch region; other site 400668012124 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 400668012125 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 400668012126 N-terminal plug; other site 400668012127 ligand-binding site [chemical binding]; other site 400668012128 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 400668012129 active site 400668012130 putative metal dependent hydrolase; Provisional; Region: PRK11598 400668012131 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 400668012132 Sulfatase; Region: Sulfatase; pfam00884 400668012133 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 400668012134 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 400668012135 Catalytic domain of Protein Kinases; Region: PKc; cd00180 400668012136 active site 400668012137 ATP binding site [chemical binding]; other site 400668012138 substrate binding site [chemical binding]; other site 400668012139 activation loop (A-loop); other site 400668012140 ECF sigma factor; Region: Sigma70_ECF; pfam07638 400668012141 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 400668012142 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 400668012143 putative active site [active] 400668012144 putative NTP binding site [chemical binding]; other site 400668012145 putative nucleic acid binding site [nucleotide binding]; other site 400668012146 Uncharacterized conserved protein [Function unknown]; Region: COG1359 400668012147 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 400668012148 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 400668012149 Part of AAA domain; Region: AAA_19; pfam13245 400668012150 Family description; Region: UvrD_C_2; pfam13538 400668012151 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 400668012152 Sodium Bile acid symporter family; Region: SBF; pfam01758 400668012153 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 400668012154 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 400668012155 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 400668012156 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 400668012157 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 400668012158 Membrane fusogenic activity; Region: BMFP; pfam04380 400668012159 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 400668012160 Nitrogen regulatory protein P-II; Region: P-II; smart00938 400668012161 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 400668012162 Predicted amidohydrolase [General function prediction only]; Region: COG0388 400668012163 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 400668012164 putative active site [active] 400668012165 catalytic triad [active] 400668012166 putative dimer interface [polypeptide binding]; other site 400668012167 DNA repair protein RadA; Provisional; Region: PRK11823 400668012168 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 400668012169 Walker A motif/ATP binding site; other site 400668012170 ATP binding site [chemical binding]; other site 400668012171 Walker B motif; other site 400668012172 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 400668012173 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 400668012174 Predicted periplasmic protein [Function unknown]; Region: COG3904 400668012175 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 400668012176 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 400668012177 tetrameric interface [polypeptide binding]; other site 400668012178 NAD binding site [chemical binding]; other site 400668012179 catalytic residues [active] 400668012180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012182 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 400668012183 dimerization interface [polypeptide binding]; other site 400668012184 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 400668012185 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 400668012186 HlyD family secretion protein; Region: HlyD_3; pfam13437 400668012187 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 400668012188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012190 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668012191 substrate binding pocket [chemical binding]; other site 400668012192 dimerization interface [polypeptide binding]; other site 400668012193 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 400668012194 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 400668012195 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 400668012196 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 400668012197 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 400668012198 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 400668012199 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 400668012200 NAD(P) binding site [chemical binding]; other site 400668012201 catalytic residues [active] 400668012202 succinylarginine dihydrolase; Provisional; Region: PRK13281 400668012203 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 400668012204 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 400668012205 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 400668012206 active site 400668012207 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 400668012208 homotrimer interface [polypeptide binding]; other site 400668012209 Walker A motif; other site 400668012210 GTP binding site [chemical binding]; other site 400668012211 Walker B motif; other site 400668012212 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 400668012213 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 400668012214 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668012215 homodimer interface [polypeptide binding]; other site 400668012216 catalytic residue [active] 400668012217 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 400668012218 cobyric acid synthase; Provisional; Region: PRK00784 400668012219 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 400668012220 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 400668012221 catalytic triad [active] 400668012222 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 400668012223 S-formylglutathione hydrolase; Region: PLN02442 400668012224 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 400668012225 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 400668012226 substrate binding site [chemical binding]; other site 400668012227 catalytic Zn binding site [ion binding]; other site 400668012228 NAD binding site [chemical binding]; other site 400668012229 structural Zn binding site [ion binding]; other site 400668012230 dimer interface [polypeptide binding]; other site 400668012231 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012232 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012233 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 400668012234 dimerization interface [polypeptide binding]; other site 400668012235 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 400668012236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668012237 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668012238 Coenzyme A binding pocket [chemical binding]; other site 400668012239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 400668012240 Coenzyme A binding pocket [chemical binding]; other site 400668012241 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 400668012242 aspartate racemase; Region: asp_race; TIGR00035 400668012243 aspartate ammonia-lyase; Provisional; Region: PRK13353 400668012244 Class II fumarases; Region: Fumarase_classII; cd01362 400668012245 active site 400668012246 tetramer interface [polypeptide binding]; other site 400668012247 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 400668012248 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668012249 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 400668012250 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400668012251 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668012252 YebG protein; Region: YebG; pfam07130 400668012253 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 400668012254 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668012255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012256 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 400668012257 substrate binding pocket [chemical binding]; other site 400668012258 dimerization interface [polypeptide binding]; other site 400668012259 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668012260 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668012261 Walker A/P-loop; other site 400668012262 ATP binding site [chemical binding]; other site 400668012263 Q-loop/lid; other site 400668012264 ABC transporter signature motif; other site 400668012265 Walker B; other site 400668012266 D-loop; other site 400668012267 H-loop/switch region; other site 400668012268 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668012269 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 400668012270 dimer interface [polypeptide binding]; other site 400668012271 conserved gate region; other site 400668012272 putative PBP binding loops; other site 400668012273 ABC-ATPase subunit interface; other site 400668012274 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 400668012275 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668012276 substrate binding pocket [chemical binding]; other site 400668012277 membrane-bound complex binding site; other site 400668012278 hinge residues; other site 400668012279 cystathionine gamma-synthase; Provisional; Region: PRK08249 400668012280 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 400668012281 homodimer interface [polypeptide binding]; other site 400668012282 substrate-cofactor binding pocket; other site 400668012283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668012284 catalytic residue [active] 400668012285 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 400668012286 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668012287 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 400668012288 Walker A/P-loop; other site 400668012289 ATP binding site [chemical binding]; other site 400668012290 Q-loop/lid; other site 400668012291 ABC transporter signature motif; other site 400668012292 Walker B; other site 400668012293 D-loop; other site 400668012294 H-loop/switch region; other site 400668012295 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 400668012296 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 400668012297 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 400668012298 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 400668012299 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 400668012300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 400668012301 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 400668012302 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668012303 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668012304 DNA binding site [nucleotide binding] 400668012305 domain linker motif; other site 400668012306 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 400668012307 putative dimerization interface [polypeptide binding]; other site 400668012308 putative ligand binding site [chemical binding]; other site 400668012309 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668012310 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668012311 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 400668012312 DctM-like transporters; Region: DctM; pfam06808 400668012313 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668012314 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668012315 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 400668012316 substrate binding site [chemical binding]; other site 400668012317 ATP binding site [chemical binding]; other site 400668012318 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 400668012319 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 400668012320 dimerization interface [polypeptide binding]; other site 400668012321 ligand binding site [chemical binding]; other site 400668012322 NADP binding site [chemical binding]; other site 400668012323 catalytic site [active] 400668012324 HAMP domain; Region: HAMP; pfam00672 400668012325 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668012326 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668012327 dimer interface [polypeptide binding]; other site 400668012328 putative CheW interface [polypeptide binding]; other site 400668012329 TM2 domain; Region: TM2; cl00984 400668012330 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 400668012331 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 400668012332 Catalytic site [active] 400668012333 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012334 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012335 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 400668012336 putative effector binding pocket; other site 400668012337 dimerization interface [polypeptide binding]; other site 400668012338 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 400668012339 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 400668012340 phosphate binding site [ion binding]; other site 400668012341 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 400668012342 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 400668012343 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668012344 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668012345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012346 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 400668012347 dimerization interface [polypeptide binding]; other site 400668012348 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668012349 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 400668012350 putative DNA binding site [nucleotide binding]; other site 400668012351 putative Zn2+ binding site [ion binding]; other site 400668012352 AsnC family; Region: AsnC_trans_reg; pfam01037 400668012353 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 400668012354 non-specific DNA binding site [nucleotide binding]; other site 400668012355 salt bridge; other site 400668012356 sequence-specific DNA binding site [nucleotide binding]; other site 400668012357 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 400668012358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668012359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 400668012360 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 400668012361 L-asparaginase II; Region: Asparaginase_II; pfam06089 400668012362 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 400668012363 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 400668012364 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_16; cd07263 400668012365 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 400668012366 active site 400668012367 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 400668012368 Catalytic domain of Protein Kinases; Region: PKc; cd00180 400668012369 active site 400668012370 ATP binding site [chemical binding]; other site 400668012371 substrate binding site [chemical binding]; other site 400668012372 activation loop (A-loop); other site 400668012373 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 400668012374 cyanate hydratase; Validated; Region: PRK02866 400668012375 Helix-turn-helix domain; Region: HTH_31; pfam13560 400668012376 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 400668012377 oligomer interface [polypeptide binding]; other site 400668012378 active site 400668012379 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 400668012380 dimerization interface [polypeptide binding]; other site 400668012381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668012382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668012383 dimer interface [polypeptide binding]; other site 400668012384 putative CheW interface [polypeptide binding]; other site 400668012385 recombinase A; Provisional; Region: recA; PRK09354 400668012386 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 400668012387 hexamer interface [polypeptide binding]; other site 400668012388 Walker A motif; other site 400668012389 ATP binding site [chemical binding]; other site 400668012390 Walker B motif; other site 400668012391 Competence-damaged protein; Region: CinA; pfam02464 400668012392 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 400668012393 MutS domain I; Region: MutS_I; pfam01624 400668012394 MutS domain II; Region: MutS_II; pfam05188 400668012395 MutS domain III; Region: MutS_III; pfam05192 400668012396 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 400668012397 Walker A/P-loop; other site 400668012398 ATP binding site [chemical binding]; other site 400668012399 Q-loop/lid; other site 400668012400 ABC transporter signature motif; other site 400668012401 Walker B; other site 400668012402 D-loop; other site 400668012403 H-loop/switch region; other site 400668012404 Ferredoxin [Energy production and conversion]; Region: COG1146 400668012405 4Fe-4S binding domain; Region: Fer4; cl02805 400668012406 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 400668012407 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 400668012408 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 400668012409 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 400668012410 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 400668012411 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 400668012412 PAS fold; Region: PAS_3; pfam08447 400668012413 putative active site [active] 400668012414 heme pocket [chemical binding]; other site 400668012415 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012416 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012417 metal binding site [ion binding]; metal-binding site 400668012418 active site 400668012419 I-site; other site 400668012420 Uncharacterized conserved protein [Function unknown]; Region: COG0432 400668012421 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 400668012422 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 400668012423 folate binding site [chemical binding]; other site 400668012424 NADP+ binding site [chemical binding]; other site 400668012425 thymidylate synthase; Reviewed; Region: thyA; PRK01827 400668012426 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 400668012427 dimerization interface [polypeptide binding]; other site 400668012428 active site 400668012429 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 400668012430 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 400668012431 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 400668012432 non-specific DNA binding site [nucleotide binding]; other site 400668012433 salt bridge; other site 400668012434 sequence-specific DNA binding site [nucleotide binding]; other site 400668012435 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 400668012436 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 400668012437 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 400668012438 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 400668012439 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 400668012440 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 400668012441 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 400668012442 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 400668012443 putative active site [active] 400668012444 Ap4A binding site [chemical binding]; other site 400668012445 nudix motif; other site 400668012446 putative metal binding site [ion binding]; other site 400668012447 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 400668012448 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 400668012449 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 400668012450 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 400668012451 putative RNA binding site [nucleotide binding]; other site 400668012452 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 400668012453 S-adenosylmethionine binding site [chemical binding]; other site 400668012454 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 400668012455 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668012456 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 400668012457 Walker A/P-loop; other site 400668012458 ATP binding site [chemical binding]; other site 400668012459 Q-loop/lid; other site 400668012460 ABC transporter signature motif; other site 400668012461 Walker B; other site 400668012462 D-loop; other site 400668012463 H-loop/switch region; other site 400668012464 TOBE domain; Region: TOBE_2; pfam08402 400668012465 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 400668012466 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 400668012467 dimer interface [polypeptide binding]; other site 400668012468 conserved gate region; other site 400668012469 putative PBP binding loops; other site 400668012470 ABC-ATPase subunit interface; other site 400668012471 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 400668012472 dimer interface [polypeptide binding]; other site 400668012473 conserved gate region; other site 400668012474 putative PBP binding loops; other site 400668012475 ABC-ATPase subunit interface; other site 400668012476 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668012477 HDOD domain; Region: HDOD; pfam08668 400668012478 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 400668012479 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 400668012480 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 400668012481 proline aminopeptidase P II; Provisional; Region: PRK10879 400668012482 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 400668012483 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 400668012484 active site 400668012485 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 400668012486 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 400668012487 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 400668012488 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 400668012489 homodimer interface [polypeptide binding]; other site 400668012490 NADP binding site [chemical binding]; other site 400668012491 