-- dump date 20140619_140140 -- class Genbank::misc_feature -- table misc_feature_note -- id note 491952000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 491952000002 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 491952000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 491952000004 Walker A motif; other site 491952000005 ATP binding site [chemical binding]; other site 491952000006 Walker B motif; other site 491952000007 arginine finger; other site 491952000008 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 491952000009 DnaA box-binding interface [nucleotide binding]; other site 491952000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 491952000011 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 491952000012 putative DNA binding surface [nucleotide binding]; other site 491952000013 dimer interface [polypeptide binding]; other site 491952000014 beta-clamp/clamp loader binding surface; other site 491952000015 beta-clamp/translesion DNA polymerase binding surface; other site 491952000016 recombination protein F; Reviewed; Region: recF; PRK00064 491952000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952000018 Walker A/P-loop; other site 491952000019 ATP binding site [chemical binding]; other site 491952000020 Q-loop/lid; other site 491952000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952000022 ABC transporter signature motif; other site 491952000023 Walker B; other site 491952000024 D-loop; other site 491952000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 491952000026 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 491952000027 Mg2+ binding site [ion binding]; other site 491952000028 G-X-G motif; other site 491952000029 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 491952000030 anchoring element; other site 491952000031 dimer interface [polypeptide binding]; other site 491952000032 ATP binding site [chemical binding]; other site 491952000033 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 491952000034 active site 491952000035 putative metal-binding site [ion binding]; other site 491952000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491952000037 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 491952000038 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 491952000039 NADP binding site [chemical binding]; other site 491952000040 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 491952000041 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 491952000042 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 491952000043 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 491952000044 N-terminal plug; other site 491952000045 ligand-binding site [chemical binding]; other site 491952000046 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952000047 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952000048 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 491952000049 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 491952000050 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952000051 putative substrate translocation pore; other site 491952000052 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 491952000053 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 491952000054 active site 491952000055 motif I; other site 491952000056 motif II; other site 491952000057 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 491952000058 putative deacylase active site [active] 491952000059 Cation transport protein; Region: TrkH; cl17365 491952000060 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 491952000061 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 491952000062 TrkA-N domain; Region: TrkA_N; pfam02254 491952000063 TrkA-C domain; Region: TrkA_C; pfam02080 491952000064 TrkA-N domain; Region: TrkA_N; pfam02254 491952000065 TrkA-C domain; Region: TrkA_C; pfam02080 491952000066 16S rRNA methyltransferase B; Provisional; Region: PRK10901 491952000067 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 491952000068 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 491952000069 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 491952000070 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 491952000071 putative active site [active] 491952000072 substrate binding site [chemical binding]; other site 491952000073 putative cosubstrate binding site; other site 491952000074 catalytic site [active] 491952000075 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 491952000076 substrate binding site [chemical binding]; other site 491952000077 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 491952000078 active site 491952000079 catalytic residues [active] 491952000080 metal binding site [ion binding]; metal-binding site 491952000081 DNA protecting protein DprA; Region: dprA; TIGR00732 491952000082 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 491952000083 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 491952000084 RNA binding surface [nucleotide binding]; other site 491952000085 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491952000086 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 491952000087 active site 491952000088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952000089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952000090 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 491952000091 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 491952000092 dimer interface [polypeptide binding]; other site 491952000093 active site 491952000094 DctM-like transporters; Region: DctM; pfam06808 491952000095 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 491952000096 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 491952000097 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952000098 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952000099 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952000100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952000101 dimer interface [polypeptide binding]; other site 491952000102 putative CheW interface [polypeptide binding]; other site 491952000103 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000104 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000105 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 491952000106 dimerization interface [polypeptide binding]; other site 491952000107 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 491952000108 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952000109 DNA-binding site [nucleotide binding]; DNA binding site 491952000110 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491952000111 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 491952000112 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 491952000113 metal binding site [ion binding]; metal-binding site 491952000114 substrate binding pocket [chemical binding]; other site 491952000115 putative oxidoreductase; Provisional; Region: PRK10083 491952000116 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 491952000117 putative NAD(P) binding site [chemical binding]; other site 491952000118 catalytic Zn binding site [ion binding]; other site 491952000119 structural Zn binding site [ion binding]; other site 491952000120 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952000121 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 491952000122 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 491952000123 DctM-like transporters; Region: DctM; pfam06808 491952000124 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491952000125 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 491952000126 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 491952000127 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 491952000128 mannonate dehydratase; Region: uxuA; TIGR00695 491952000129 mannonate dehydratase; Provisional; Region: PRK03906 491952000130 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952000131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000132 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 491952000133 dimerization interface [polypeptide binding]; other site 491952000134 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 491952000135 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 491952000136 inhibitor-cofactor binding pocket; inhibition site 491952000137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952000138 catalytic residue [active] 491952000139 succinic semialdehyde dehydrogenase; Region: PLN02278 491952000140 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491952000141 tetramerization interface [polypeptide binding]; other site 491952000142 NAD(P) binding site [chemical binding]; other site 491952000143 catalytic residues [active] 491952000144 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491952000145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952000146 DNA-binding site [nucleotide binding]; DNA binding site 491952000147 FCD domain; Region: FCD; pfam07729 491952000148 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 491952000149 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491952000150 Proline racemase; Region: Pro_racemase; pfam05544 491952000151 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 491952000152 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491952000153 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 491952000154 inhibitor site; inhibition site 491952000155 active site 491952000156 dimer interface [polypeptide binding]; other site 491952000157 catalytic residue [active] 491952000158 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 491952000159 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952000160 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952000161 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491952000162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952000163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952000164 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 491952000165 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 491952000166 putative acyl-acceptor binding pocket; other site 491952000167 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 491952000168 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 491952000169 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 491952000170 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 491952000171 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 491952000172 shikimate binding site; other site 491952000173 NAD(P) binding site [chemical binding]; other site 491952000174 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 491952000175 Protein of unknown function, DUF482; Region: DUF482; pfam04339 491952000176 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 491952000177 apolar tunnel; other site 491952000178 heme binding site [chemical binding]; other site 491952000179 dimerization interface [polypeptide binding]; other site 491952000180 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 491952000181 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 491952000182 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952000183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000185 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 491952000186 putative effector binding pocket; other site 491952000187 dimerization interface [polypeptide binding]; other site 491952000188 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 491952000189 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 491952000190 Class I aldolases; Region: Aldolase_Class_I; cl17187 491952000191 catalytic residue [active] 491952000192 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952000193 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952000194 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 491952000195 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952000196 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 491952000197 substrate binding site [chemical binding]; other site 491952000198 ATP binding site [chemical binding]; other site 491952000199 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952000200 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 491952000201 ligand binding site [chemical binding]; other site 491952000202 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491952000203 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952000204 Walker A/P-loop; other site 491952000205 ATP binding site [chemical binding]; other site 491952000206 Q-loop/lid; other site 491952000207 ABC transporter signature motif; other site 491952000208 Walker B; other site 491952000209 D-loop; other site 491952000210 H-loop/switch region; other site 491952000211 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952000212 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952000213 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 491952000214 TM-ABC transporter signature motif; other site 491952000215 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952000216 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491952000217 DNA binding site [nucleotide binding] 491952000218 domain linker motif; other site 491952000219 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 491952000220 dimerization interface [polypeptide binding]; other site 491952000221 ligand binding site [chemical binding]; other site 491952000222 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 491952000223 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 491952000224 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952000225 Coenzyme A binding pocket [chemical binding]; other site 491952000226 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 491952000227 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952000228 DNA-binding site [nucleotide binding]; DNA binding site 491952000229 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 491952000230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952000231 homodimer interface [polypeptide binding]; other site 491952000232 catalytic residue [active] 491952000233 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 491952000234 Protein of unknown function (DUF4079); Region: DUF4079; pfam13301 491952000235 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 491952000236 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 491952000237 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 491952000238 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 491952000239 D-pathway; other site 491952000240 Putative ubiquinol binding site [chemical binding]; other site 491952000241 Low-spin heme (heme b) binding site [chemical binding]; other site 491952000242 Putative water exit pathway; other site 491952000243 Binuclear center (heme o3/CuB) [ion binding]; other site 491952000244 K-pathway; other site 491952000245 Putative proton exit pathway; other site 491952000246 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 491952000247 Subunit I/III interface [polypeptide binding]; other site 491952000248 Subunit III/IV interface [polypeptide binding]; other