substrate binding site [chemical binding]; other site 400668012492 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 400668012493 DHH family; Region: DHH; pfam01368 400668012494 DHHA1 domain; Region: DHHA1; pfam02272 400668012495 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 400668012496 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 400668012497 putative substrate translocation pore; other site 400668012498 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012500 metal binding site [ion binding]; metal-binding site 400668012501 active site 400668012502 I-site; other site 400668012503 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 400668012504 RNA methyltransferase, RsmE family; Region: TIGR00046 400668012505 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 400668012506 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 400668012507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668012508 catalytic residue [active] 400668012509 homoserine dehydrogenase; Provisional; Region: PRK06349 400668012510 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 400668012511 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 400668012512 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 400668012513 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 400668012514 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 400668012515 dimerization domain [polypeptide binding]; other site 400668012516 dimer interface [polypeptide binding]; other site 400668012517 catalytic residues [active] 400668012518 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 400668012519 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 400668012520 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 400668012521 RimM N-terminal domain; Region: RimM; pfam01782 400668012522 PRC-barrel domain; Region: PRC; pfam05239 400668012523 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 400668012524 signal recognition particle protein; Provisional; Region: PRK10867 400668012525 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 400668012526 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 400668012527 P loop; other site 400668012528 GTP binding site [chemical binding]; other site 400668012529 Signal peptide binding domain; Region: SRP_SPB; pfam02978 400668012530 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 400668012531 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 400668012532 Domain of unknown function DUF21; Region: DUF21; pfam01595 400668012533 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 400668012534 Transporter associated domain; Region: CorC_HlyC; smart01091 400668012535 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 400668012536 nudix motif; other site 400668012537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 400668012538 Protein of unknown function DUF72; Region: DUF72; pfam01904 400668012539 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 400668012540 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 400668012541 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400668012542 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668012543 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 400668012544 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 400668012545 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 400668012546 active site 400668012547 dimerization interface [polypeptide binding]; other site 400668012548 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 400668012549 putative hydrolase; Provisional; Region: PRK11460 400668012550 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 400668012551 active site 400668012552 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 400668012553 active site 400668012554 DNA polymerase IV; Validated; Region: PRK02406 400668012555 DNA binding site [nucleotide binding] 400668012556 LPP20 lipoprotein; Region: LPP20; pfam02169 400668012557 Protein of unknown function (DUF904); Region: DUF904; pfam06005 400668012558 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 400668012559 putative active site [active] 400668012560 putative metal binding site [ion binding]; other site 400668012561 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 400668012562 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 400668012563 substrate-cofactor binding pocket; other site 400668012564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668012565 catalytic residue [active] 400668012566 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 400668012567 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 400668012568 NAD(P) binding site [chemical binding]; other site 400668012569 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 400668012570 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 400668012571 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 400668012572 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 400668012573 putative NADH binding site [chemical binding]; other site 400668012574 putative active site [active] 400668012575 nudix motif; other site 400668012576 putative metal binding site [ion binding]; other site 400668012577 glutaminase; Provisional; Region: PRK00971 400668012578 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 400668012579 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 400668012580 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 400668012581 Predicted ATPase [General function prediction only]; Region: COG1485 400668012582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012584 LysR substrate binding domain; Region: LysR_substrate; pfam03466 400668012585 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 400668012586 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400668012587 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 400668012588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 400668012589 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 400668012590 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 400668012591 active site 400668012592 catalytic residues [active] 400668012593 metal binding site [ion binding]; metal-binding site 400668012594 DmpG-like communication domain; Region: DmpG_comm; pfam07836 400668012595 acetaldehyde dehydrogenase; Validated; Region: PRK08300 400668012596 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 400668012597 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 400668012598 dihydroxy-acid dehydratase; Validated; Region: PRK06131 400668012599 DctM-like transporters; Region: DctM; pfam06808 400668012600 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668012601 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668012602 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668012603 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668012604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012606 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 400668012607 dimerization interface [polypeptide binding]; other site 400668012608 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668012609 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 400668012610 putative substrate translocation pore; other site 400668012611 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 400668012612 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 400668012613 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668012614 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668012615 Secretin and TonB N terminus short domain; Region: STN; smart00965 400668012616 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 400668012617 fec operon regulator FecR; Reviewed; Region: PRK09774 400668012618 FecR protein; Region: FecR; pfam04773 400668012619 RNA polymerase sigma factor; Provisional; Region: PRK12528 400668012620 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668012621 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 400668012622 DNA binding residues [nucleotide binding] 400668012623 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 400668012624 putative C-terminal domain interface [polypeptide binding]; other site 400668012625 putative GSH binding site (G-site) [chemical binding]; other site 400668012626 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 400668012627 putative dimer interface [polypeptide binding]; other site 400668012628 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 400668012629 putative N-terminal domain interface [polypeptide binding]; other site 400668012630 putative dimer interface [polypeptide binding]; other site 400668012631 putative substrate binding pocket (H-site) [chemical binding]; other site 400668012632 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668012633 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668012634 enterobactin receptor protein; Provisional; Region: PRK13483 400668012635 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 400668012636 N-terminal plug; other site 400668012637 ligand-binding site [chemical binding]; other site 400668012638 hypothetical protein; Provisional; Region: PRK07338 400668012639 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 400668012640 metal binding site [ion binding]; metal-binding site 400668012641 dimer interface [polypeptide binding]; other site 400668012642 hypothetical protein; Provisional; Region: PRK07079 400668012643 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 400668012644 metal binding site [ion binding]; metal-binding site 400668012645 putative dimer interface [polypeptide binding]; other site 400668012646 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 400668012647 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668012648 Walker A/P-loop; other site 400668012649 ATP binding site [chemical binding]; other site 400668012650 Q-loop/lid; other site 400668012651 ABC transporter signature motif; other site 400668012652 Walker B; other site 400668012653 D-loop; other site 400668012654 H-loop/switch region; other site 400668012655 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 400668012656 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 400668012657 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668012658 Walker A/P-loop; other site 400668012659 ATP binding site [chemical binding]; other site 400668012660 Q-loop/lid; other site 400668012661 ABC transporter signature motif; other site 400668012662 Walker B; other site 400668012663 D-loop; other site 400668012664 H-loop/switch region; other site 400668012665 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400668012666 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 400668012667 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 400668012668 dimer interface [polypeptide binding]; other site 400668012669 conserved gate region; other site 400668012670 putative PBP binding loops; other site 400668012671 ABC-ATPase subunit interface; other site 400668012672 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668012673 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 400668012674 dimer interface [polypeptide binding]; other site 400668012675 conserved gate region; other site 400668012676 putative PBP binding loops; other site 400668012677 ABC-ATPase subunit interface; other site 400668012678 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668012679 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_10; cd08515 400668012680 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012681 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012682 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 400668012683 dimerization interface [polypeptide binding]; other site 400668012684 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 400668012685 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 400668012686 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668012687 catalytic residue [active] 400668012688 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 400668012689 Amidase; Region: Amidase; cl11426 400668012690 Thermostable hemolysin; Region: T_hemolysin; pfam12261 400668012691 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 400668012692 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 400668012693 acyl-activating enzyme (AAE) consensus motif; other site 400668012694 putative AMP binding site [chemical binding]; other site 400668012695 putative active site [active] 400668012696 putative CoA binding site [chemical binding]; other site 400668012697 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 400668012698 heme binding pocket [chemical binding]; other site 400668012699 heme ligand [chemical binding]; other site 400668012700 short chain dehydrogenase; Provisional; Region: PRK09072 400668012701 classical (c) SDRs; Region: SDR_c; cd05233 400668012702 NAD(P) binding site [chemical binding]; other site 400668012703 active site 400668012704 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 400668012705 TPR motif; other site 400668012706 binding surface 400668012707 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 400668012708 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 400668012709 putative active site [active] 400668012710 putative ligand binding site [chemical binding]; other site 400668012711 putative NAD(P) binding site [chemical binding]; other site 400668012712 malonyl-CoA synthase; Validated; Region: PRK07514 400668012713 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 400668012714 acyl-activating enzyme (AAE) consensus motif; other site 400668012715 active site 400668012716 AMP binding site [chemical binding]; other site 400668012717 CoA binding site [chemical binding]; other site 400668012718 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 400668012719 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 400668012720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012722 metal binding site [ion binding]; metal-binding site 400668012723 active site 400668012724 I-site; other site 400668012725 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012726 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012727 metal binding site [ion binding]; metal-binding site 400668012728 active site 400668012729 I-site; other site 400668012730 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 400668012731 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 400668012732 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 400668012733 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 400668012734 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012735 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012736 metal binding site [ion binding]; metal-binding site 400668012737 active site 400668012738 I-site; other site 400668012739 putative arabinose transporter; Provisional; Region: PRK03545 400668012740 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 400668012741 putative substrate translocation pore; other site 400668012742 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668012743 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 400668012744 dimerization interface [polypeptide binding]; other site 400668012745 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668012746 dimer interface [polypeptide binding]; other site 400668012747 putative CheW interface [polypeptide binding]; other site 400668012748 PAS fold; Region: PAS_4; pfam08448 400668012749 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012750 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012751 metal binding site [ion binding]; metal-binding site 400668012752 active site 400668012753 I-site; other site 400668012754 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668012755 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668012756 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012757 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 400668012758 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 400668012759 putative dimerization interface [polypeptide binding]; other site 400668012760 ketol-acid reductoisomerase; Validated; Region: PRK05225 400668012761 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 400668012762 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 400668012763 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 400668012764 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 400668012765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668012766 Walker A/P-loop; other site 400668012767 ATP binding site [chemical binding]; other site 400668012768 ABC transporter signature motif; other site 400668012769 Walker B; other site 400668012770 D-loop; other site 400668012771 H-loop/switch region; other site 400668012772 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 400668012773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668012774 Walker A/P-loop; other site 400668012775 ATP binding site [chemical binding]; other site 400668012776 Q-loop/lid; other site 400668012777 ABC transporter signature motif; other site 400668012778 Walker B; other site 400668012779 D-loop; other site 400668012780 H-loop/switch region; other site 400668012781 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 400668012782 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 400668012783 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: StbD; COG2161 400668012784 RloB-like protein; Region: RloB; pfam13707 400668012785 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668012786 AAA domain; Region: AAA_21; pfam13304 400668012787 Walker A/P-loop; other site 400668012788 ATP binding site [chemical binding]; other site 400668012789 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668012790 ABC transporter signature motif; other site 400668012791 Walker B; other site 400668012792 D-loop; other site 400668012793 H-loop/switch region; other site 400668012794 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 400668012795 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 400668012796 HIGH motif; other site 400668012797 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 400668012798 active site 400668012799 KMSKS motif; other site 400668012800 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 400668012801 tRNA binding surface [nucleotide binding]; other site 400668012802 anticodon binding site; other site 400668012803 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 400668012804 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668012805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668012806 tricarballylate utilization protein B; Provisional; Region: PRK15033 400668012807 tricarballylate dehydrogenase; Validated; Region: PRK08274 400668012808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012810 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 400668012811 putative dimerization interface [polypeptide binding]; other site 400668012812 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 400668012813 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 400668012814 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668012815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012817 metal binding site [ion binding]; metal-binding site 400668012818 active site 400668012819 I-site; other site 400668012820 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012821 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012822 metal binding site [ion binding]; metal-binding site 400668012823 active site 400668012824 I-site; other site 400668012825 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 400668012826 GTPase RsgA; Reviewed; Region: PRK01889 400668012827 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 400668012828 GTPase/Zn-binding domain interface [polypeptide binding]; other site 400668012829 GTP/Mg2+ binding site [chemical binding]; other site 400668012830 G4 box; other site 400668012831 G5 box; other site 400668012832 G1 box; other site 400668012833 Switch I region; other site 400668012834 G2 box; other site 400668012835 G3 box; other site 400668012836 Switch II region; other site 400668012837 Short C-terminal domain; Region: SHOCT; pfam09851 400668012838 putative S-transferase; Provisional; Region: PRK11752 400668012839 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 400668012840 C-terminal domain interface [polypeptide binding]; other site 400668012841 GSH binding site (G-site) [chemical binding]; other site 400668012842 dimer interface [polypeptide binding]; other site 400668012843 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 400668012844 dimer interface [polypeptide binding]; other site 400668012845 N-terminal domain interface [polypeptide binding]; other site 400668012846 active site 400668012847 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 400668012848 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 400668012849 FAD binding pocket [chemical binding]; other site 400668012850 FAD binding motif [chemical binding]; other site 400668012851 phosphate binding motif [ion binding]; other site 400668012852 beta-alpha-beta structure motif; other site 400668012853 NAD binding pocket [chemical binding]; other site 400668012854 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 400668012855 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 400668012856 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 400668012857 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 400668012858 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668012859 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 400668012860 putative acyl-acceptor binding pocket; other site 400668012861 Phosphopantetheine attachment site; Region: PP-binding; cl09936 400668012862 acyl carrier protein; Provisional; Region: PRK05350 400668012863 Predicted membrane protein [Function unknown]; Region: COG4648 400668012864 AMP-binding enzyme; Region: AMP-binding; pfam00501 400668012865 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668012866 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668012867 acyl-activating enzyme (AAE) consensus motif; other site 400668012868 acyl-activating enzyme (AAE) consensus motif; other site 400668012869 AMP binding site [chemical binding]; other site 400668012870 