site 491952000249 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 491952000250 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 491952000251 UbiA prenyltransferase family; Region: UbiA; pfam01040 491952000252 Tannase and feruloyl esterase; Region: Tannase; pfam07519 491952000253 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 491952000254 classical (c) SDRs; Region: SDR_c; cd05233 491952000255 NAD(P) binding site [chemical binding]; other site 491952000256 active site 491952000257 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 491952000258 putative active site pocket [active] 491952000259 dimerization interface [polypeptide binding]; other site 491952000260 putative catalytic residue [active] 491952000261 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 491952000262 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 491952000263 Methyltransferase small domain; Region: MTS; pfam05175 491952000264 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 491952000265 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952000266 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000267 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000268 metal binding site [ion binding]; metal-binding site 491952000269 active site 491952000270 I-site; other site 491952000271 Phytase; Region: Phytase; cl17685 491952000272 Phytase; Region: Phytase; cl17685 491952000273 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 491952000274 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952000275 dimer interface [polypeptide binding]; other site 491952000276 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 491952000277 putative CheW interface [polypeptide binding]; other site 491952000278 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952000279 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 491952000280 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952000281 Walker A/P-loop; other site 491952000282 ATP binding site [chemical binding]; other site 491952000283 Q-loop/lid; other site 491952000284 ABC transporter signature motif; other site 491952000285 Walker B; other site 491952000286 D-loop; other site 491952000287 H-loop/switch region; other site 491952000288 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491952000289 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 491952000290 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952000291 Walker A/P-loop; other site 491952000292 ATP binding site [chemical binding]; other site 491952000293 Q-loop/lid; other site 491952000294 ABC transporter signature motif; other site 491952000295 Walker B; other site 491952000296 D-loop; other site 491952000297 H-loop/switch region; other site 491952000298 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491952000299 dipeptide transporter; Provisional; Region: PRK10913 491952000300 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491952000301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000302 dimer interface [polypeptide binding]; other site 491952000303 conserved gate region; other site 491952000304 putative PBP binding loops; other site 491952000305 ABC-ATPase subunit interface; other site 491952000306 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952000307 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000308 dimer interface [polypeptide binding]; other site 491952000309 conserved gate region; other site 491952000310 putative PBP binding loops; other site 491952000311 ABC-ATPase subunit interface; other site 491952000312 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491952000313 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 491952000314 peptide binding site [polypeptide binding]; other site 491952000315 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 491952000316 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491952000317 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 491952000318 active site 491952000319 catalytic triad [active] 491952000320 oxyanion hole [active] 491952000321 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 491952000322 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 491952000323 NAD(P) binding site [chemical binding]; other site 491952000324 catalytic residues [active] 491952000325 Cache domain; Region: Cache_1; pfam02743 491952000326 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952000327 HAMP domain; Region: HAMP; pfam00672 491952000328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952000329 dimer interface [polypeptide binding]; other site 491952000330 putative CheW interface [polypeptide binding]; other site 491952000331 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491952000332 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 491952000333 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491952000334 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491952000335 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952000336 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491952000337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000338 dimer interface [polypeptide binding]; other site 491952000339 conserved gate region; other site 491952000340 putative PBP binding loops; other site 491952000341 ABC-ATPase subunit interface; other site 491952000342 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000343 dimer interface [polypeptide binding]; other site 491952000344 conserved gate region; other site 491952000345 putative PBP binding loops; other site 491952000346 ABC-ATPase subunit interface; other site 491952000347 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952000348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952000349 Walker A/P-loop; other site 491952000350 ATP binding site [chemical binding]; other site 491952000351 Q-loop/lid; other site 491952000352 ABC transporter signature motif; other site 491952000353 Walker B; other site 491952000354 D-loop; other site 491952000355 H-loop/switch region; other site 491952000356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491952000357 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 491952000358 catalytic core [active] 491952000359 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 491952000360 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 491952000361 active site 491952000362 motif I; other site 491952000363 motif II; other site 491952000364 Aldose 1-epimerase, similar to Escherichia coli c4013; Region: Aldose_epim_Ec_c4013; cd09023 491952000365 active site 491952000366 catalytic residues [active] 491952000367 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 491952000368 putative active site pocket [active] 491952000369 dimerization interface [polypeptide binding]; other site 491952000370 putative catalytic residue [active] 491952000371 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 491952000372 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 491952000373 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 491952000374 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 491952000375 DNA binding site [nucleotide binding] 491952000376 active site 491952000377 hypothetical protein; Provisional; Region: PRK10621 491952000378 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952000379 Methyltransferase domain; Region: Methyltransf_31; pfam13847 491952000380 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 491952000381 S-adenosylmethionine binding site [chemical binding]; other site 491952000382 Amb_all domain; Region: Amb_all; smart00656 491952000383 putative arabinose transporter; Provisional; Region: PRK03545 491952000384 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 491952000385 putative substrate translocation pore; other site 491952000386 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000387 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000388 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 491952000389 dimerization interface [polypeptide binding]; other site 491952000390 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491952000391 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952000392 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952000393 Coenzyme A binding pocket [chemical binding]; other site 491952000394 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 491952000395 PspA/IM30 family; Region: PspA_IM30; pfam04012 491952000396 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 491952000397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 491952000398 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 491952000399 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952000400 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952000401 Walker A/P-loop; other site 491952000402 ATP binding site [chemical binding]; other site 491952000403 Q-loop/lid; other site 491952000404 ABC transporter signature motif; other site 491952000405 Walker B; other site 491952000406 D-loop; other site 491952000407 H-loop/switch region; other site 491952000408 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952000409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000410 dimer interface [polypeptide binding]; other site 491952000411 conserved gate region; other site 491952000412 putative PBP binding loops; other site 491952000413 ABC-ATPase subunit interface; other site 491952000414 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952000415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000416 dimer interface [polypeptide binding]; other site 491952000417 conserved gate region; other site 491952000418 putative PBP binding loops; other site 491952000419 ABC-ATPase subunit interface; other site 491952000420 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952000421 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952000422 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952000423 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491952000424 DNA binding site [nucleotide binding] 491952000425 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491952000426 PAS fold; Region: PAS_3; pfam08447 491952000427 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 491952000428 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000429 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000430 metal binding site [ion binding]; metal-binding site 491952000431 active site 491952000432 I-site; other site 491952000433 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 491952000434 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952000435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952000436 Coenzyme A binding pocket [chemical binding]; other site 491952000437 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 491952000438 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952000439 Zn2+ binding site [ion binding]; other site 491952000440 Mg2+ binding site [ion binding]; other site 491952000441 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 491952000442 Phosphotransferase enzyme family; Region: APH; pfam01636 491952000443 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 491952000444 active site 491952000445 ATP binding site [chemical binding]; other site 491952000446 substrate binding site [chemical binding]; other site 491952000447 ATP-grasp enzyme, GAK system; Region: grasp_GAK; TIGR04356 491952000448 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491952000449 HprK-related kinase B; Region: HprK_rel_B; TIGR04355 491952000450 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 491952000451 active site 491952000452 metal binding site [ion binding]; metal-binding site 491952000453 amphi-Trp domain; Region: amphi-Trp; TIGR04354 491952000454 Predicted permeases [General function prediction only]; Region: RarD; COG2962 491952000455 EamA-like transporter family; Region: EamA; pfam00892 491952000456 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952000457 EamA-like transporter family; Region: EamA; pfam00892 491952000458 EamA-like transporter family; Region: EamA; pfam00892 491952000459 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 491952000460 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952000461 putative substrate translocation pore; other site 491952000462 Uncharacterized conserved protein [Function unknown]; Region: COG0398 491952000463 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 491952000464 mercuric reductase; Validated; Region: PRK06370 491952000465 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952000466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952000467 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491952000468 Protein of unknown function, DUF547; Region: DUF547; pfam04784 491952000469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000471 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 491952000472 dimerization interface [polypeptide binding]; other site 491952000473 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952000474 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491952000475 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 491952000476 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000477 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000478 metal binding site [ion binding]; metal-binding site 491952000479 active site 491952000480 I-site; other site 491952000481 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 491952000482 hypothetical protein; Provisional; Region: PRK11212 491952000483 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 491952000484 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952000485 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 491952000486 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000487 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000488 metal binding site [ion binding]; metal-binding site 491952000489 active site 491952000490 I-site; other site 491952000491 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 491952000492 MFS/sugar transport protein; Region: MFS_2; pfam13347 491952000493 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491952000494 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 491952000495 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 491952000496 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 491952000497 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952000498 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952000499 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 491952000500 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 491952000501 FMN binding site [chemical binding]; other site 491952000502 active site 491952000503 substrate binding site [chemical binding]; other site 491952000504 catalytic residue [active] 491952000505 methionine aminotransferase; Validated; Region: PRK09082 491952000506 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 491952000507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952000508 homodimer interface [polypeptide binding]; other site 491952000509 catalytic residue [active] 