active site 400668012871 CoA binding site [chemical binding]; other site 400668012872 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 400668012873 active site 2 [active] 400668012874 active site 1 [active] 400668012875 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 400668012876 active site 400668012877 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 400668012878 Predicted exporter [General function prediction only]; Region: COG4258 400668012879 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 400668012880 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 400668012881 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 400668012882 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 400668012883 dimer interface [polypeptide binding]; other site 400668012884 active site 400668012885 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 400668012886 putative active site 1 [active] 400668012887 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400668012888 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 400668012889 NAD(P) binding site [chemical binding]; other site 400668012890 homotetramer interface [polypeptide binding]; other site 400668012891 homodimer interface [polypeptide binding]; other site 400668012892 active site 400668012893 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 400668012894 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 400668012895 dimer interface [polypeptide binding]; other site 400668012896 active site 400668012897 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 400668012898 dimer interface [polypeptide binding]; other site 400668012899 FMN binding site [chemical binding]; other site 400668012900 NADPH bind site [chemical binding]; other site 400668012901 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 400668012902 catalytic triad [active] 400668012903 dimer interface [polypeptide binding]; other site 400668012904 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 400668012905 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 400668012906 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 400668012907 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 400668012908 putative dimer interface [polypeptide binding]; other site 400668012909 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012910 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012911 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 400668012912 putative effector binding pocket; other site 400668012913 dimerization interface [polypeptide binding]; other site 400668012914 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 400668012915 dimer interface [polypeptide binding]; other site 400668012916 FMN binding site [chemical binding]; other site 400668012917 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668012918 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668012919 metal binding site [ion binding]; metal-binding site 400668012920 active site 400668012921 I-site; other site 400668012922 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 400668012923 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 400668012924 non-specific DNA binding site [nucleotide binding]; other site 400668012925 salt bridge; other site 400668012926 sequence-specific DNA binding site [nucleotide binding]; other site 400668012927 N-formylglutamate amidohydrolase; Region: FGase; cl01522 400668012928 imidazolonepropionase; Validated; Region: PRK09356 400668012929 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 400668012930 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 400668012931 active site 400668012932 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 400668012933 active sites [active] 400668012934 tetramer interface [polypeptide binding]; other site 400668012935 urocanate hydratase; Provisional; Region: PRK05414 400668012936 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 400668012937 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 400668012938 active site 400668012939 HutD; Region: HutD; pfam05962 400668012940 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 400668012941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668012942 DNA-binding site [nucleotide binding]; DNA binding site 400668012943 UTRA domain; Region: UTRA; pfam07702 400668012944 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 400668012945 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 400668012946 hydrophobic ligand binding site; other site 400668012947 proline dipeptidase; Provisional; Region: PRK13607 400668012948 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 400668012949 active site 400668012950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668012951 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668012952 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 400668012953 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668012954 HAMP domain; Region: HAMP; pfam00672 400668012955 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668012956 dimer interface [polypeptide binding]; other site 400668012957 putative CheW interface [polypeptide binding]; other site 400668012958 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 400668012959 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 400668012960 Metal-binding active site; metal-binding site 400668012961 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 400668012962 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 400668012963 dimer interface [polypeptide binding]; other site 400668012964 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 400668012965 active site 400668012966 Fe binding site [ion binding]; other site 400668012967 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 400668012968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012969 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 400668012970 dimerization interface [polypeptide binding]; other site 400668012971 Predicted permeases [General function prediction only]; Region: COG0679 400668012972 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 400668012973 Dehydroquinase class II; Region: DHquinase_II; pfam01220 400668012974 trimer interface [polypeptide binding]; other site 400668012975 active site 400668012976 dimer interface [polypeptide binding]; other site 400668012977 Membrane transport protein; Region: Mem_trans; cl09117 400668012978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668012979 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 400668012980 DNA-binding site [nucleotide binding]; DNA binding site 400668012981 FCD domain; Region: FCD; pfam07729 400668012982 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 400668012983 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 400668012984 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 400668012985 shikimate binding site; other site 400668012986 NAD(P) binding site [chemical binding]; other site 400668012987 protocatechuate 4,5-dioxygenase subunit beta; Provisional; Region: PRK13364 400668012988 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400668012989 active site 400668012990 metal binding site [ion binding]; metal-binding site 400668012991 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 400668012992 putative dimer interface [polypeptide binding]; other site 400668012993 putative tetramer interface [polypeptide binding]; other site 400668012994 putative active site [active] 400668012995 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668012996 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668012998 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 400668012999 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 400668013000 dimerization interface [polypeptide binding]; other site 400668013001 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 400668013002 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668013003 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 400668013004 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 400668013005 active site 400668013006 catalytic tetrad [active] 400668013007 pyruvate carboxylase subunit B; Validated; Region: PRK09282 400668013008 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 400668013009 active site 400668013010 catalytic residues [active] 400668013011 metal binding site [ion binding]; metal-binding site 400668013012 homodimer binding site [polypeptide binding]; other site 400668013013 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 400668013014 carboxyltransferase (CT) interaction site; other site 400668013015 biotinylation site [posttranslational modification]; other site 400668013016 pyruvate carboxylase subunit A; Validated; Region: PRK07178 400668013017 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400668013018 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 400668013019 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 400668013020 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668013021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013022 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 400668013023 putative dimerization interface [polypeptide binding]; other site 400668013024 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400668013025 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 400668013026 putative active site [active] 400668013027 heme pocket [chemical binding]; other site 400668013028 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 400668013029 putative active site [active] 400668013030 heme pocket [chemical binding]; other site 400668013031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013032 dimer interface [polypeptide binding]; other site 400668013033 putative CheW interface [polypeptide binding]; other site 400668013034 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 400668013035 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 400668013036 putative active site [active] 400668013037 heme pocket [chemical binding]; other site 400668013038 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 400668013039 putative active site [active] 400668013040 heme pocket [chemical binding]; other site 400668013041 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013042 dimer interface [polypeptide binding]; other site 400668013043 putative CheW interface [polypeptide binding]; other site 400668013044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668013045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013046 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 400668013047 dimerization interface [polypeptide binding]; other site 400668013048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668013049 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668013050 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 400668013051 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 400668013052 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 400668013053 active site residue [active] 400668013054 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 400668013055 active site residue [active] 400668013056 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 400668013057 active site residue [active] 400668013058 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 400668013059 active site residue [active] 400668013060 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 400668013061 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 400668013062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668013063 catalytic residue [active] 400668013064 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 400668013065 high affinity sulphate transporter 1; Region: sulP; TIGR00815 400668013066 Sulfate transporter family; Region: Sulfate_transp; pfam00916 400668013067 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 400668013068 protocatechuate 4,5-dioxygenase subunit beta; Provisional; Region: PRK13364 400668013069 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 400668013070 active site 400668013071 metal binding site [ion binding]; metal-binding site 400668013072 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 400668013073 putative dimer interface [polypeptide binding]; other site 400668013074 putative tetramer interface [polypeptide binding]; other site 400668013075 putative active site [active] 400668013076 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 400668013077 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 400668013078 active site 400668013079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 400668013080 hypothetical protein; Provisional; Region: PRK09262 400668013081 Amidohydrolase; Region: Amidohydro_2; pfam04909 400668013082 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 400668013083 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 400668013084 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 400668013085 DctM-like transporters; Region: DctM; pfam06808 400668013086 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 400668013087 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 400668013088 catalytic triad [active] 400668013089 dimer interface [polypeptide binding]; other site 400668013090 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 400668013091 dimerization interface [polypeptide binding]; other site 400668013092 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668013093 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013094 dimer interface [polypeptide binding]; other site 400668013095 putative CheW interface [polypeptide binding]; other site 400668013096 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 400668013097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668013098 DNA-binding site [nucleotide binding]; DNA binding site 400668013099 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 400668013100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668013101 homodimer interface [polypeptide binding]; other site 400668013102 catalytic residue [active] 400668013103 PilZ domain; Region: PilZ; pfam07238 400668013104 Protein of unknown function (DUF501); Region: DUF501; pfam04417 400668013105 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 400668013106 glycerol kinase; Provisional; Region: glpK; PRK00047 400668013107 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 400668013108 N- and C-terminal domain interface [polypeptide binding]; other site 400668013109 active site 400668013110 MgATP binding site [chemical binding]; other site 400668013111 catalytic site [active] 400668013112 metal binding site [ion binding]; metal-binding site 400668013113 glycerol binding site [chemical binding]; other site 400668013114 homotetramer interface [polypeptide binding]; other site 400668013115 homodimer interface [polypeptide binding]; other site 400668013116 FBP binding site [chemical binding]; other site 400668013117 protein IIAGlc interface [polypeptide binding]; other site 400668013118 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 400668013119 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 400668013120 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 400668013121 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 400668013122 hypothetical protein; Provisional; Region: PRK10621 400668013123 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668013124 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668013125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013126 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 400668013127 dimerization interface [polypeptide binding]; other site 400668013128 substrate binding pocket [chemical binding]; other site 400668013129 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 400668013130 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 400668013131 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400668013132 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 400668013133 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 400668013134 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 400668013135 active site 400668013136 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 400668013137 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 400668013138 [2Fe-2S] cluster binding site [ion binding]; other site 400668013139 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 400668013140 putative alpha subunit interface [polypeptide binding]; other site 400668013141 putative active site [active] 400668013142 putative substrate binding site [chemical binding]; other site 400668013143 Fe binding site [ion binding]; other site 400668013144 chaperone protein DnaJ; Provisional; Region: PRK10767 400668013145 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 400668013146 HSP70 interaction site [polypeptide binding]; other site 400668013147 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 400668013148 substrate binding site [polypeptide binding]; other site 400668013149 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 400668013150 Zn binding sites [ion binding]; other site 400668013151 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 400668013152 dimer interface [polypeptide binding]; other site 400668013153 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 400668013154 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 400668013155 nucleotide binding site [chemical binding]; other site 400668013156 GrpE; Region: GrpE; pfam01025 400668013157 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 400668013158 dimer interface [polypeptide binding]; other site 400668013159 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 400668013160 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 400668013161 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 400668013162 Walker A/P-loop; other site 400668013163 ATP binding site [chemical binding]; other site 400668013164 Q-loop/lid; other site 400668013165 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 400668013166 ABC transporter signature motif; other site 400668013167 Walker B; other site 400668013168 D-loop; other site 400668013169 H-loop/switch region; other site 400668013170 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 400668013171 metal binding site 2 [ion binding]; metal-binding site 400668013172 putative DNA binding helix; other site 400668013173 metal binding site 1 [ion binding]; metal-binding site 400668013174 dimer interface [polypeptide binding]; other site 400668013175 structural Zn2+ binding site [ion binding]; other site 400668013176 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 400668013177 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 400668013178 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 400668013179 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 400668013180 putative coenzyme Q binding site [chemical binding]; other site 400668013181 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 400668013182 Na2 binding site [ion binding]; other site 400668013183 putative substrate binding site 1 [chemical binding]; other site 400668013184 Na binding site 1 [ion binding]; other site 400668013185 putative substrate binding site 2 [chemical binding]; other site 400668013186 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 400668013187 SmpB-tmRNA interface; other site 400668013188 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 400668013189 Predicted transcriptional regulator [Transcription]; Region: COG2932 400668013190 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 400668013191 Catalytic site [active] 400668013192 PIN domain; Region: PIN_3; pfam13470 400668013193 Helix-turn-helix domain; Region: HTH_17; cl17695 400668013194 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 400668013195 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013196 dimer interface [polypeptide binding]; other site 400668013197 putative CheW interface [polypeptide binding]; other site 400668013198 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 400668013199 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 400668013200 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400668013201 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 400668013202 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 400668013203 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 400668013204 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 400668013205 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 400668013206 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 400668013207 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 400668013208 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 400668013209 ammonium transporter; Region: amt; TIGR00836 400668013210 PAS domain S-box; Region: sensory_box; TIGR00229 400668013211 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 400668013212 putative active site [active] 400668013213 heme pocket [chemical binding]; other site 400668013214 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668013215 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668013216 metal binding site [ion binding]; metal-binding site 400668013217 active site 400668013218 I-site; other site 400668013219 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 400668013220 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 400668013221 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 400668013222 transcription termination factor Rho; Provisional; Region: rho; PRK09376 400668013223 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 400668013224 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 400668013225 RNA binding site [nucleotide binding]; other site 400668013226 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 400668013227 multimer interface [polypeptide binding]; other site 400668013228 Walker A motif; other site 400668013229 ATP binding site [chemical binding]; other site 400668013230 Walker B motif; other site 400668013231 FMN reductase; Validated; Region: fre; PRK08051 400668013232 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 400668013233 FAD binding pocket [chemical binding]; other site 400668013234 FAD binding motif [chemical binding]; other site 400668013235 phosphate binding motif [ion binding]; other site 400668013236 beta-alpha-beta structure motif; other site 400668013237 NAD binding pocket [chemical binding]; other site 400668013238 malate:quinone oxidoreductase; Validated; Region: PRK05257 400668013239 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 400668013240 FOG: CBS domain [General function prediction only]; Region: COG0517 400668013241 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_24; cd04637 400668013242 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 400668013243 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 400668013244 dimerization interface [polypeptide binding]; other site 400668013245 domain crossover interface; other site 400668013246 redox-dependent activation switch; other site 400668013247 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 400668013248 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668013249 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668013250 ABC transporter; Region: ABC_tran_2; pfam12848 400668013251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668013252 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 400668013253 dimer interface [polypeptide binding]; other site 400668013254 allosteric magnesium binding site [ion binding]; other site 400668013255 active site 400668013256 aspartate-rich active site metal binding site; other site 400668013257 Schiff base residues; other site 400668013258 polyphosphate kinase; Provisional; Region: PRK05443 400668013259 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 400668013260 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 400668013261 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 400668013262 putative domain interface [polypeptide binding]; other site 400668013263 putative active site [active] 400668013264 catalytic site [active] 400668013265 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 400668013266 putative domain interface [polypeptide binding]; other site 400668013267 putative active site [active] 400668013268 catalytic site [active] 400668013269 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668013270 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 400668013271 substrate binding pocket [chemical binding]; other site 400668013272 membrane-bound complex binding site; other site 400668013273 hinge residues; other site 400668013274 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 400668013275 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 400668013276 dimerization interface [polypeptide binding]; other site 400668013277 ATP binding site [chemical binding]; other site 400668013278 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 400668013279 dimerization interface [polypeptide binding]; other site 400668013280 ATP binding site [chemical binding]; other site 400668013281 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 400668013282 putative active site [active] 400668013283 catalytic triad [active] 400668013284 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 400668013285 nucleoside/Zn binding site; other site 400668013286 dimer interface [polypeptide binding]; other site 400668013287 catalytic motif [active] 400668013288 FOG: CBS domain [General function prediction only]; Region: COG0517 400668013289 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_15; cd04803 400668013290 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 400668013291 DNA-binding site [nucleotide binding]; DNA binding site 400668013292 RNA-binding motif; other site 400668013293 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 400668013294 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400668013295 active site 400668013296 HIGH motif; other site 400668013297 nucleotide binding site [chemical binding]; other site 400668013298 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 400668013299 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 400668013300 active site 400668013301 KMSKS motif; other site 400668013302 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 400668013303 tRNA binding surface [nucleotide binding]; other site 400668013304 anticodon binding site; other site 400668013305 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 400668013306 multifunctional aminopeptidase A; Provisional; Region: PRK00913 400668013307 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 400668013308 interface (dimer of trimers) [polypeptide binding]; other site 400668013309 Substrate-binding/catalytic site; other site 400668013310 Zn-binding sites [ion binding]; other site 400668013311 Predicted permeases [General function prediction only]; Region: COG0795 400668013312 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 400668013313 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 400668013314 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 400668013315 hypothetical protein; Provisional; Region: PRK08960 400668013316 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 400668013317 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668013318 homodimer interface [polypeptide binding]; other site 400668013319 catalytic residue [active] 400668013320 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 400668013321 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 400668013322 active site 400668013323 HIGH motif; other site 400668013324 nucleotide binding site [chemical binding]; other site 400668013325 active site 400668013326 KMSKS motif; other site 400668013327 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668013328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668013329 active site 400668013330 phosphorylation site [posttranslational modification] 400668013331 dimerization interface [polypeptide binding]; other site 400668013332 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 400668013333 Walker A motif; other site 400668013334 ATP binding site [chemical binding]; other site 400668013335 Walker B motif; other site 400668013336 arginine finger; other site 400668013337 poly(A) polymerase; Region: pcnB; TIGR01942 400668013338 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 400668013339 active site 400668013340 NTP binding site [chemical binding]; other site 400668013341 metal binding triad [ion binding]; metal-binding site 400668013342 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 400668013343 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 400668013344 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 400668013345 catalytic center binding site [active] 400668013346 ATP binding site [chemical binding]; other site 400668013347 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 400668013348 oligomerization interface [polypeptide binding]; other site 400668013349 active site 400668013350 metal binding site [ion binding]; metal-binding site 400668013351 pantoate--beta-alanine ligase; Region: panC; TIGR00018 400668013352 Pantoate-beta-alanine ligase; Region: PanC; cd00560 400668013353 active site 400668013354 ATP-binding site [chemical binding]; other site 400668013355 pantoate-binding site; other site 400668013356 HXXH motif; other site 400668013357 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 400668013358 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 400668013359 active site 400668013360 dimer interface [polypeptide binding]; other site 400668013361 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 400668013362 dimer interface [polypeptide binding]; other site 400668013363 active site 400668013364 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 400668013365 Putative addiction module component; Region: Unstab_antitox; pfam09720 400668013366 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 400668013367 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 400668013368 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 400668013369 Fic family protein [Function unknown]; Region: COG3177 400668013370 Protein of unknown function (DUF1349); Region: DUF1349; pfam07081 400668013371 Cupin domain; Region: Cupin_2; cl17218 400668013372 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668013373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013374 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013375 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 400668013376 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 400668013377 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 400668013378 Cache domain; Region: Cache_1; pfam02743 400668013379 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 400668013380 dimerization interface [polypeptide binding]; other site 400668013381 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668013382 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013383 dimer interface [polypeptide binding]; other site 400668013384 putative CheW interface [polypeptide binding]; other site 400668013385 choline dehydrogenase; Validated; Region: PRK02106 400668013386 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 400668013387 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 400668013388 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668013389 NAD(P) binding site [chemical binding]; other site 400668013390 catalytic residues [active] 400668013391 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 400668013392 Homeodomain-like domain; Region: HTH_23; pfam13384 400668013393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013394 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 400668013395 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 400668013396 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 400668013397 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 400668013398 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400668013399 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 400668013400 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 400668013401 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 400668013402 ATP-grasp domain; Region: ATP-grasp_4; cl17255 400668013403 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 400668013404 IMP binding site; other site 400668013405 dimer interface [polypeptide binding]; other site 400668013406 interdomain contacts; other site 400668013407 partial ornithine binding site; other site 400668013408 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 400668013409 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 400668013410 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 400668013411 catalytic site [active] 400668013412 subunit interface [polypeptide binding]; other site 400668013413 DJ-1 family protein; Region: not_thiJ; TIGR01383 400668013414 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 400668013415 conserved cys residue [active] 400668013416 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 400668013417 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 400668013418 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 400668013419 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 400668013420 substrate binding pocket [chemical binding]; other site 400668013421 membrane-bound complex binding site; other site 400668013422 hinge residues; other site 400668013423 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668013424 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 400668013425 dimer interface [polypeptide binding]; other site 400668013426 conserved gate region; other site 400668013427 putative PBP binding loops; other site 400668013428 ABC-ATPase subunit interface; other site 400668013429 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 400668013430 CoA-transferase family III; Region: CoA_transf_3; pfam02515 400668013431 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 400668013432 CoA-transferase family III; Region: CoA_transf_3; pfam02515 400668013433 BCCT family transporter; Region: BCCT; pfam02028 400668013434 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668013435 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 400668013436 putative active site [active] 400668013437 metal binding site [ion binding]; metal-binding site 400668013438 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 400668013439 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 400668013440 tetrameric interface [polypeptide binding]; other site 400668013441 NAD binding site [chemical binding]; other site 400668013442 catalytic residues [active] 400668013443 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 400668013444 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013445 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 400668013446 dimerization interface [polypeptide binding]; other site 400668013447 substrate binding pocket [chemical binding]; other site 400668013448 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 400668013449 tetramer interfaces [polypeptide binding]; other site 400668013450 binuclear metal-binding site [ion binding]; other site 400668013451 thiamine monophosphate kinase; Provisional; Region: PRK05731 400668013452 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 400668013453 ATP binding site [chemical binding]; other site 400668013454 dimerization interface [polypeptide binding]; other site 400668013455 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 400668013456 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 400668013457 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 400668013458 catalytic motif [active] 400668013459 Zn binding site [ion binding]; other site 400668013460 RibD C-terminal domain; Region: RibD_C; cl17279 400668013461 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 400668013462 ATP cone domain; Region: ATP-cone; pfam03477 400668013463 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668013464 EamA-like transporter family; Region: EamA; pfam00892 400668013465 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 400668013466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668013467 Walker A/P-loop; other site 400668013468 ATP binding site [chemical binding]; other site 400668013469 Q-loop/lid; other site 400668013470 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668013471 ABC transporter signature motif; other site 400668013472 Walker B; other site 400668013473 D-loop; other site 400668013474 ABC transporter; Region: ABC_tran_2; pfam12848 400668013475 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 400668013476 Abi-like protein; Region: Abi_2; pfam07751 400668013477 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 400668013478 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 400668013479 dimerization interface [polypeptide binding]; other site 400668013480 putative DNA binding site [nucleotide binding]; other site 400668013481 putative Zn2+ binding site [ion binding]; other site 400668013482 AsnC family; Region: AsnC_trans_reg; pfam01037 400668013483 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668013484 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 400668013485 dimerization interface [polypeptide binding]; other site 400668013486 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013487 dimer interface [polypeptide binding]; other site 400668013488 putative CheW interface [polypeptide binding]; other site 400668013489 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 400668013490 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 400668013491 G1 box; other site 400668013492 GTP/Mg2+ binding site [chemical binding]; other site 400668013493 G2 box; other site 400668013494 Switch I region; other site 400668013495 G3 box; other site 400668013496 Switch II region; other site 400668013497 G4 box; other site 400668013498 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 400668013499 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 400668013500 putative acyl-acceptor binding pocket; other site 400668013501 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 400668013502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668013503 metal binding site [ion binding]; metal-binding site 400668013504 active site 400668013505 I-site; other site 400668013506 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 400668013507 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 400668013508 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 400668013509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668013510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013511 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668013512 substrate binding pocket [chemical binding]; other site 400668013513 dimerization interface [polypeptide binding]; other site 400668013514 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 400668013515 EamA-like transporter family; Region: EamA; pfam00892 400668013516 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 400668013517 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 400668013518 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 400668013519 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 400668013520 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 400668013521 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 400668013522 S-adenosylmethionine binding site [chemical binding]; other site 400668013523 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 400668013524 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 400668013525 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668013526 short chain dehydrogenase; Provisional; Region: PRK06101 400668013527 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668013528 NAD(P) binding site [chemical binding]; other site 400668013529 active site 400668013530 SnoaL-like domain; Region: SnoaL_2; pfam12680 400668013531 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 400668013532 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668013533 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 400668013534 DNA binding residues [nucleotide binding] 400668013535 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 400668013536 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 400668013537 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 400668013538 putative acyl-acceptor binding pocket; other site 400668013539 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 400668013540 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 400668013541 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 400668013542 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 400668013543 tetrameric interface [polypeptide binding]; other site 400668013544 NAD binding site [chemical binding]; other site 400668013545 catalytic residues [active] 400668013546 choline dehydrogenase; Validated; Region: PRK02106 400668013547 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 400668013548 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 400668013549 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 400668013550 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 400668013551 active site 400668013552 metal binding site [ion binding]; metal-binding site 400668013553 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 400668013554 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 400668013555 DNA-J related protein; Region: DNAJ_related; pfam12339 400668013556 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 400668013557 HSP70 interaction site [polypeptide binding]; other site 400668013558 MltA specific insert domain; Region: MltA; smart00925 400668013559 3D domain; Region: 3D; pfam06725 400668013560 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 400668013561 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 400668013562 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 400668013563 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400668013564 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 400668013565 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 400668013566 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 400668013567 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 400668013568 Cl binding site [ion binding]; other site 400668013569 oligomer interface [polypeptide binding]; other site 400668013570 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668013571 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668013572 Walker A/P-loop; other site 400668013573 ATP binding site [chemical binding]; other site 400668013574 Q-loop/lid; other site 400668013575 ABC transporter signature motif; other site 400668013576 Walker B; other site 400668013577 D-loop; other site 400668013578 H-loop/switch region; other site 400668013579 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 400668013580 dimer interface [polypeptide binding]; other site 400668013581 conserved gate region; other site 400668013582 putative PBP binding loops; other site 400668013583 ABC-ATPase subunit interface; other site 400668013584 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 400668013585 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 400668013586 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 400668013587 dimer interface [polypeptide binding]; other site 400668013588 conserved gate region; other site 400668013589 putative PBP binding loops; other site 400668013590 ABC-ATPase subunit interface; other site 400668013591 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 400668013592 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 400668013593 substrate binding pocket [chemical binding]; other site 400668013594 membrane-bound complex binding site; other site 400668013595 hinge residues; other site 400668013596 Transcriptional regulators [Transcription]; Region: GntR; COG1802 400668013597 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668013598 DNA-binding site [nucleotide binding]; DNA binding site 400668013599 FCD domain; Region: FCD; pfam07729 400668013600 isoaspartyl dipeptidase; Provisional; Region: PRK10657 400668013601 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 400668013602 active site 400668013603 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668013604 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668013605 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013606 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668013607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013608 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 400668013609 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 400668013610 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 400668013611 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668013612 putative substrate translocation pore; other site 400668013613 amidohydrolase; Provisional; Region: PRK12393 400668013614 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 400668013615 active site 400668013616 putative substrate binding pocket [chemical binding]; other site 400668013617 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 400668013618 NMT1/THI5 like; Region: NMT1; pfam09084 400668013619 membrane-bound complex binding site; other site 400668013620 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 400668013621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013622 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 400668013623 dimerization interface [polypeptide binding]; other site 400668013624 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 400668013625 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 400668013626 dimer interface [polypeptide binding]; other site 400668013627 NADP binding site [chemical binding]; other site 400668013628 catalytic residues [active] 400668013629 dihydroxy-acid dehydratase; Validated; Region: PRK06131 400668013630 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 400668013631 classical (c) SDRs; Region: SDR_c; cd05233 400668013632 NAD(P) binding site [chemical binding]; other site 400668013633 active site 400668013634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 400668013635 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 400668013636 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668013637 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 400668013638 TM-ABC transporter signature motif; other site 400668013639 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668013640 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668013641 Walker A/P-loop; other site 400668013642 ATP binding site [chemical binding]; other site 400668013643 Q-loop/lid; other site 400668013644 ABC transporter signature motif; other site 400668013645 Walker B; other site 400668013646 D-loop; other site 400668013647 H-loop/switch region; other site 400668013648 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668013649 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 400668013650 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 400668013651 putative ligand binding site [chemical binding]; other site 400668013652 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 400668013653 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 400668013654 TrkA-N domain; Region: TrkA_N; pfam02254 400668013655 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 400668013656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 400668013657 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 400668013658 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 400668013659 active site 400668013660 dimer interface [polypeptide binding]; other site 400668013661 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 400668013662 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 400668013663 active site 400668013664 FMN binding site [chemical binding]; other site 400668013665 substrate binding site [chemical binding]; other site 400668013666 3Fe-4S cluster binding site [ion binding]; other site 400668013667 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 400668013668 domain interface; other site 400668013669 AAA ATPase domain; Region: AAA_16; pfam13191 400668013670 AAA domain; Region: AAA_22; pfam13401 400668013671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 400668013672 cell division protein DamX; Validated; Region: PRK10905 400668013673 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 400668013674 active site 400668013675 dimer interface [polypeptide binding]; other site 400668013676 metal binding site [ion binding]; metal-binding site 400668013677 shikimate kinase; Reviewed; Region: aroK; PRK00131 400668013678 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 400668013679 ADP binding site [chemical binding]; other site 400668013680 magnesium binding site [ion binding]; other site 400668013681 putative shikimate binding site; other site 400668013682 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 400668013683 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 400668013684 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 400668013685 Transglycosylase; Region: Transgly; pfam00912 400668013686 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 400668013687 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 400668013688 Malic enzyme, N-terminal domain; Region: malic; pfam00390 400668013689 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 400668013690 putative NAD(P) binding site [chemical binding]; other site 400668013691 Staphylococcal nuclease homologues; Region: SNc; smart00318 400668013692 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 400668013693 Catalytic site; other site 400668013694 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 400668013695 primosome assembly protein PriA; Validated; Region: PRK05580 400668013696 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 400668013697 ATP binding site [chemical binding]; other site 400668013698 putative Mg++ binding site [ion binding]; other site 400668013699 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 400668013700 nucleotide binding region [chemical binding]; other site 400668013701 ATP-binding site [chemical binding]; other site 400668013702 Sporulation related domain; Region: SPOR; pfam05036 400668013703 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 400668013704 active site 400668013705 HslU subunit interaction site [polypeptide binding]; other site 400668013706 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 400668013707 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 400668013708 Walker A motif; other site 400668013709 ATP binding site [chemical binding]; other site 400668013710 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 400668013711 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 400668013712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 400668013713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 400668013714 SCP-2 sterol transfer family; Region: SCP2; pfam02036 400668013715 EamA-like transporter family; Region: EamA; pfam00892 400668013716 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 400668013717 active site 400668013718 homodimer interface [polypeptide binding]; other site 400668013719 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 400668013720 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 400668013721 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 400668013722 active site 400668013723 HIGH motif; other site 400668013724 KMSK motif region; other site 400668013725 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 400668013726 tRNA binding surface [nucleotide binding]; other site 400668013727 anticodon binding site; other site 400668013728 threonine dehydratase; Reviewed; Region: PRK09224 400668013729 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 400668013730 tetramer interface [polypeptide binding]; other site 400668013731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668013732 catalytic residue [active] 400668013733 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 400668013734 putative Ile/Val binding site [chemical binding]; other site 400668013735 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 400668013736 putative Ile/Val binding site [chemical binding]; other site 400668013737 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 400668013738 tetramer (dimer of dimers) interface [polypeptide binding]; other site 400668013739 active site 400668013740 dimer interface [polypeptide binding]; other site 400668013741 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 400668013742 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 400668013743 Cl binding site [ion binding]; other site 400668013744 oligomer interface [polypeptide binding]; other site 400668013745 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 400668013746 AMP binding site [chemical binding]; other site 400668013747 metal binding site [ion binding]; metal-binding site 400668013748 active site 400668013749 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 400668013750 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 400668013751 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 400668013752 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 400668013753 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013754 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668013755 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668013756 LysE type translocator; Region: LysE; cl00565 400668013757 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668013758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013759 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 400668013760 substrate binding pocket [chemical binding]; other site 400668013761 dimerization interface [polypeptide binding]; other site 400668013762 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 400668013763 putative substrate translocation pore; other site 400668013764 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 400668013765 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 400668013766 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 400668013767 Walker A motif; other site 400668013768 ATP binding site [chemical binding]; other site 400668013769 Walker B motif; other site 400668013770 arginine finger; other site 400668013771 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 400668013772 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 400668013773 active site 400668013774 catalytic triad [active] 400668013775 GMP synthase; Reviewed; Region: guaA; PRK00074 400668013776 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 400668013777 AMP/PPi binding site [chemical binding]; other site 400668013778 candidate oxyanion hole; other site 400668013779 catalytic triad [active] 400668013780 potential glutamine specificity residues [chemical binding]; other site 400668013781 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 400668013782 ATP Binding subdomain [chemical binding]; other site 400668013783 Ligand Binding sites [chemical binding]; other site 400668013784 Dimerization subdomain; other site 400668013785 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 400668013786 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 400668013787 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 400668013788 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 400668013789 active site 400668013790 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 400668013791 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 400668013792 generic binding surface II; other site 400668013793 generic binding surface I; other site 400668013794 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 400668013795 metabolite-proton symporter; Region: 2A0106; TIGR00883 400668013796 putative substrate translocation pore; other site 400668013797 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 400668013798 hypothetical protein; Provisional; Region: PRK07079 400668013799 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 400668013800 metal binding site [ion binding]; metal-binding site 400668013801 putative dimer interface [polypeptide binding]; other site 400668013802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668013803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668013804 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 400668013805 dimerization interface [polypeptide binding]; other site 400668013806 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 400668013807 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668013808 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668013809 dimer interface [polypeptide binding]; other site 400668013810 putative CheW interface [polypeptide binding]; other site 400668013811 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668013812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668013813 active site 400668013814 phosphorylation site [posttranslational modification] 400668013815 intermolecular recognition site; other site 400668013816 dimerization interface [polypeptide binding]; other site 400668013817 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 400668013818 Walker A motif; other site 400668013819 ATP binding site [chemical binding]; other site 400668013820 Walker B motif; other site 400668013821 arginine finger; other site 400668013822 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668013823 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668013824 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 400668013825 dimer interface [polypeptide binding]; other site 400668013826 phosphorylation site [posttranslational modification] 400668013827 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 400668013828 ATP binding site [chemical binding]; other site 400668013829 Mg2+ binding site [ion binding]; other site 400668013830 G-X-G motif; other site 400668013831 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 400668013832 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 400668013833 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 400668013834 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 400668013835 DctM-like transporters; Region: DctM; pfam06808 400668013836 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 400668013837 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 400668013838 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 400668013839 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668013840 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 400668013841 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 400668013842 dimer interface [polypeptide binding]; other site 400668013843 phosphorylation site [posttranslational modification] 400668013844 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 400668013845 ATP binding site [chemical binding]; other site 400668013846 Mg2+ binding site [ion binding]; other site 400668013847 G-X-G motif; other site 400668013848 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668013849 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668013850 active site 400668013851 phosphorylation site [posttranslational modification] 400668013852 intermolecular recognition site; other site 400668013853 dimerization interface [polypeptide binding]; other site 400668013854 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 400668013855 DNA binding site [nucleotide binding] 400668013856 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 400668013857 EamA-like transporter family; Region: EamA; pfam00892 400668013858 EamA-like transporter family; Region: EamA; pfam00892 400668013859 Ion transport protein; Region: Ion_trans; pfam00520 400668013860 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 400668013861 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 400668013862 NAD binding site [chemical binding]; other site 400668013863 catalytic residues [active] 400668013864 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 400668013865 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 400668013866 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400668013867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668013868 NAD(P) binding site [chemical binding]; other site 400668013869 active site 400668013870 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 400668013871 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668013872 substrate binding site [chemical binding]; other site 400668013873 ATP binding site [chemical binding]; other site 400668013874 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668013875 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 400668013876 TM-ABC transporter signature motif; other site 400668013877 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668013878 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 400668013879 TM-ABC transporter signature motif; other site 400668013880 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 400668013881 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668013882 Walker A/P-loop; other site 400668013883 ATP binding site [chemical binding]; other site 400668013884 Q-loop/lid; other site 400668013885 ABC transporter signature motif; other site 400668013886 Walker B; other site 400668013887 D-loop; other site 400668013888 H-loop/switch region; other site 400668013889 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 400668013890 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 400668013891 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 400668013892 putative ligand binding site [chemical binding]; other site 400668013893 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 400668013894 intersubunit interface [polypeptide binding]; other site 400668013895 active site 400668013896 Zn2+ binding site [ion binding]; other site 400668013897 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668013898 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 400668013899 NAD(P) binding site [chemical binding]; other site 400668013900 active site 400668013901 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 400668013902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668013903 DNA-binding site [nucleotide binding]; DNA binding site 400668013904 UTRA domain; Region: UTRA; pfam07702 400668013905 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 400668013906 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668013907 putative substrate translocation pore; other site 400668013908 (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 400668013909 dimer interaction site [polypeptide binding]; other site 400668013910 substrate-binding tunnel; other site 400668013911 active site 400668013912 catalytic site [active] 400668013913 substrate binding site [chemical binding]; other site 400668013914 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 400668013915 DUF35 OB-fold domain; Region: DUF35; pfam01796 400668013916 thiolase; Provisional; Region: PRK06158 400668013917 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 400668013918 active site 400668013919 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 400668013920 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 400668013921 acyl-activating enzyme (AAE) consensus motif; other site 400668013922 putative AMP binding site [chemical binding]; other site 400668013923 putative active site [active] 400668013924 putative CoA binding site [chemical binding]; other site 400668013925 putative acyltransferase; Provisional; Region: PRK05790 400668013926 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 400668013927 dimer interface [polypeptide binding]; other site 400668013928 active site 400668013929 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 400668013930 Mechanosensitive ion channel; Region: MS_channel; pfam00924 400668013931 Predicted permeases [General function prediction only]; Region: COG0679 400668013932 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668013933 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 400668013934 putative ligand binding site [chemical binding]; other site 400668013935 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 400668013936 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 400668013937 Walker A/P-loop; other site 400668013938 ATP binding site [chemical binding]; other site 400668013939 Q-loop/lid; other site 400668013940 ABC transporter signature motif; other site 400668013941 Walker B; other site 400668013942 D-loop; other site 400668013943 H-loop/switch region; other site 400668013944 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 400668013945 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 400668013946 TM-ABC transporter signature motif; other site 400668013947 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 400668013948 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 400668013949 ligand binding site [chemical binding]; other site 400668013950 PAS domain; Region: PAS; smart00091 400668013951 PAS fold; Region: PAS_7; pfam12860 400668013952 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 400668013953 dimer interface [polypeptide binding]; other site 400668013954 phosphorylation site [posttranslational modification] 400668013955 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 400668013956 ATP binding site [chemical binding]; other site 400668013957 G-X-G motif; other site 400668013958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668013959 Response regulator receiver domain; Region: Response_reg; pfam00072 400668013960 active site 400668013961 phosphorylation site [posttranslational modification] 400668013962 intermolecular recognition site; other site 400668013963 dimerization interface [polypeptide binding]; other site 400668013964 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668013965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668013966 active site 400668013967 phosphorylation site [posttranslational modification] 400668013968 intermolecular recognition site; other site 400668013969 dimerization interface [polypeptide binding]; other site 400668013970 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 400668013971 DNA binding site [nucleotide binding] 400668013972 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 400668013973 catalytic loop [active] 400668013974 iron binding site [ion binding]; other site 400668013975 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 