491952000510 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491952000511 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 491952000512 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 491952000513 putative substrate translocation pore; other site 491952000514 myosin-cross-reactive antigen; Provisional; Region: PRK13977 491952000515 hypothetical protein; Provisional; Region: PRK12361 491952000516 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 491952000517 active site 491952000518 catalytic residues [active] 491952000519 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 491952000520 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 491952000521 Transglycosylase; Region: Transgly; cl17702 491952000522 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 491952000523 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 491952000524 cofactor binding site; other site 491952000525 DNA binding site [nucleotide binding] 491952000526 substrate interaction site [chemical binding]; other site 491952000527 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 491952000528 Protein of unknown function DUF262; Region: DUF262; pfam03235 491952000529 Uncharacterized conserved protein [Function unknown]; Region: COG4938 491952000530 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952000531 Walker A/P-loop; other site 491952000532 ATP binding site [chemical binding]; other site 491952000533 DNA polymerase I; Provisional; Region: PRK05755 491952000534 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 491952000535 active site 491952000536 metal binding site 1 [ion binding]; metal-binding site 491952000537 putative 5' ssDNA interaction site; other site 491952000538 metal binding site 3; metal-binding site 491952000539 metal binding site 2 [ion binding]; metal-binding site 491952000540 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 491952000541 putative DNA binding site [nucleotide binding]; other site 491952000542 putative metal binding site [ion binding]; other site 491952000543 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 491952000544 active site 491952000545 catalytic site [active] 491952000546 substrate binding site [chemical binding]; other site 491952000547 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 491952000548 active site 491952000549 DNA binding site [nucleotide binding] 491952000550 catalytic site [active] 491952000551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000553 metal binding site [ion binding]; metal-binding site 491952000554 active site 491952000555 I-site; other site 491952000556 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 491952000557 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 491952000558 putative active site [active] 491952000559 putative substrate binding site [chemical binding]; other site 491952000560 ATP binding site [chemical binding]; other site 491952000561 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 491952000562 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952000563 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 491952000564 High-affinity nickel-transport protein; Region: NicO; cl00964 491952000565 High-affinity nickel-transport protein; Region: NicO; cl00964 491952000566 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491952000567 metal binding site 2 [ion binding]; metal-binding site 491952000568 putative DNA binding helix; other site 491952000569 metal binding site 1 [ion binding]; metal-binding site 491952000570 dimer interface [polypeptide binding]; other site 491952000571 structural Zn2+ binding site [ion binding]; other site 491952000572 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 491952000573 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 491952000574 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 491952000575 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 491952000576 ABC-ATPase subunit interface; other site 491952000577 dimer interface [polypeptide binding]; other site 491952000578 putative PBP binding regions; other site 491952000579 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952000580 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 491952000581 dimerization interface [polypeptide binding]; other site 491952000582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952000583 dimer interface [polypeptide binding]; other site 491952000584 putative CheW interface [polypeptide binding]; other site 491952000585 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 491952000586 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 491952000587 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 491952000588 Outer membrane efflux protein; Region: OEP; pfam02321 491952000589 Outer membrane efflux protein; Region: OEP; pfam02321 491952000590 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491952000591 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952000592 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 491952000593 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 491952000594 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952000595 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; cd05709 491952000596 active site 491952000597 putative substrate binding region [chemical binding]; other site 491952000598 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952000599 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952000600 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952000601 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 491952000602 dimer interface [polypeptide binding]; other site 491952000603 phosphorylation site [posttranslational modification] 491952000604 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 491952000605 ATP binding site [chemical binding]; other site 491952000606 Mg2+ binding site [ion binding]; other site 491952000607 G-X-G motif; other site 491952000608 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952000609 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952000610 active site 491952000611 phosphorylation site [posttranslational modification] 491952000612 intermolecular recognition site; other site 491952000613 dimerization interface [polypeptide binding]; other site 491952000614 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 491952000615 DNA binding site [nucleotide binding] 491952000616 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 491952000617 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 491952000618 Flp pilus assembly protein CpaB; Region: pilus_cpaB; TIGR03177 491952000619 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 491952000620 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 491952000621 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 491952000622 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 491952000623 Type IV pili component [Cell motility and secretion]; Region: COG5461 491952000624 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952000625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 491952000626 active site 491952000627 phosphorylation site [posttranslational modification] 491952000628 dimerization interface [polypeptide binding]; other site 491952000629 AAA domain; Region: AAA_31; pfam13614 491952000630 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 491952000631 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 491952000632 ATP binding site [chemical binding]; other site 491952000633 Walker A motif; other site 491952000634 hexamer interface [polypeptide binding]; other site 491952000635 Walker B motif; other site 491952000636 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 491952000637 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491952000638 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 491952000639 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491952000640 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 491952000641 binding surface 491952000642 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491952000643 TPR motif; other site 491952000644 TadE-like protein; Region: TadE; pfam07811 491952000645 TadE-like protein; Region: TadE; pfam07811 491952000646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 491952000647 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 491952000648 heme binding pocket [chemical binding]; other site 491952000649 heme ligand [chemical binding]; other site 491952000650 Predicted membrane protein [Function unknown]; Region: COG2259 491952000651 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 491952000652 hypothetical protein; Provisional; Region: PRK05409 491952000653 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491952000654 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 491952000655 Putative zinc-finger; Region: zf-HC2; pfam13490 491952000656 RNA polymerase sigma factor; Provisional; Region: PRK12544 491952000657 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952000658 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 491952000659 DNA binding residues [nucleotide binding] 491952000660 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 491952000661 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 491952000662 trimer interface [polypeptide binding]; other site 491952000663 putative metal binding site [ion binding]; other site 491952000664 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 491952000665 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 491952000666 active site 491952000667 Zn binding site [ion binding]; other site 491952000668 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 491952000669 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 491952000670 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 491952000671 dimer interface [polypeptide binding]; other site 491952000672 FMN binding site [chemical binding]; other site 491952000673 H+ Antiporter protein; Region: 2A0121; TIGR00900 491952000674 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 491952000675 putative substrate translocation pore; other site 491952000676 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 491952000677 ACT domain; Region: ACT_6; pfam13740 491952000678 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 491952000679 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 491952000680 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 491952000681 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 491952000682 DNA photolyase; Region: DNA_photolyase; pfam00875 491952000683 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 491952000684 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 491952000685 PhnA protein; Region: PhnA; pfam03831 491952000686 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 491952000687 non-specific DNA binding site [nucleotide binding]; other site 491952000688 salt bridge; other site 491952000689 sequence-specific DNA binding site [nucleotide binding]; other site 491952000690 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 491952000691 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 491952000692 FAD binding pocket [chemical binding]; other site 491952000693 FAD binding motif [chemical binding]; other site 491952000694 phosphate binding motif [ion binding]; other site 491952000695 NAD binding pocket [chemical binding]; other site 491952000696 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 491952000697 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 491952000698 N-terminal plug; other site 491952000699 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 491952000700 ligand-binding site [chemical binding]; other site 491952000701 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 491952000702 muropeptide transporter; Validated; Region: ampG; cl17669 491952000703 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952000704 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952000705 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 491952000706 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491952000707 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952000708 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952000709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000711 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 491952000712 dimerization interface [polypeptide binding]; other site 491952000713 acid-resistance membrane protein; Provisional; Region: PRK10209 491952000714 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 491952000715 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 491952000716 catalytic residue [active] 491952000717 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 491952000718 catalytic residues [active] 491952000719 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952000720 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952000721 peroxiredoxin; Region: AhpC; TIGR03137 491952000722 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 491952000723 dimer interface [polypeptide binding]; other site 491952000724 decamer (pentamer of dimers) interface [polypeptide binding]; other site 491952000725 catalytic triad [active] 491952000726 peroxidatic and resolving cysteines [active] 491952000727 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 491952000728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952000729 active site 491952000730 phosphorylation site [posttranslational modification] 491952000731 dimerization interface [polypeptide binding]; other site 491952000732 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952000733 Zn2+ binding site [ion binding]; other site 491952000734 Mg2+ binding site [ion binding]; other site 491952000735 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 491952000736 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 491952000737 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 491952000738 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 491952000739 putative active site [active] 491952000740 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 491952000741 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 491952000742 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952000743 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952000744 hypothetical protein; Provisional; Region: PRK05463 491952000745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000747 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 491952000748 dimerization interface [polypeptide binding]; other site 491952000749 Protein of unknown function (DUF502); Region: DUF502; cl01107 491952000750 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 491952000751 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 491952000752 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 491952000753 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952000754 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952000755 ligand binding site [chemical binding]; other site 491952000756 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 491952000757 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952000758 active site 491952000759 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 491952000760 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 491952000761 putative active site [active] 491952000762 metal binding site [ion binding]; metal-binding site 491952000763 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952000764 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 491952000765 homodimer interface [polypeptide binding]; other site 491952000766 homotetramer interface [polypeptide binding]; other site 491952000767 active site pocket [active] 491952000768 cleavage site 491952000769 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952000770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000771 dimer interface [polypeptide binding]; other site 491952000772 conserved gate region; other site 491952000773 putative PBP binding loops; other site 491952000774 ABC-ATPase subunit interface; other site 491952000775 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952000776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000777 dimer interface [polypeptide binding]; other site 491952000778 conserved gate region; other site 491952000779 putative PBP binding loops; other site 491952000780 ABC-ATPase subunit interface; other site 491952000781 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952000782 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952000783 Walker A/P-loop; other site 491952000784 ATP binding site [chemical binding]; other site 491952000785 Q-loop/lid; other site 491952000786 ABC transporter signature motif; other site 491952000787 Walker B; other site 491952000788 D-loop; other site 491952000789 H-loop/switch region; other site 491952000790 TOBE domain; Region: TOBE_2; pfam08402 491952000791 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491952000792 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952000793 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491952000794 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491952000795 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 491952000796 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952000797 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952000798 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952000799 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 491952000800 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952000801 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000802 dimer interface [polypeptide binding]; other site 491952000803 conserved gate region; other site 491952000804 putative PBP binding loops; other site 491952000805 ABC-ATPase subunit interface; other site 491952000806 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491952000807 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000808 dimer interface [polypeptide binding]; other site 491952000809 putative PBP binding loops; other site 491952000810 ABC-ATPase subunit interface; other site 491952000811 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491952000812 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491952000813 Walker A/P-loop; other site 491952000814 ATP binding site [chemical binding]; other site 491952000815 Q-loop/lid; other site 491952000816 ABC transporter signature motif; other site 491952000817 Walker B; other site 491952000818 D-loop; other site 491952000819 H-loop/switch region; other site 491952000820 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 491952000821 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491952000822 Walker A/P-loop; other site 491952000823 ATP binding site [chemical binding]; other site 491952000824 Q-loop/lid; other site 491952000825 ABC transporter signature motif; other site 491952000826 Walker B; other site 491952000827 D-loop; other site 491952000828 H-loop/switch region; other site 491952000829 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 491952000830 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 491952000831 Walker A motif; other site 491952000832 ATP binding site [chemical binding]; other site 491952000833 Walker B motif; other site 491952000834 arginine finger; other site 491952000835 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 491952000836 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 491952000837 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952000838 EamA-like transporter family; Region: EamA; cl17759 491952000839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952000840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000841 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 491952000842 substrate binding pocket [chemical binding]; other site 491952000843 dimerization interface [polypeptide binding]; other site 491952000844 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 491952000845 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 491952000846 S-adenosylmethionine binding site [chemical binding]; other site 491952000847 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 491952000848 putative kinase; Provisional; Region: PRK09954 491952000849 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 491952000850 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 491952000851 substrate binding site [chemical binding]; other site 491952000852 ATP binding site [chemical binding]; other site 491952000853 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952000854 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952000855 metal binding site [ion binding]; metal-binding site 491952000856 active site 491952000857 I-site; other site 491952000858 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 491952000859 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491952000860 putative acyl-acceptor binding pocket; other site 491952000861 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 491952000862 G1 box; other site 491952000863 GTP/Mg2+ binding site [chemical binding]; other site 491952000864 G2 box; other site 491952000865 Switch I region; other site 491952000866 G3 box; other site 491952000867 Switch II region; other site 491952000868 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 491952000869 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 491952000870 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952000871 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 491952000872 dimerization interface [polypeptide binding]; other site 491952000873 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952000874 dimer interface [polypeptide binding]; other site 491952000875 putative CheW interface [polypeptide binding]; other site 491952000876 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952000877 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 491952000878 AsnC family; Region: AsnC_trans_reg; pfam01037 491952000879 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952000880 EamA-like transporter family; Region: EamA; pfam00892 491952000881 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 491952000882 Predicted transcriptional regulator [Transcription]; Region: COG2944 491952000883 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 491952000884 non-specific DNA binding site [nucleotide binding]; other site 491952000885 salt bridge; other site 491952000886 sequence-specific DNA binding site [nucleotide binding]; other site 491952000887 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 491952000888 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952000889 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952000890 ABC transporter; Region: ABC_tran_2; pfam12848 491952000891 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952000892 EamA-like transporter family; Region: EamA; pfam00892 491952000893 EamA-like transporter family; Region: EamA; pfam00892 491952000894 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 491952000895 ATP cone domain; Region: ATP-cone; pfam03477 491952000896 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 491952000897 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 491952000898 catalytic motif [active] 491952000899 Zn binding site [ion binding]; other site 491952000900 RibD C-terminal domain; Region: RibD_C; cl17279 491952000901 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 491952000902 putative RNA binding site [nucleotide binding]; other site 491952000903 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 491952000904 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952000905 putative substrate translocation pore; other site 491952000906 thiamine monophosphate kinase; Provisional; Region: PRK05731 491952000907 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 491952000908 ATP binding site [chemical binding]; other site 491952000909 dimerization interface [polypeptide binding]; other site 491952000910 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 491952000911 tetramer interfaces [polypeptide binding]; other site 491952000912 binuclear metal-binding site [ion binding]; other site 491952000913 phenylhydantoinase; Validated; Region: PRK08323 491952000914 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 491952000915 tetramer interface [polypeptide binding]; other site 491952000916 active site 491952000917 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 491952000918 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 491952000919 Na binding site [ion binding]; other site 491952000920 putative substrate binding site [chemical binding]; other site 491952000921 allantoate amidohydrolase; Reviewed; Region: PRK09290 491952000922 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 491952000923 active site 491952000924 metal binding site [ion binding]; metal-binding site 491952000925 dimer interface [polypeptide binding]; other site 491952000926 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 491952000927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952000928 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 491952000929 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofG subunit; Region: F420_cofG; TIGR03550 491952000930 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 491952000931 FeS/SAM binding site; other site 491952000932 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 491952000933 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit; Region: F420_cofH; TIGR03551 491952000934 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 491952000935 FeS/SAM binding site; other site 491952000936 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 491952000937 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 491952000938 dimer interface [polypeptide binding]; other site 491952000939 substrate binding site [chemical binding]; other site 491952000940 phosphate binding site [ion binding]; other site 491952000941 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 491952000942 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 491952000943 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 491952000944 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 491952000945 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491952000946 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 491952000947 F420-dependent oxidoreductase, CPS_4043 family; Region: F420_CPS_4043; TIGR03842 491952000948 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952000949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952000950 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 491952000951 dimerization interface [polypeptide binding]; other site 491952000952 substrate binding pocket [chemical binding]; other site 491952000953 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 491952000954 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 491952000955 tetrameric interface [polypeptide binding]; other site 491952000956 NAD binding site [chemical binding]; other site 491952000957 catalytic residues [active] 491952000958 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491952000959 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 491952000960 putative active site [active] 491952000961 metal binding site [ion binding]; metal-binding site 491952000962 BCCT family transporter; Region: BCCT; pfam02028 491952000963 putative CoA-transferase; Provisional; Region: PRK11430 491952000964 CoA-transferase family III; Region: CoA_transf_3; pfam02515 491952000965 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 491952000966 CoA-transferase family III; Region: CoA_transf_3; pfam02515 491952000967 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491952000968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952000969 dimer interface [polypeptide binding]; other site 491952000970 conserved gate region; other site 491952000971 putative PBP binding loops; other site 491952000972 ABC-ATPase subunit interface; other site 491952000973 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 491952000974 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952000975 substrate binding pocket [chemical binding]; other site 491952000976 membrane-bound complex binding site; other site 491952000977 hinge residues; other site 491952000978 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 491952000979 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952000980 Coenzyme A binding pocket [chemical binding]; other site 491952000981 DJ-1 family protein; Region: not_thiJ; TIGR01383 491952000982 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 491952000983 conserved cys residue [active] 491952000984 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 491952000985 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 491952000986 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 491952000987 catalytic site [active] 491952000988 subunit interface [polypeptide binding]; other site 491952000989 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 491952000990 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491952000991 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491952000992 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 491952000993 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491952000994 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491952000995 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 491952000996 IMP binding site; other site 491952000997 dimer interface [polypeptide binding]; other site 491952000998 interdomain contacts; other site 491952000999 partial ornithine binding site; other site 491952001000 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 491952001001 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 491952001002 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491952001003 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952001004 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952001005 metal binding site [ion binding]; metal-binding site 491952001006 active site 491952001007 I-site; other site 491952001008 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 491952001009 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 