400668013976 ATP binding site [chemical binding]; other site 400668013977 putative Mg++ binding site [ion binding]; other site 400668013978 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 400668013979 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 400668013980 ATP binding site [chemical binding]; other site 400668013981 putative Mg++ binding site [ion binding]; other site 400668013982 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 400668013983 nucleotide binding region [chemical binding]; other site 400668013984 ATP-binding site [chemical binding]; other site 400668013985 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 400668013986 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 400668013987 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 400668013988 WYL domain; Region: WYL; pfam13280 400668013989 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 400668013990 active site 400668013991 NTP binding site [chemical binding]; other site 400668013992 metal binding triad [ion binding]; metal-binding site 400668013993 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 400668013994 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 400668013995 Walker A motif; other site 400668013996 ATP binding site [chemical binding]; other site 400668013997 Walker B motif; other site 400668013998 arginine finger; other site 400668013999 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 400668014000 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 400668014001 active site 400668014002 catalytic site [active] 400668014003 substrate binding site [chemical binding]; other site 400668014004 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 400668014005 Transposase domain (DUF772); Region: DUF772; pfam05598 400668014006 Transposase domain (DUF772); Region: DUF772; pfam05598 400668014007 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 400668014008 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 400668014009 active site 400668014010 catalytic residues [active] 400668014011 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 400668014012 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 400668014013 Protein of unknown function DUF262; Region: DUF262; pfam03235 400668014014 Uncharacterized conserved protein [Function unknown]; Region: COG1479 400668014015 Protein of unknown function DUF262; Region: DUF262; pfam03235 400668014016 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 400668014017 non-specific DNA binding site [nucleotide binding]; other site 400668014018 salt bridge; other site 400668014019 sequence-specific DNA binding site [nucleotide binding]; other site 400668014020 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 400668014021 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 400668014022 ATP binding site [chemical binding]; other site 400668014023 putative Mg++ binding site [ion binding]; other site 400668014024 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 400668014025 active site 400668014026 catalytic residues [active] 400668014027 DNA binding site [nucleotide binding] 400668014028 Int/Topo IB signature motif; other site 400668014029 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 400668014030 active site 400668014031 catalytic residues [active] 400668014032 DNA binding site [nucleotide binding] 400668014033 Int/Topo IB signature motif; other site 400668014034 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 400668014035 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 400668014036 nucleotide binding region [chemical binding]; other site 400668014037 ATP-binding site [chemical binding]; other site 400668014038 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 400668014039 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 400668014040 Ecdysteroid kinase; Region: EcKinase; cl17738 400668014041 Phosphotransferase enzyme family; Region: APH; pfam01636 400668014042 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 400668014043 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 400668014044 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 400668014045 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 400668014046 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 400668014047 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 400668014048 lipoprotein signal peptidase; Provisional; Region: PRK14787 400668014049 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 400668014050 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 400668014051 active site 400668014052 HIGH motif; other site 400668014053 nucleotide binding site [chemical binding]; other site 400668014054 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 400668014055 active site 400668014056 KMSKS motif; other site 400668014057 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 400668014058 tRNA binding surface [nucleotide binding]; other site 400668014059 anticodon binding site; other site 400668014060 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 400668014061 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 400668014062 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 400668014063 active site 400668014064 Riboflavin kinase; Region: Flavokinase; pfam01687 400668014065 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 400668014066 MviN-like protein; Region: MVIN; pfam03023 400668014067 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 400668014068 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 400668014069 gamma-glutamyl kinase; Provisional; Region: PRK05429 400668014070 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 400668014071 nucleotide binding site [chemical binding]; other site 400668014072 homotetrameric interface [polypeptide binding]; other site 400668014073 putative phosphate binding site [ion binding]; other site 400668014074 putative allosteric binding site; other site 400668014075 PUA domain; Region: PUA; pfam01472 400668014076 GTPase CgtA; Reviewed; Region: obgE; PRK12298 400668014077 GTP1/OBG; Region: GTP1_OBG; pfam01018 400668014078 Obg GTPase; Region: Obg; cd01898 400668014079 G1 box; other site 400668014080 GTP/Mg2+ binding site [chemical binding]; other site 400668014081 Switch I region; other site 400668014082 G2 box; other site 400668014083 G3 box; other site 400668014084 Switch II region; other site 400668014085 G4 box; other site 400668014086 G5 box; other site 400668014087 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 400668014088 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 400668014089 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 400668014090 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 400668014091 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 400668014092 substrate binding pocket [chemical binding]; other site 400668014093 chain length determination region; other site 400668014094 substrate-Mg2+ binding site; other site 400668014095 catalytic residues [active] 400668014096 aspartate-rich region 1; other site 400668014097 active site lid residues [active] 400668014098 aspartate-rich region 2; other site 400668014099 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 400668014100 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 400668014101 active site 1 [active] 400668014102 dimer interface [polypeptide binding]; other site 400668014103 active site 2 [active] 400668014104 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 400668014105 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 400668014106 dimer interface [polypeptide binding]; other site 400668014107 active site 400668014108 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668014109 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 400668014110 putative acyl-acceptor binding pocket; other site 400668014111 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 400668014112 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 400668014113 putative acyl-acceptor binding pocket; other site 400668014114 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 400668014115 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 400668014116 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668014117 Peptidase M16C associated; Region: M16C_assoc; pfam08367 400668014118 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 400668014119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 400668014120 Smr domain; Region: Smr; pfam01713 400668014121 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 400668014122 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 400668014123 dimer interface [polypeptide binding]; other site 400668014124 ssDNA binding site [nucleotide binding]; other site 400668014125 tetramer (dimer of dimers) interface [polypeptide binding]; other site 400668014126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 400668014127 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 400668014128 putative substrate translocation pore; other site 400668014129 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 400668014130 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 400668014131 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 400668014132 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 400668014133 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 400668014134 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 400668014135 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 400668014136 alphaNTD homodimer interface [polypeptide binding]; other site 400668014137 alphaNTD - beta interaction site [polypeptide binding]; other site 400668014138 alphaNTD - beta' interaction site [polypeptide binding]; other site 400668014139 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 400668014140 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 400668014141 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 400668014142 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 400668014143 RNA binding surface [nucleotide binding]; other site 400668014144 30S ribosomal protein S11; Validated; Region: PRK05309 400668014145 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 400668014146 30S ribosomal protein S13; Region: bact_S13; TIGR03631 400668014147 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 400668014148 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 400668014149 SecY translocase; Region: SecY; pfam00344 400668014150 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 400668014151 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 400668014152 23S rRNA binding site [nucleotide binding]; other site 400668014153 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 400668014154 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 400668014155 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 400668014156 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 400668014157 5S rRNA interface [nucleotide binding]; other site 400668014158 23S rRNA interface [nucleotide binding]; other site 400668014159 L5 interface [polypeptide binding]; other site 400668014160 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 400668014161 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 400668014162 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 400668014163 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 400668014164 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 400668014165 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 400668014166 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 400668014167 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 400668014168 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 400668014169 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 400668014170 RNA binding site [nucleotide binding]; other site 400668014171 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 400668014172 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 400668014173 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 400668014174 23S rRNA interface [nucleotide binding]; other site 400668014175 putative translocon interaction site; other site 400668014176 signal recognition particle (SRP54) interaction site; other site 400668014177 L23 interface [polypeptide binding]; other site 400668014178 trigger factor interaction site; other site 400668014179 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 400668014180 23S rRNA interface [nucleotide binding]; other site 400668014181 5S rRNA interface [nucleotide binding]; other site 400668014182 putative antibiotic binding site [chemical binding]; other site 400668014183 L25 interface [polypeptide binding]; other site 400668014184 L27 interface [polypeptide binding]; other site 400668014185 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 400668014186 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 400668014187 G-X-X-G motif; other site 400668014188 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 400668014189 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 400668014190 putative translocon binding site; other site 400668014191 protein-rRNA interface [nucleotide binding]; other site 400668014192 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 400668014193 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 400668014194 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 400668014195 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 400668014196 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 400668014197 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 400668014198 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 400668014199 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 400668014200 elongation factor Tu; Reviewed; Region: PRK00049 400668014201 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 400668014202 G1 box; other site 400668014203 GEF interaction site [polypeptide binding]; other site 400668014204 GTP/Mg2+ binding site [chemical binding]; other site 400668014205 Switch I region; other site 400668014206 G2 box; other site 400668014207 G3 box; other site 400668014208 Switch II region; other site 400668014209 G4 box; other site 400668014210 G5 box; other site 400668014211 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 400668014212 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 400668014213 Antibiotic Binding Site [chemical binding]; other site 400668014214 elongation factor G; Reviewed; Region: PRK00007 400668014215 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 400668014216 G1 box; other site 400668014217 putative GEF interaction site [polypeptide binding]; other site 400668014218 GTP/Mg2+ binding site [chemical binding]; other site 400668014219 Switch I region; other site 400668014220 G2 box; other site 400668014221 G3 box; other site 400668014222 Switch II region; other site 400668014223 G4 box; other site 400668014224 G5 box; other site 400668014225 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 400668014226 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 400668014227 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 400668014228 30S ribosomal protein S7; Validated; Region: PRK05302 400668014229 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 400668014230 S17 interaction site [polypeptide binding]; other site 400668014231 S8 interaction site; other site 400668014232 16S rRNA interaction site [nucleotide binding]; other site 400668014233 streptomycin interaction site [chemical binding]; other site 400668014234 23S rRNA interaction site [nucleotide binding]; other site 400668014235 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 400668014236 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 400668014237 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 400668014238 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 400668014239 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 400668014240 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 400668014241 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 400668014242 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 400668014243 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 400668014244 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 400668014245 DNA binding site [nucleotide binding] 400668014246 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 400668014247 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 400668014248 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 400668014249 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 400668014250 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 400668014251 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 400668014252 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 400668014253 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 400668014254 RPB1 interaction site [polypeptide binding]; other site 400668014255 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 400668014256 core dimer interface [polypeptide binding]; other site 400668014257 peripheral dimer interface [polypeptide binding]; other site 400668014258 L10 interface [polypeptide binding]; other site 400668014259 L11 interface [polypeptide binding]; other site 400668014260 putative EF-Tu interaction site [polypeptide binding]; other site 400668014261 putative EF-G interaction site [polypeptide binding]; other site 400668014262 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 400668014263 23S rRNA interface [nucleotide binding]; other site 400668014264 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 400668014265 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 400668014266 mRNA/rRNA interface [nucleotide binding]; other site 400668014267 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 400668014268 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 400668014269 23S rRNA interface [nucleotide binding]; other site 400668014270 L7/L12 interface [polypeptide binding]; other site 400668014271 putative thiostrepton binding site; other site 400668014272 L25 interface [polypeptide binding]; other site 400668014273 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 400668014274 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 400668014275 putative homodimer interface [polypeptide binding]; other site 400668014276 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 400668014277 heterodimer interface [polypeptide binding]; other site 400668014278 homodimer interface [polypeptide binding]; other site 400668014279 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 400668014280 Sporulation related domain; Region: SPOR; pfam05036 400668014281 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 400668014282 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 400668014283 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 400668014284 dimerization interface [polypeptide binding]; other site 400668014285 putative Zn2+ binding site [ion binding]; other site 400668014286 putative DNA binding site [nucleotide binding]; other site 400668014287 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 400668014288 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 400668014289 Esterase/lipase [General function prediction only]; Region: COG1647 400668014290 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 400668014291 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 400668014292 beta-galactosidase; Region: BGL; TIGR03356 400668014293 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 400668014294 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 400668014295 PAS domain; Region: PAS; smart00091 400668014296 PAS fold; Region: PAS; pfam00989 400668014297 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 400668014298 PAS fold; Region: PAS_3; pfam08447 400668014299 putative active site [active] 400668014300 heme pocket [chemical binding]; other site 400668014301 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668014302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668014303 metal binding site [ion binding]; metal-binding site 400668014304 active site 400668014305 I-site; other site 400668014306 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 400668014307 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 400668014308 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 400668014309 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668014310 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 400668014311 DNA binding residues [nucleotide binding] 400668014312 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 400668014313 FecR protein; Region: FecR; pfam04773 400668014314 Secretin and TonB N terminus short domain; Region: STN; smart00965 400668014315 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 400668014316 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 400668014317 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 400668014318 Tetratricopeptide repeat; Region: TPR_16; pfam13432 400668014319 Protein of unknown function (DUF560); Region: DUF560; pfam04575 400668014320 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400668014321 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 400668014322 binding surface 400668014323 TPR motif; other site 400668014324 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400668014325 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400668014326 Tetratricopeptide repeat; Region: TPR_12; pfam13424 400668014327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668014328 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 400668014329 dimer interface [polypeptide binding]; other site 400668014330 conserved gate region; other site 400668014331 putative PBP binding loops; other site 400668014332 ABC-ATPase subunit interface; other site 400668014333 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 400668014334 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 400668014335 dimer interface [polypeptide binding]; other site 400668014336 putative PBP binding loops; other site 400668014337 ABC-ATPase subunit interface; other site 400668014338 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 400668014339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668014340 