491952001010 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 491952001011 active site 491952001012 dimer interface [polypeptide binding]; other site 491952001013 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 491952001014 dimer interface [polypeptide binding]; other site 491952001015 active site 491952001016 pantoate--beta-alanine ligase; Region: panC; TIGR00018 491952001017 Pantoate-beta-alanine ligase; Region: PanC; cd00560 491952001018 active site 491952001019 ATP-binding site [chemical binding]; other site 491952001020 pantoate-binding site; other site 491952001021 HXXH motif; other site 491952001022 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 491952001023 oligomerization interface [polypeptide binding]; other site 491952001024 active site 491952001025 metal binding site [ion binding]; metal-binding site 491952001026 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 491952001027 catalytic center binding site [active] 491952001028 ATP binding site [chemical binding]; other site 491952001029 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 491952001030 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 491952001031 active site 491952001032 NTP binding site [chemical binding]; other site 491952001033 metal binding triad [ion binding]; metal-binding site 491952001034 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 491952001035 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 491952001036 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491952001037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 491952001038 active site 491952001039 phosphorylation site [posttranslational modification] 491952001040 intermolecular recognition site; other site 491952001041 dimerization interface [polypeptide binding]; other site 491952001042 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 491952001043 Walker A motif; other site 491952001044 ATP binding site [chemical binding]; other site 491952001045 Walker B motif; other site 491952001046 arginine finger; other site 491952001047 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 491952001048 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 491952001049 active site 491952001050 HIGH motif; other site 491952001051 nucleotide binding site [chemical binding]; other site 491952001052 active site 491952001053 KMSKS motif; other site 491952001054 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 491952001055 hypothetical protein; Provisional; Region: PRK08960 491952001056 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 491952001057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001058 homodimer interface [polypeptide binding]; other site 491952001059 catalytic residue [active] 491952001060 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 491952001061 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 491952001062 Predicted permeases [General function prediction only]; Region: COG0795 491952001063 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 491952001064 multifunctional aminopeptidase A; Provisional; Region: PRK00913 491952001065 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 491952001066 interface (dimer of trimers) [polypeptide binding]; other site 491952001067 Substrate-binding/catalytic site; other site 491952001068 Zn-binding sites [ion binding]; other site 491952001069 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 491952001070 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491952001071 active site 491952001072 HIGH motif; other site 491952001073 nucleotide binding site [chemical binding]; other site 491952001074 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491952001075 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 491952001076 active site 491952001077 KMSKS motif; other site 491952001078 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 491952001079 tRNA binding surface [nucleotide binding]; other site 491952001080 anticodon binding site; other site 491952001081 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 491952001082 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 491952001083 DNA-binding site [nucleotide binding]; DNA binding site 491952001084 RNA-binding motif; other site 491952001085 FOG: CBS domain [General function prediction only]; Region: COG0517 491952001086 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 491952001087 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 491952001088 nucleoside/Zn binding site; other site 491952001089 dimer interface [polypeptide binding]; other site 491952001090 catalytic motif [active] 491952001091 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 491952001092 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 491952001093 dimerization interface [polypeptide binding]; other site 491952001094 ATP binding site [chemical binding]; other site 491952001095 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 491952001096 dimerization interface [polypeptide binding]; other site 491952001097 ATP binding site [chemical binding]; other site 491952001098 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 491952001099 putative active site [active] 491952001100 catalytic triad [active] 491952001101 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 491952001102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001103 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 491952001104 dimerization interface [polypeptide binding]; other site 491952001105 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 491952001106 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952001107 HAMP domain; Region: HAMP; pfam00672 491952001108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952001109 dimer interface [polypeptide binding]; other site 491952001110 putative CheW interface [polypeptide binding]; other site 491952001111 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 491952001112 CoA binding domain; Region: CoA_binding; cl17356 491952001113 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 491952001114 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 491952001115 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952001116 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491952001117 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 491952001118 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 491952001119 putative active site [active] 491952001120 Zn binding site [ion binding]; other site 491952001121 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 491952001122 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 491952001123 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 491952001124 Walker A/P-loop; other site 491952001125 ATP binding site [chemical binding]; other site 491952001126 Q-loop/lid; other site 491952001127 ABC transporter signature motif; other site 491952001128 Walker B; other site 491952001129 D-loop; other site 491952001130 H-loop/switch region; other site 491952001131 TOBE-like domain; Region: TOBE_3; pfam12857 491952001132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952001133 dimer interface [polypeptide binding]; other site 491952001134 conserved gate region; other site 491952001135 putative PBP binding loops; other site 491952001136 ABC-ATPase subunit interface; other site 491952001137 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952001138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952001139 dimer interface [polypeptide binding]; other site 491952001140 conserved gate region; other site 491952001141 putative PBP binding loops; other site 491952001142 ABC-ATPase subunit interface; other site 491952001143 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491952001144 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491952001145 ammonium transporter; Region: amt; TIGR00836 491952001146 PAS domain S-box; Region: sensory_box; TIGR00229 491952001147 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 491952001148 putative active site [active] 491952001149 heme pocket [chemical binding]; other site 491952001150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952001151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952001152 metal binding site [ion binding]; metal-binding site 491952001153 active site 491952001154 I-site; other site 491952001155 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 491952001156 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 491952001157 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 491952001158 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 491952001159 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 491952001160 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491952001161 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 491952001162 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 491952001163 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 491952001164 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 491952001165 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 491952001166 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 491952001167 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 491952001168 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 491952001169 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491952001170 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 491952001171 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 491952001172 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491952001173 DinB superfamily; Region: DinB_2; pfam12867 491952001174 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 491952001175 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 491952001176 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952001177 putative acyl-acceptor binding pocket; other site 491952001178 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 491952001179 FOG: CBS domain [General function prediction only]; Region: COG0517 491952001180 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_16; cd04629 491952001181 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 491952001182 non-specific DNA binding site [nucleotide binding]; other site 491952001183 salt bridge; other site 491952001184 sequence-specific DNA binding site [nucleotide binding]; other site 491952001185 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 491952001186 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 491952001187 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 491952001188 SmpB-tmRNA interface; other site 491952001189 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 491952001190 Na2 binding site [ion binding]; other site 491952001191 putative substrate binding site 1 [chemical binding]; other site 491952001192 Na binding site 1 [ion binding]; other site 491952001193 putative substrate binding site 2 [chemical binding]; other site 491952001194 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 491952001195 putative coenzyme Q binding site [chemical binding]; other site 491952001196 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 491952001197 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 491952001198 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 491952001199 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 491952001200 metal binding site 2 [ion binding]; metal-binding site 491952001201 putative DNA binding helix; other site 491952001202 metal binding site 1 [ion binding]; metal-binding site 491952001203 dimer interface [polypeptide binding]; other site 491952001204 structural Zn2+ binding site [ion binding]; other site 491952001205 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 491952001206 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491952001207 Walker A/P-loop; other site 491952001208 ATP binding site [chemical binding]; other site 491952001209 Q-loop/lid; other site 491952001210 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 491952001211 ABC transporter signature motif; other site 491952001212 Walker B; other site 491952001213 D-loop; other site 491952001214 H-loop/switch region; other site 491952001215 GrpE; Region: GrpE; pfam01025 491952001216 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 491952001217 dimer interface [polypeptide binding]; other site 491952001218 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 491952001219 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 491952001220 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491952001221 nucleotide binding site [chemical binding]; other site 491952001222 chaperone protein DnaJ; Provisional; Region: PRK10767 491952001223 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 491952001224 HSP70 interaction site [polypeptide binding]; other site 491952001225 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 491952001226 substrate binding site [polypeptide binding]; other site 491952001227 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 491952001228 Zn binding sites [ion binding]; other site 491952001229 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 491952001230 dimer interface [polypeptide binding]; other site 491952001231 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 491952001232 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 491952001233 active site 491952001234 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 491952001235 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 491952001236 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 491952001237 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491952001238 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952001239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001240 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 491952001241 dimerization interface [polypeptide binding]; other site 491952001242 substrate binding pocket [chemical binding]; other site 491952001243 hypothetical protein; Provisional; Region: PRK10621 491952001244 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952001245 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 491952001246 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 491952001247 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 491952001248 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491952001249 glycerol kinase; Provisional; Region: glpK; PRK00047 491952001250 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 491952001251 N- and C-terminal domain interface [polypeptide binding]; other site 491952001252 active site 491952001253 MgATP binding site [chemical binding]; other site 491952001254 catalytic site [active] 491952001255 metal binding site [ion binding]; metal-binding site 491952001256 glycerol binding site [chemical binding]; other site 491952001257 homotetramer interface [polypeptide binding]; other site 491952001258 homodimer interface [polypeptide binding]; other site 491952001259 FBP binding site [chemical binding]; other site 491952001260 protein IIAGlc interface [polypeptide binding]; other site 491952001261 Protein of unknown function (DUF501); Region: DUF501; pfam04417 491952001262 PilZ domain; Region: PilZ; cl01260 491952001263 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 491952001264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952001265 DNA-binding site [nucleotide binding]; DNA binding site 491952001266 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 491952001267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001268 homodimer interface [polypeptide binding]; other site 491952001269 catalytic residue [active] 491952001270 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 491952001271 dimerization interface [polypeptide binding]; other site 491952001272 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952001273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952001274 dimer interface [polypeptide binding]; other site 491952001275 putative CheW interface [polypeptide binding]; other site 491952001276 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 491952001277 catalytic triad [active] 491952001278 dimer interface [polypeptide binding]; other site 491952001279 Amidohydrolase; Region: Amidohydro_2; pfam04909 491952001280 hypothetical protein; Provisional; Region: PRK09262 491952001281 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 491952001282 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 491952001283 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 491952001284 active site 491952001285 The A subunit of Uncharacterized proteins with similarity to Protocatechuate 4,5-dioxygenase (LigAB); Region: LigA_like_1; cd07925 491952001286 putative dimer interface [polypeptide binding]; other site 491952001287 putative tetramer interface [polypeptide binding]; other site 491952001288 putative active site [active] 491952001289 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 491952001290 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 491952001291 active site 491952001292 metal binding site [ion binding]; metal-binding site 491952001293 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491952001294 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 491952001295 putative active site [active] 491952001296 heme pocket [chemical binding]; other site 491952001297 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 491952001298 putative active site [active] 491952001299 heme pocket [chemical binding]; other site 491952001300 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952001301 dimer interface [polypeptide binding]; other site 491952001302 putative CheW interface [polypeptide binding]; other site 491952001303 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 491952001304 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491952001305 active site 491952001306 catalytic tetrad [active] 491952001307 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952001308 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952001309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952001310 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001312 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 491952001313 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 491952001314 putative dimerization interface [polypeptide binding]; other site 491952001315 Predicted permeases [General function prediction only]; Region: COG0679 491952001316 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 491952001317 Dehydroquinase class II; Region: DHquinase_II; pfam01220 491952001318 trimer interface [polypeptide binding]; other site 491952001319 active site 491952001320 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 491952001321 ArsC family; Region: ArsC; pfam03960 491952001322 catalytic residues [active] 491952001323 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 491952001324 arsenical-resistance protein; Region: acr3; TIGR00832 491952001325 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491952001326 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491952001327 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491952001328 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 491952001329 active site 491952001330 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 491952001331 putative DNA binding site [nucleotide binding]; other site 491952001332 dimerization interface [polypeptide binding]; other site 491952001333 putative Zn2+ binding site [ion binding]; other site 491952001334 HAMP domain; Region: HAMP; pfam00672 491952001335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952001336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952001337 dimer interface [polypeptide binding]; other site 491952001338 putative CheW interface [polypeptide binding]; other site 491952001339 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 491952001340 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 491952001341 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 491952001342 shikimate binding site; other site 491952001343 NAD(P) binding site [chemical binding]; other site 491952001344 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 491952001345 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001346 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 491952001347 dimerization interface [polypeptide binding]; other site 491952001348 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491952001349 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 491952001350 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 491952001351 dimer interface [polypeptide binding]; other site 491952001352 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 491952001353 active site 491952001354 Fe binding site [ion binding]; other site 491952001355 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 491952001356 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 491952001357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491952001358 proline dipeptidase; Provisional; Region: PRK13607 491952001359 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 491952001360 active site 491952001361 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 491952001362 hydrophobic ligand binding site; other site 491952001363 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 491952001364 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 491952001365 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 491952001366 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952001367 DNA-binding site [nucleotide binding]; DNA binding site 491952001368 UTRA domain; Region: UTRA; pfam07702 491952001369 HutD; Region: HutD; pfam05962 491952001370 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 491952001371 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 491952001372 active site 491952001373 urocanate hydratase; Provisional; Region: PRK05414 491952001374 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 491952001375 active sites [active] 491952001376 tetramer interface [polypeptide binding]; other site 491952001377 imidazolonepropionase; Validated; Region: PRK09356 491952001378 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 491952001379 active site 491952001380 N-formylglutamate amidohydrolase; Region: FGase; cl01522 491952001381 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 491952001382 non-specific DNA binding site [nucleotide binding]; other site 491952001383 salt bridge; other site 491952001384 sequence-specific DNA binding site [nucleotide binding]; other site 491952001385 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 491952001386 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 491952001387 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 491952001388 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 491952001389 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 491952001390 catalytic triad [active] 491952001391 dimer interface [polypeptide binding]; other site 491952001392 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 491952001393 dimer interface [polypeptide binding]; other site 491952001394 FMN binding site [chemical binding]; other site 491952001395 NADPH bind site [chemical binding]; other site 491952001396 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 491952001397 putative S-transferase; Provisional; Region: PRK11752 491952001398 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 491952001399 C-terminal domain interface [polypeptide binding]; other site 491952001400 GSH binding site (G-site) [chemical binding]; other site 491952001401 dimer interface [polypeptide binding]; other site 491952001402 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 491952001403 dimer interface [polypeptide binding]; other site 491952001404 N-terminal domain interface [polypeptide binding]; other site 491952001405 active site 491952001406 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 491952001407 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 491952001408 substrate binding site [chemical binding]; other site 491952001409 glutamase interaction surface [polypeptide binding]; other site 491952001410 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 491952001411 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 491952001412 putative active site [active] 491952001413 oxyanion strand; other site 491952001414 catalytic triad [active] 491952001415 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 491952001416 putative active site pocket [active] 491952001417 4-fold oligomerization interface [polypeptide binding]; other site 491952001418 metal binding residues [ion binding]; metal-binding site 491952001419 3-fold/trimer interface [polypeptide binding]; other site 491952001420 AsmA family; Region: AsmA; pfam05170 491952001421 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491952001422 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491952001423 adenine DNA glycosylase; Provisional; Region: PRK10880 491952001424 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491952001425 minor groove reading motif; other site 491952001426 helix-hairpin-helix signature motif; other site 491952001427 substrate binding pocket [chemical binding]; other site 491952001428 active site 491952001429 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 491952001430 DNA binding and oxoG recognition site [nucleotide binding] 491952001431 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 491952001432 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 491952001433 Chromate transporter; Region: Chromate_transp; pfam02417 491952001434 Bacterial Fe(2+) trafficking; Region: Iron_traffic; pfam04362 491952001435 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 491952001436 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 491952001437 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 491952001438 FOG: WD40 repeat [General function prediction only]; Region: COG2319 491952001439 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 491952001440 structural tetrad; other site 491952001441 Protein of unknown function (DUF423); Region: DUF423; pfam04241 491952001442 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 491952001443 S-adenosylmethionine binding site [chemical binding]; other site 491952001444 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 491952001445 Chain length determinant protein; Region: Wzz; pfam02706 491952001446 H-NS histone family; Region: Histone_HNS; pfam00816 491952001447 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 491952001448 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 491952001449 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 491952001450 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 491952001451 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 491952001452 RNA binding site [nucleotide binding]; other site 491952001453 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491952001454 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491952001455 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952001456 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001457 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 491952001458 dimerization interface [polypeptide binding]; other site 491952001459 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 491952001460 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 491952001461 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 491952001462 Substrate binding site; other site 491952001463 Mg++ binding site; other site 491952001464 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 491952001465 active site 491952001466 substrate binding site [chemical binding]; other site 491952001467 CoA binding site [chemical binding]; other site 491952001468 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 491952001469 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 491952001470 glutaminase active site [active] 491952001471 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 491952001472 dimer interface [polypeptide binding]; other site 491952001473 active site 491952001474 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 491952001475 dimer interface [polypeptide binding]; other site 491952001476 active site 491952001477 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 491952001478 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491952001479 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 491952001480 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491952001481 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952001482 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 491952001483 hypothetical protein; Provisional; Region: PRK09273 491952001484 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 491952001485 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 491952001486 Pectinesterase; Region: Pectinesterase; pfam01095 491952001487 putative pectinesterase; Region: PLN02432; cl01911 491952001488 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 491952001489 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 491952001490 G1 box; other site 491952001491 putative GEF interaction site [polypeptide binding]; other site 491952001492 GTP/Mg2+ binding site [chemical binding]; other site 491952001493 Switch I region; other site 491952001494 G2 box; other site 491952001495 G3 box; other site 491952001496 Switch II region; other site 491952001497 G4 box; other site 491952001498 G5 box; other site 491952001499 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 491952001500 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 491952001501 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 491952001502 putative active site [active] 491952001503 dimerization interface [polypeptide binding]; other site 491952001504 putative tRNAtyr binding site [nucleotide binding]; other site 491952001505 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 491952001506 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 491952001507 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 491952001508 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 491952001509 metal binding site [ion binding]; metal-binding site 491952001510 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 491952001511 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 491952001512 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 491952001513 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 491952001514 S-adenosylmethionine binding site [chemical binding]; other site 491952001515 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952001516 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952001517 metal binding site [ion binding]; metal-binding site 491952001518 active site 491952001519 I-site; other site 491952001520 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 491952001521 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 491952001522 catalytic residues [active] 491952001523 hinge region; other site 491952001524 alpha helical domain; other site 491952001525 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 491952001526 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 491952001527 G1 box; other site 491952001528 GTP/Mg2+ binding site [chemical binding]; other site 491952001529 Switch I region; other site 491952001530 G2 box; other site 491952001531 G3 box; other site 491952001532 Switch II region; other site 491952001533 G4 box; other site 491952001534 G5 box; other site 491952001535 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952001536 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 491952001537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 491952001538 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 491952001539 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 491952001540 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 491952001541 short chain dehydrogenase; Validated; Region: PRK08324 491952001542 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 491952001543 active site 491952001544 Zn2+ binding site [ion binding]; other site 491952001545 intersubunit interface [polypeptide binding]; other site 491952001546 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 491952001547 putative NAD(P) binding site [chemical binding]; other site 491952001548 active site 491952001549 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491952001550 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 491952001551 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491952001552 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 491952001553 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 491952001554 ligand binding site [chemical binding]; other site 491952001555 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491952001556 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952001557 Walker A/P-loop; other site 491952001558 ATP binding site [chemical binding]; other site 491952001559 Q-loop/lid; other site 491952001560 ABC transporter signature motif; other site 491952001561 Walker B; other site 491952001562 D-loop; other site 491952001563 H-loop/switch region; other site 491952001564 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952001565 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952001566 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 491952001567 TM-ABC transporter signature motif; other site 491952001568 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 491952001569 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952001570 TM-ABC transporter signature motif; other site 491952001571 Domain of unknown function (DUF718); Region: DUF718; cl01281 491952001572 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 491952001573 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491952001574 nucleotide binding site [chemical binding]; other site 491952001575 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 491952001576 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491952001577 Beta-Casp domain; Region: Beta-Casp; smart01027 491952001578 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491952001579 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952001580 EPS-associated transcriptional regulator, MarR family; Region: MarR_EPS; TIGR04176 491952001581 putative DNA binding site [nucleotide binding]; other site 491952001582 putative Zn2+ binding site [ion binding]; other site 491952001583 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 491952001584 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 491952001585 NADP-binding site; other site 491952001586 homotetramer interface [polypeptide binding]; other site 491952001587 substrate binding site [chemical binding]; other site 491952001588 homodimer interface [polypeptide binding]; other site 491952001589 active site 491952001590 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 491952001591 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 491952001592 NADP binding site [chemical binding]; other site 491952001593 active site 491952001594 putative substrate binding site [chemical binding]; other site 491952001595 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 491952001596 active site 491952001597 GDP-Mannose binding site [chemical binding]; other site 491952001598 dimer interface [polypeptide binding]; other site 491952001599 modified nudix motif 491952001600 metal binding site [ion binding]; metal-binding site 491952001601 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 491952001602 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 491952001603 catalytic loop [active] 491952001604 iron binding site [ion binding]; other site 491952001605 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 491952001606 FAD binding pocket [chemical binding]; other site 491952001607 conserved FAD binding motif [chemical binding]; other site 491952001608 phosphate binding motif [ion binding]; other site 491952001609 beta-alpha-beta structure motif; other site 491952001610 NAD binding pocket [chemical binding]; other site 491952001611 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 491952001612 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 491952001613 substrate binding site; other site 491952001614 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 491952001615 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 491952001616 NAD binding site [chemical binding]; other site 491952001617 homotetramer interface [polypeptide binding]; other site 491952001618 homodimer interface [polypeptide binding]; other site 491952001619 substrate binding site [chemical binding]; other site 491952001620 active site 491952001621 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 491952001622 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 491952001623 inhibitor-cofactor binding pocket; inhibition site 491952001624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001625 catalytic residue [active] 491952001626 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491952001627 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952001628 NAD(P) binding site [chemical binding]; other site 491952001629 active site 491952001630 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 491952001631 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 491952001632 Protein of unknown function (DUF3431); Region: DUF3431; pfam11913 491952001633 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 491952001634 GDP-fucose protein O-fucosyltransferase and related proteins; Region: O-FucT_like; cl16914 491952001635 GDP-Fucose binding site [chemical binding]; other site 491952001636 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491952001637 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 491952001638 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491952001639 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 491952001640 active site 491952001641 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 491952001642 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 491952001643 GDP-Fucose binding site [chemical binding]; other site 491952001644 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 491952001645 active site 491952001646 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 491952001647 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 491952001648 Substrate binding site; other site 491952001649 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 491952001650 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 491952001651 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 491952001652 active site 491952001653 substrate binding site [chemical binding]; other site 491952001654 metal binding site [ion binding]; metal-binding site 491952001655 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 491952001656 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491952001657 UDP-glucose 4-epimerase; Region: PLN02240 491952001658 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 491952001659 NAD binding site [chemical binding]; other site 491952001660 homodimer interface [polypeptide binding]; other site 491952001661 active site 491952001662 substrate binding site [chemical binding]; other site 491952001663 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 491952001664 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 491952001665 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 491952001666 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 491952001667 Ligand binding site; other site 491952001668 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491952001669 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 491952001670 Probable Catalytic site; other site 491952001671 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 491952001672 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 491952001673 NAD binding site [chemical binding]; other site 491952001674 substrate binding site [chemical binding]; other site 491952001675 homodimer interface [polypeptide binding]; other site 491952001676 active site 491952001677 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 491952001678 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 491952001679 substrate binding site; other site 491952001680 tetramer interface; other site 491952001681 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 491952001682 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 491952001683 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 491952001684 NADP binding site [chemical binding]; other site 491952001685 active site 491952001686 putative substrate binding site [chemical binding]; other site 491952001687 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 491952001688 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 491952001689 active site 491952001690 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 491952001691 Bacterial sugar transferase; Region: Bac_transf; pfam02397 491952001692 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 491952001693 O-Antigen ligase; Region: Wzy_C; pfam04932 491952001694 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 491952001695 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 491952001696 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952001697 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 491952001698 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 491952001699 putative efflux protein, MATE family; Region: matE; TIGR00797 491952001700 cation binding site [ion binding]; other site 491952001701 cobyric acid synthase; Provisional; Region: PRK00784 491952001702 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 491952001703 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 491952001704 catalytic triad [active] 491952001705 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 491952001706 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 491952001707 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 491952001708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001709 homodimer interface [polypeptide binding]; other site 491952001710 catalytic residue [active] 491952001711 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 491952001712 homotrimer interface [polypeptide binding]; other site 491952001713 Walker A motif; other site 491952001714 GTP binding site [chemical binding]; other site 491952001715 Walker B motif; other site 491952001716 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952001717 active site 491952001718 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 491952001719 succinylarginine dihydrolase; Provisional; Region: PRK13281 491952001720 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 491952001721 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 491952001722 NAD(P) binding site [chemical binding]; other site 491952001723 catalytic residues [active] 491952001724 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 491952001725 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 491952001726 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 491952001727 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 491952001728 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 491952001729 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952001730 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001731 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 491952001732 substrate binding pocket [chemical binding]; other site 491952001733 dimerization interface [polypeptide binding]; other site 491952001734 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491952001735 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491952001736 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952001737 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952001738 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952001739 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952001740 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 491952001741 dimerization interface [polypeptide binding]; other site 491952001742 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 491952001743 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 491952001744 tetrameric interface [polypeptide binding]; other site 491952001745 NAD binding site [chemical binding]; other site 491952001746 catalytic residues [active] 491952001747 Predicted periplasmic protein [Function unknown]; Region: COG3904 491952001748 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 491952001749 DNA repair protein RadA; Provisional; Region: PRK11823 491952001750 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 491952001751 Walker A motif/ATP binding site; other site 491952001752 ATP binding site [chemical binding]; other site 491952001753 Walker B motif; other site 491952001754 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 491952001755 Predicted amidohydrolase [General function prediction only]; Region: COG0388 491952001756 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 491952001757 putative active site [active] 491952001758 catalytic triad [active] 491952001759 putative dimer interface [polypeptide binding]; other site 491952001760 