Walker A/P-loop; other site 400668014341 ATP binding site [chemical binding]; other site 400668014342 Q-loop/lid; other site 400668014343 ABC transporter signature motif; other site 400668014344 Walker B; other site 400668014345 D-loop; other site 400668014346 H-loop/switch region; other site 400668014347 TOBE domain; Region: TOBE_2; pfam08402 400668014348 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 400668014349 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 400668014350 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 400668014351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668014352 dimer interface [polypeptide binding]; other site 400668014353 putative CheW interface [polypeptide binding]; other site 400668014354 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 400668014355 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 400668014356 ligand binding site [chemical binding]; other site 400668014357 NAD binding site [chemical binding]; other site 400668014358 tetramer interface [polypeptide binding]; other site 400668014359 catalytic site [active] 400668014360 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 400668014361 L-serine binding site [chemical binding]; other site 400668014362 ACT domain interface; other site 400668014363 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 400668014364 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 400668014365 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 400668014366 S-adenosylmethionine binding site [chemical binding]; other site 400668014367 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 400668014368 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 400668014369 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 400668014370 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 400668014371 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 400668014372 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 400668014373 intersubunit interface [polypeptide binding]; other site 400668014374 active site 400668014375 zinc binding site [ion binding]; other site 400668014376 Na+ binding site [ion binding]; other site 400668014377 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 400668014378 Phosphoglycerate kinase; Region: PGK; pfam00162 400668014379 substrate binding site [chemical binding]; other site 400668014380 hinge regions; other site 400668014381 ADP binding site [chemical binding]; other site 400668014382 catalytic site [active] 400668014383 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 400668014384 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 400668014385 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 400668014386 transketolase; Reviewed; Region: PRK12753 400668014387 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 400668014388 TPP-binding site [chemical binding]; other site 400668014389 dimer interface [polypeptide binding]; other site 400668014390 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 400668014391 PYR/PP interface [polypeptide binding]; other site 400668014392 dimer interface [polypeptide binding]; other site 400668014393 TPP binding site [chemical binding]; other site 400668014394 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 400668014395 S-adenosylmethionine synthetase; Validated; Region: PRK05250 400668014396 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 400668014397 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 400668014398 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 400668014399 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 400668014400 RNA methyltransferase, RsmE family; Region: TIGR00046 400668014401 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 400668014402 glutathione synthetase; Provisional; Region: PRK05246 400668014403 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 400668014404 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 400668014405 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 400668014406 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 400668014407 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 400668014408 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 400668014409 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 400668014410 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 400668014411 DNA binding residues [nucleotide binding] 400668014412 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 400668014413 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 400668014414 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 400668014415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 400668014416 Walker A/P-loop; other site 400668014417 ATP binding site [chemical binding]; other site 400668014418 Q-loop/lid; other site 400668014419 ABC transporter signature motif; other site 400668014420 Walker B; other site 400668014421 D-loop; other site 400668014422 H-loop/switch region; other site 400668014423 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 400668014424 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 400668014425 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 400668014426 P loop; other site 400668014427 GTP binding site [chemical binding]; other site 400668014428 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 400668014429 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 400668014430 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 400668014431 S-adenosylmethionine binding site [chemical binding]; other site 400668014432 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 400668014433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 400668014434 dimer interface [polypeptide binding]; other site 400668014435 putative CheW interface [polypeptide binding]; other site 400668014436 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 400668014437 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 400668014438 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 400668014439 S-adenosylmethionine binding site [chemical binding]; other site 400668014440 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 400668014441 active site 400668014442 dimerization interface [polypeptide binding]; other site 400668014443 HemN family oxidoreductase; Provisional; Region: PRK05660 400668014444 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 400668014445 FeS/SAM binding site; other site 400668014446 HemN C-terminal domain; Region: HemN_C; pfam06969 400668014447 BCCT family transporter; Region: BCCT; pfam02028 400668014448 Predicted membrane protein [Function unknown]; Region: COG2119 400668014449 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 400668014450 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 400668014451 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 400668014452 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 400668014453 ligand binding site [chemical binding]; other site 400668014454 flexible hinge region; other site 400668014455 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 400668014456 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 400668014457 metal binding triad; other site 400668014458 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 400668014459 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 400668014460 active site 400668014461 catalytic site [active] 400668014462 substrate binding site [chemical binding]; other site 400668014463 Transcriptional regulators [Transcription]; Region: PurR; COG1609 400668014464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 400668014465 DNA binding site [nucleotide binding] 400668014466 domain linker motif; other site 400668014467 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 400668014468 putative dimerization interface [polypeptide binding]; other site 400668014469 putative ligand binding site [chemical binding]; other site 400668014470 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 400668014471 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 400668014472 active site 400668014473 catalytic site [active] 400668014474 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668014475 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668014476 Walker A/P-loop; other site 400668014477 ATP binding site [chemical binding]; other site 400668014478 Q-loop/lid; other site 400668014479 ABC transporter signature motif; other site 400668014480 Walker B; other site 400668014481 D-loop; other site 400668014482 H-loop/switch region; other site 400668014483 TOBE domain; Region: TOBE_2; pfam08402 400668014484 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668014485 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 400668014486 dimer interface [polypeptide binding]; other site 400668014487 conserved gate region; other site 400668014488 putative PBP binding loops; other site 400668014489 ABC-ATPase subunit interface; other site 400668014490 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 400668014491 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 400668014492 conserved gate region; other site 400668014493 putative PBP binding loops; other site 400668014494 ABC-ATPase subunit interface; other site 400668014495 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668014496 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668014497 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 400668014498 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 400668014499 putative substrate binding site [chemical binding]; other site 400668014500 putative ATP binding site [chemical binding]; other site 400668014501 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668014502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014503 active site 400668014504 phosphorylation site [posttranslational modification] 400668014505 intermolecular recognition site; other site 400668014506 dimerization interface [polypeptide binding]; other site 400668014507 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 400668014508 DNA binding site [nucleotide binding] 400668014509 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 400668014510 dimerization interface [polypeptide binding]; other site 400668014511 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 400668014512 dimer interface [polypeptide binding]; other site 400668014513 phosphorylation site [posttranslational modification] 400668014514 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 400668014515 ATP binding site [chemical binding]; other site 400668014516 Mg2+ binding site [ion binding]; other site 400668014517 G-X-G motif; other site 400668014518 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 400668014519 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 400668014520 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 400668014521 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 400668014522 dimer interface [polypeptide binding]; other site 400668014523 conserved gate region; other site 400668014524 putative PBP binding loops; other site 400668014525 ABC-ATPase subunit interface; other site 400668014526 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 400668014527 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 400668014528 dimer interface [polypeptide binding]; other site 400668014529 conserved gate region; other site 400668014530 putative PBP binding loops; other site 400668014531 ABC-ATPase subunit interface; other site 400668014532 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 400668014533 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 400668014534 Walker A/P-loop; other site 400668014535 ATP binding site [chemical binding]; other site 400668014536 Q-loop/lid; other site 400668014537 ABC transporter signature motif; other site 400668014538 Walker B; other site 400668014539 D-loop; other site 400668014540 H-loop/switch region; other site 400668014541 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 400668014542 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 400668014543 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 400668014544 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 400668014545 active site 400668014546 metal binding site [ion binding]; metal-binding site 400668014547 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 400668014548 PAS domain S-box; Region: sensory_box; TIGR00229 400668014549 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 400668014550 putative active site [active] 400668014551 heme pocket [chemical binding]; other site 400668014552 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668014553 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668014554 metal binding site [ion binding]; metal-binding site 400668014555 active site 400668014556 I-site; other site 400668014557 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 400668014558 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 400668014559 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 400668014560 substrate binding pocket [chemical binding]; other site 400668014561 membrane-bound complex binding site; other site 400668014562 hinge residues; other site 400668014563 ribonuclease PH; Reviewed; Region: rph; PRK00173 400668014564 Ribonuclease PH; Region: RNase_PH_bact; cd11362 400668014565 hexamer interface [polypeptide binding]; other site 400668014566 active site 400668014567 hypothetical protein; Provisional; Region: PRK11820 400668014568 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 400668014569 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 400668014570 HipA N-terminal domain; Region: Couple_hipA; pfam13657 400668014571 HipA-like N-terminal domain; Region: HipA_N; pfam07805 400668014572 HipA-like C-terminal domain; Region: HipA_C; pfam07804 400668014573 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 400668014574 non-specific DNA binding site [nucleotide binding]; other site 400668014575 salt bridge; other site 400668014576 sequence-specific DNA binding site [nucleotide binding]; other site 400668014577 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 400668014578 active site 400668014579 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 400668014580 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 400668014581 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 400668014582 Catalytic site [active] 400668014583 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 400668014584 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 400668014585 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 400668014586 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 400668014587 metal binding site [ion binding]; metal-binding site 400668014588 active site 400668014589 I-site; other site 400668014590 Ion transport protein; Region: Ion_trans; pfam00520 400668014591 Virulence protein [General function prediction only]; Region: COG3943 400668014592 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 400668014593 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 400668014594 Protein of unknown function (DUF524); Region: DUF524; pfam04411 400668014595 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 400668014596 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 400668014597 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 400668014598 cofactor binding site; other site 400668014599 DNA binding site [nucleotide binding] 400668014600 substrate interaction site [chemical binding]; other site 400668014601 HipA N-terminal domain; Region: Couple_hipA; pfam13657 400668014602 HipA-like N-terminal domain; Region: HipA_N; pfam07805 400668014603 HipA-like C-terminal domain; Region: HipA_C; pfam07804 400668014604 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 400668014605 non-specific DNA binding site [nucleotide binding]; other site 400668014606 salt bridge; other site 400668014607 sequence-specific DNA binding site [nucleotide binding]; other site 400668014608 Cupin domain; Region: Cupin_2; cl17218 400668014609 Helix-turn-helix domain; Region: HTH_18; pfam12833 400668014610 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668014611 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 400668014612 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 400668014613 putative substrate translocation pore; other site 400668014614 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668014615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668014616 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 400668014617 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668014618 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 400668014619 dimer interface [polypeptide binding]; other site 400668014620 phosphorylation site [posttranslational modification] 400668014621 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 400668014622 ATP binding site [chemical binding]; other site 400668014623 Mg2+ binding site [ion binding]; other site 400668014624 G-X-G motif; other site 400668014625 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 400668014626 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014627 active site 400668014628 phosphorylation site [posttranslational modification] 400668014629 intermolecular recognition site; other site 400668014630 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 400668014631 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 400668014632 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 400668014633 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 400668014634 catalytic site [active] 400668014635 G-X2-G-X-G-K; other site 400668014636 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 400668014637 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 400668014638 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 400668014639 Zn2+ binding site [ion binding]; other site 400668014640 Mg2+ binding site [ion binding]; other site 400668014641 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 400668014642 synthetase active site [active] 400668014643 NTP binding site [chemical binding]; other site 400668014644 metal binding site [ion binding]; metal-binding site 400668014645 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 400668014646 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 400668014647 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 400668014648 homotrimer interaction site [polypeptide binding]; other site 400668014649 putative active site [active] 400668014650 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 400668014651 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 400668014652 putative NAD(P) binding site [chemical binding]; other site 400668014653 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 400668014654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668014655 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 400668014656 dimerization interface [polypeptide binding]; other site 400668014657 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 400668014658 Y-family of DNA polymerases; Region: PolY; cl12025 400668014659 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 400668014660 generic binding surface II; other site 400668014661 ssDNA binding site; other site 400668014662 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 400668014663 ATP binding site [chemical binding]; other site 400668014664 putative Mg++ binding site [ion binding]; other site 400668014665 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 400668014666 nucleotide binding region [chemical binding]; other site 400668014667 ATP-binding site [chemical binding]; other site 400668014668 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 400668014669 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 400668014670 putative DNA binding site [nucleotide binding]; other site 400668014671 putative Zn2+ binding site [ion binding]; other site 400668014672 AsnC family; Region: AsnC_trans_reg; pfam01037 400668014673 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 400668014674 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 400668014675 substrate binding pocket [chemical binding]; other site 400668014676 membrane-bound complex binding site; other site 400668014677 hinge residues; other site 400668014678 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 400668014679 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 400668014680 conserved gate region; other site 400668014681 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 400668014682 dimer interface [polypeptide binding]; other site 400668014683 conserved gate region; other site 400668014684 putative PBP binding loops; other site 400668014685 ABC-ATPase subunit interface; other site 400668014686 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 400668014687 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 400668014688 dimer interface [polypeptide binding]; other site 400668014689 conserved gate region; other site 400668014690 putative PBP binding loops; other site 400668014691 ABC-ATPase subunit interface; other site 400668014692 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 400668014693 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 400668014694 Walker A/P-loop; other site 400668014695 ATP binding site [chemical binding]; other site 400668014696 Q-loop/lid; other site 400668014697 ABC transporter signature motif; other site 400668014698 Walker B; other site 400668014699 D-loop; other site 400668014700 H-loop/switch region; other site 400668014701 HDOD domain; Region: HDOD; pfam08668 400668014702 Chorismate lyase; Region: Chor_lyase; cl01230 400668014703 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 400668014704 UbiA prenyltransferase family; Region: UbiA; pfam01040 400668014705 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 400668014706 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014707 active site 400668014708 phosphorylation site [posttranslational modification] 400668014709 intermolecular recognition site; other site 400668014710 dimerization interface [polypeptide binding]; other site 400668014711 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 400668014712 DNA binding site [nucleotide binding] 400668014713 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 400668014714 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 400668014715 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 400668014716 dimer interface [polypeptide binding]; other site 400668014717 phosphorylation site [posttranslational modification] 400668014718 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 400668014719 ATP binding site [chemical binding]; other site 400668014720 Mg2+ binding site [ion binding]; other site 400668014721 G-X-G motif; other site 400668014722 Response regulator receiver domain; Region: Response_reg; pfam00072 400668014723 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014724 active site 400668014725 phosphorylation site [posttranslational modification] 400668014726 intermolecular recognition site; other site 400668014727 dimerization interface [polypeptide binding]; other site 400668014728 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 400668014729 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 400668014730 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 400668014731 peptide binding site [polypeptide binding]; other site 400668014732 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 400668014733 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 400668014734 dimer interface [polypeptide binding]; other site 400668014735 conserved gate region; other site 400668014736 putative PBP binding loops; other site 400668014737 ABC-ATPase subunit interface; other site 400668014738 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 400668014739 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 400668014740 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 400668014741 dimer interface [polypeptide binding]; other site 400668014742 conserved gate region; other site 400668014743 putative PBP binding loops; other site 400668014744 ABC-ATPase subunit interface; other site 400668014745 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 400668014746 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668014747 Walker A/P-loop; other site 400668014748 ATP binding site [chemical binding]; other site 400668014749 Q-loop/lid; other site 400668014750 ABC transporter signature motif; other site 400668014751 Walker B; other site 400668014752 D-loop; other site 400668014753 H-loop/switch region; other site 400668014754 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 400668014755 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 400668014756 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668014757 Walker A/P-loop; other site 400668014758 ATP binding site [chemical binding]; other site 400668014759 Q-loop/lid; other site 400668014760 ABC transporter signature motif; other site 400668014761 Walker B; other site 400668014762 D-loop; other site 400668014763 H-loop/switch region; other site 400668014764 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 400668014765 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 400668014766 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668014767 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 400668014768 dimer interface [polypeptide binding]; other site 400668014769 phosphorylation site [posttranslational modification] 400668014770 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 400668014771 ATP binding site [chemical binding]; other site 400668014772 Mg2+ binding site [ion binding]; other site 400668014773 G-X-G motif; other site 400668014774 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 400668014775 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 400668014776 GAF domain; Region: GAF_2; pfam13185 400668014777 transcriptional regulator PhoU; Provisional; Region: PRK11115 400668014778 PhoU domain; Region: PhoU; pfam01895 400668014779 PhoU domain; Region: PhoU; pfam01895 400668014780 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 400668014781 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 400668014782 Walker A/P-loop; other site 400668014783 ATP binding site [chemical binding]; other site 400668014784 Q-loop/lid; other site 400668014785 ABC transporter signature motif; other site 400668014786 Walker B; other site 400668014787 D-loop; other site 400668014788 H-loop/switch region; other site 400668014789 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 400668014790 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 400668014791 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 400668014792 dimer interface [polypeptide binding]; other site 400668014793 conserved gate region; other site 400668014794 putative PBP binding loops; other site 400668014795 ABC-ATPase subunit interface; other site 400668014796 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 400668014797 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 400668014798 dimer interface [polypeptide binding]; other site 400668014799 conserved gate region; other site 400668014800 putative PBP binding loops; other site 400668014801 ABC-ATPase subunit interface; other site 400668014802 PBP superfamily domain; Region: PBP_like_2; cl17296 400668014803 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 400668014804 dimerization interface [polypeptide binding]; other site 400668014805 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 400668014806 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 400668014807 ATP binding site [chemical binding]; other site 400668014808 Mg2+ binding site [ion binding]; other site 400668014809 G-X-G motif; other site 400668014810 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 400668014811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014812 active site 400668014813 phosphorylation site [posttranslational modification] 400668014814 intermolecular recognition site; other site 400668014815 dimerization interface [polypeptide binding]; other site 400668014816 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 400668014817 Walker A motif; other site 400668014818 ATP binding site [chemical binding]; other site 400668014819 Walker B motif; other site 400668014820 arginine finger; other site 400668014821 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 400668014822 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 400668014823 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 400668014824 putative ligand binding site [chemical binding]; other site 400668014825 succinic semialdehyde dehydrogenase; Region: PLN02278 400668014826 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 400668014827 tetramerization interface [polypeptide binding]; other site 400668014828 NAD(P) binding site [chemical binding]; other site 400668014829 catalytic residues [active] 400668014830 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 400668014831 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 400668014832 putative active site [active] 400668014833 metal binding site [ion binding]; metal-binding site 400668014834 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 400668014835 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 400668014836 DctM-like transporters; Region: DctM; pfam06808 400668014837 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 400668014838 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 400668014839 NAD(P) binding site [chemical binding]; other site 400668014840 Cupin domain; Region: Cupin_2; pfam07883 400668014841 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668014842 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668014843 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668014844 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 400668014845 Proline dehydrogenase; Region: Pro_dh; pfam01619 400668014846 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 400668014847 Glutamate binding site [chemical binding]; other site 400668014848 NAD binding site [chemical binding]; other site 400668014849 catalytic residues [active] 400668014850 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400668014851 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 400668014852 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 400668014853 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 400668014854 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 400668014855 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 400668014856 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 400668014857 dimer interface [polypeptide binding]; other site 400668014858 phosphorylation site [posttranslational modification] 400668014859 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 400668014860 ATP binding site [chemical binding]; other site 400668014861 Mg2+ binding site [ion binding]; other site 400668014862 G-X-G motif; other site 400668014863 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668014864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668014865 active site 400668014866 phosphorylation site [posttranslational modification] 400668014867 intermolecular recognition site; other site 400668014868 dimerization interface [polypeptide binding]; other site 400668014869 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 400668014870 DNA binding site [nucleotide binding] 400668014871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 400668014872 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 400668014873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 400668014874 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668014875 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668014876 DNA-binding site [nucleotide binding]; DNA binding site 400668014877 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 400668014878 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 400668014879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668014880 homodimer interface [polypeptide binding]; other site 400668014881 catalytic residue [active] 400668014882 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 400668014883 intersubunit interface [polypeptide binding]; other site 400668014884 active site 400668014885 Zn2+ binding site [ion binding]; other site 400668014886 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 400668014887 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 400668014888 inhibitor site; inhibition site 400668014889 active site 400668014890 dimer interface [polypeptide binding]; other site 400668014891 catalytic residue [active] 400668014892 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 400668014893 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668014894 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 400668014895 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 400668014896 putative oxidoreductase; Provisional; Region: PRK11579 400668014897 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 400668014898 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 400668014899 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 400668014900 Part of AAA domain; Region: AAA_19; pfam13245 400668014901 Family description; Region: UvrD_C_2; pfam13538 400668014902 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 400668014903 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 400668014904 pyridoxal 5'-phosphate binding site [chemical binding]; other site 400668014905 homodimer interface [polypeptide binding]; other site 400668014906 catalytic residue [active] 400668014907 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 400668014908 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 400668014909 catalytic residues [active] 400668014910 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 400668014911 active site 400668014912 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 400668014913 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 400668014914 Sulfatase; Region: Sulfatase; pfam00884 400668014915 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 400668014916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 400668014917 DNA-binding site [nucleotide binding]; DNA binding site 400668014918 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 400668014919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668014920 catalytic residue [active] 400668014921 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 400668014922 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 400668014923 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 400668014924 catalytic residue [active] 400668014925 Fe-S metabolism associated domain; Region: SufE; cl00951 400668014926 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 400668014927 Transcriptional regulator [Transcription]; Region: LysR; COG0583 400668014928 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 400668014929 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 400668014930 dimerization interface [polypeptide binding]; other site 400668014931 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 400668014932 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668014933 Walker A/P-loop; other site 400668014934 ATP binding site [chemical binding]; other site 400668014935 Q-loop/lid; other site 400668014936 ABC transporter signature motif; other site 400668014937 Walker B; other site 400668014938 D-loop; other site 400668014939 H-loop/switch region; other site 400668014940 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 400668014941 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 400668014942 Walker A/P-loop; other site 400668014943 ATP binding site [chemical binding]; other site 400668014944 Q-loop/lid; other site 400668014945 ABC transporter signature motif; other site 400668014946 Walker B; other site 400668014947 D-loop; other site 400668014948 H-loop/switch region; other site 400668014949 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 400668014950 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 400668014951 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 400668014952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 400668014953 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 400668014954 dimer interface [polypeptide binding]; other site 400668014955 conserved gate region; other site 400668014956 putative PBP binding loops; other site 400668014957 ABC-ATPase subunit interface; other site 400668014958 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 400668014959 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 400668014960 dimer interface [polypeptide binding]; other site 400668014961 conserved gate region; other site 400668014962 putative PBP binding loops; other site 400668014963 ABC-ATPase subunit interface; other site 400668014964 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_5; cd06232 400668014965 putative active site [active] 400668014966 Zn binding site [ion binding]; other site 400668014967 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 400668014968 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 400668014969 putative ATP binding site [chemical binding]; other site 400668014970 putative substrate interface [chemical binding]; other site 400668014971 Predicted transcriptional regulators [Transcription]; Region: COG1378 400668014972 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 400668014973 dimerization interface [polypeptide binding]; other site 400668014974 putative Zn2+ binding site [ion binding]; other site 400668014975 putative DNA binding site [nucleotide binding]; other site 400668014976 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 400668014977 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 400668014978 gamma subunit interface [polypeptide binding]; other site 400668014979 epsilon subunit interface [polypeptide binding]; other site 400668014980 LBP interface [polypeptide binding]; other site 400668014981 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 400668014982 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400668014983 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 400668014984 alpha subunit interaction interface [polypeptide binding]; other site 400668014985 Walker A motif; other site 400668014986 ATP binding site [chemical binding]; other site 400668014987 Walker B motif; other site 400668014988 inhibitor binding site; inhibition site 400668014989 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400668014990 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 400668014991 core domain interface [polypeptide binding]; other site 400668014992 delta subunit interface [polypeptide binding]; other site 400668014993 epsilon subunit interface [polypeptide binding]; other site 400668014994 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 400668014995 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 400668014996 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 400668014997 beta subunit interaction interface [polypeptide binding]; other site 400668014998 Walker A motif; other site 400668014999 ATP binding site [chemical binding]; other site 400668015000 Walker B motif; other site 400668015001 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 400668015002 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 400668015003 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 400668015004 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 400668015005 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 400668015006 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 400668015007 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 400668015008 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 400668015009 ATP synthase I chain; Region: ATP_synt_I; cl09170 400668015010 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 400668015011 ParB-like nuclease domain; Region: ParBc; pfam02195 400668015012 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 400668015013 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 400668015014 P-loop; other site 400668015015 Magnesium ion binding site [ion binding]; other site 400668015016 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 400668015017 Magnesium ion binding site [ion binding]; other site 400668015018 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 400668015019 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 400668015020 S-adenosylmethionine binding site [chemical binding]; other site 400668015021 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 400668015022 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 400668015023 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 400668015024 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 400668015025 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 400668015026 putative NAD(P) binding site [chemical binding]; other site 400668015027 putative substrate binding site [chemical binding]; other site 400668015028 catalytic Zn binding site [ion binding]; other site 400668015029 structural Zn binding site [ion binding]; other site 400668015030 dimer interface [polypeptide binding]; other site 400668015031 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400668015032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668015033 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 400668015034 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668015035 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 400668015036 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 400668015037 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 400668015038 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 400668015039 NADP binding site [chemical binding]; other site 400668015040 dimer interface [polypeptide binding]; other site 400668015041 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 400668015042 dimer interface [polypeptide binding]; other site 400668015043 phosphorylation site [posttranslational modification] 400668015044 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 400668015045 ATP binding site [chemical binding]; other site 400668015046 Mg2+ binding site [ion binding]; other site 400668015047 G-X-G motif; other site 400668015048 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 400668015049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 400668015050 active site 400668015051 phosphorylation site [posttranslational modification] 400668015052 intermolecular recognition site; other site 400668015053 dimerization interface [polypeptide binding]; other site 400668015054 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 400668015055 DNA binding site [nucleotide binding] 400668015056 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 400668015057 TrkA-N domain; Region: TrkA_N; pfam02254 400668015058 TrkA-C domain; Region: TrkA_C; pfam02080 400668015059 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 400668015060 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 400668015061 short chain dehydrogenase; Provisional; Region: PRK07326 400668015062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 400668015063 NAD(P) binding site [chemical binding]; other site 400668015064 active site 400668015065 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 400668015066 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 400668015067 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 400668015068 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 400668015069 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 400668015070 trmE is a tRNA modification GTPase; Region: trmE; cd04164 400668015071 G1 box; other site 400668015072 GTP/Mg2+ binding site [chemical binding]; other site 400668015073 Switch I region; other site 400668015074 G2 box; other site 400668015075 Switch II region; other site 400668015076 G3 box; other site 400668015077 G4 box; other site 400668015078 G5 box; other site 400668015079 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 400668015080 membrane protein insertase; Provisional; Region: PRK01318 400668015081 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 400668015082 Ribonuclease P; Region: Ribonuclease_P; cl00457 400668015083 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399