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 491952001761 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 491952001762 Nitrogen regulatory protein P-II; Region: P-II; smart00938 491952001763 Membrane fusogenic activity; Region: BMFP; pfam04380 491952001764 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 491952001765 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 491952001766 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 491952001767 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 491952001768 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 491952001769 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 491952001770 Sodium Bile acid symporter family; Region: SBF; cl17470 491952001771 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 491952001772 Part of AAA domain; Region: AAA_19; pfam13245 491952001773 Family description; Region: UvrD_C_2; pfam13538 491952001774 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 491952001775 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 491952001776 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 491952001777 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 491952001778 dimer interface [polypeptide binding]; other site 491952001779 active site 491952001780 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 491952001781 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 491952001782 NAD(P) binding site [chemical binding]; other site 491952001783 homotetramer interface [polypeptide binding]; other site 491952001784 homodimer interface [polypeptide binding]; other site 491952001785 active site 491952001786 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 491952001787 putative active site 1 [active] 491952001788 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 491952001789 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 491952001790 dimer interface [polypeptide binding]; other site 491952001791 active site 491952001792 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 491952001793 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 491952001794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952001795 Predicted exporter [General function prediction only]; Region: COG4258 491952001796 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 491952001797 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 491952001798 active site 491952001799 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 491952001800 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491952001801 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491952001802 acyl-activating enzyme (AAE) consensus motif; other site 491952001803 acyl-activating enzyme (AAE) consensus motif; other site 491952001804 AMP binding site [chemical binding]; other site 491952001805 active site 491952001806 CoA binding site [chemical binding]; other site 491952001807 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 491952001808 active site 2 [active] 491952001809 active site 1 [active] 491952001810 Predicted membrane protein [Function unknown]; Region: COG4648 491952001811 acyl carrier protein; Provisional; Region: PRK05350 491952001812 Phosphopantetheine attachment site; Region: PP-binding; cl09936 491952001813 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952001814 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491952001815 putative acyl-acceptor binding pocket; other site 491952001816 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 491952001817 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 491952001818 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 491952001819 N-terminal plug; other site 491952001820 ligand-binding site [chemical binding]; other site 491952001821 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952001822 Response regulator receiver domain; Region: Response_reg; pfam00072 491952001823 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952001824 active site 491952001825 phosphorylation site [posttranslational modification] 491952001826 intermolecular recognition site; other site 491952001827 dimerization interface [polypeptide binding]; other site 491952001828 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491952001829 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 491952001830 DNA binding residues [nucleotide binding] 491952001831 dimerization interface [polypeptide binding]; other site 491952001832 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491952001833 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952001834 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 491952001835 dimer interface [polypeptide binding]; other site 491952001836 phosphorylation site [posttranslational modification] 491952001837 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 491952001838 ATP binding site [chemical binding]; other site 491952001839 Mg2+ binding site [ion binding]; other site 491952001840 G-X-G motif; other site 491952001841 Response regulator receiver domain; Region: Response_reg; pfam00072 491952001842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952001843 active site 491952001844 phosphorylation site [posttranslational modification] 491952001845 intermolecular recognition site; other site 491952001846 dimerization interface [polypeptide binding]; other site 491952001847 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491952001848 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 491952001849 putative ligand binding site [chemical binding]; other site 491952001850 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952001851 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 491952001852 TM-ABC transporter signature motif; other site 491952001853 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491952001854 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 491952001855 TM-ABC transporter signature motif; other site 491952001856 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 491952001857 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491952001858 Walker A/P-loop; other site 491952001859 ATP binding site [chemical binding]; other site 491952001860 Q-loop/lid; other site 491952001861 ABC transporter signature motif; other site 491952001862 Walker B; other site 491952001863 D-loop; other site 491952001864 H-loop/switch region; other site 491952001865 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 491952001866 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491952001867 Walker A/P-loop; other site 491952001868 ATP binding site [chemical binding]; other site 491952001869 Q-loop/lid; other site 491952001870 ABC transporter signature motif; other site 491952001871 Walker B; other site 491952001872 D-loop; other site 491952001873 H-loop/switch region; other site 491952001874 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 491952001875 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 491952001876 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952001877 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 491952001878 putative C-terminal domain interface [polypeptide binding]; other site 491952001879 putative GSH binding site (G-site) [chemical binding]; other site 491952001880 putative dimer interface [polypeptide binding]; other site 491952001881 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 491952001882 putative N-terminal domain interface [polypeptide binding]; other site 491952001883 putative dimer interface [polypeptide binding]; other site 491952001884 putative substrate binding pocket (H-site) [chemical binding]; other site 491952001885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952001886 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 491952001887 putative substrate translocation pore; other site 491952001888 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 491952001889 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 491952001890 glutaminase; Provisional; Region: PRK00971 491952001891 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 491952001892 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 491952001893 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 491952001894 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 491952001895 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 491952001896 putative NADH binding site [chemical binding]; other site 491952001897 putative active site [active] 491952001898 nudix motif; other site 491952001899 putative metal binding site [ion binding]; other site 491952001900 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 491952001901 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 491952001902 NAD(P) binding site [chemical binding]; other site 491952001903 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 491952001904 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 491952001905 substrate-cofactor binding pocket; other site 491952001906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001907 catalytic residue [active] 491952001908 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 491952001909 putative active site [active] 491952001910 putative metal binding site [ion binding]; other site 491952001911 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 491952001912 Protein of unknown function (DUF904); Region: DUF904; pfam06005 491952001913 LPP20 lipoprotein; Region: LPP20; pfam02169 491952001914 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 491952001915 active site 491952001916 DNA polymerase IV; Validated; Region: PRK02406 491952001917 DNA binding site [nucleotide binding] 491952001918 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 491952001919 active site 491952001920 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 491952001921 Serine hydrolase (FSH1); Region: FSH1; pfam03959 491952001922 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491952001923 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 491952001924 active site 491952001925 dimerization interface [polypeptide binding]; other site 491952001926 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 491952001927 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491952001928 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 491952001929 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 491952001930 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491952001931 Protein of unknown function DUF72; Region: DUF72; cl00777 491952001932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 491952001933 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 491952001934 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 491952001935 nudix motif; other site 491952001936 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 491952001937 Domain of unknown function DUF21; Region: DUF21; pfam01595 491952001938 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 491952001939 Transporter associated domain; Region: CorC_HlyC; smart01091 491952001940 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 491952001941 signal recognition particle protein; Provisional; Region: PRK10867 491952001942 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 491952001943 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 491952001944 P loop; other site 491952001945 GTP binding site [chemical binding]; other site 491952001946 Signal peptide binding domain; Region: SRP_SPB; pfam02978 491952001947 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 491952001948 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 491952001949 RimM N-terminal domain; Region: RimM; pfam01782 491952001950 PRC-barrel domain; Region: PRC; pfam05239 491952001951 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 491952001952 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 491952001953 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 491952001954 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 491952001955 dimerization domain [polypeptide binding]; other site 491952001956 dimer interface [polypeptide binding]; other site 491952001957 catalytic residues [active] 491952001958 homoserine dehydrogenase; Provisional; Region: PRK06349 491952001959 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 491952001960 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 491952001961 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 491952001962 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 491952001963 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 491952001964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952001965 catalytic residue [active] 491952001966 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 491952001967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952001968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952001969 metal binding site [ion binding]; metal-binding site 491952001970 active site 491952001971 I-site; other site 491952001972 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 491952001973 DHH family; Region: DHH; pfam01368 491952001974 DHHA1 domain; Region: DHHA1; pfam02272 491952001975 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 491952001976 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491952001977 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491952001978 homodimer interface [polypeptide binding]; other site 491952001979 NADP binding site [chemical binding]; other site 491952001980 substrate binding site [chemical binding]; other site 491952001981 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 491952001982 proline aminopeptidase P II; Provisional; Region: PRK10879 491952001983 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 491952001984 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 491952001985 active site 491952001986 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952001987 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 491952001988 HDOD domain; Region: HDOD; pfam08668 491952001989 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952001990 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491952001991 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491952001992 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952001993 dimer interface [polypeptide binding]; other site 491952001994 conserved gate region; other site 491952001995 putative PBP binding loops; other site 491952001996 ABC-ATPase subunit interface; other site 491952001997 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952001998 ABC-ATPase subunit interface; other site 491952001999 putative PBP binding loops; other site 491952002000 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952002001 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 491952002002 Walker A/P-loop; other site 491952002003 ATP binding site [chemical binding]; other site 491952002004 Q-loop/lid; other site 491952002005 ABC transporter signature motif; other site 491952002006 Walker B; other site 491952002007 D-loop; other site 491952002008 H-loop/switch region; other site 491952002009 TOBE domain; Region: TOBE_2; pfam08402 491952002010 HDOD domain; Region: HDOD; pfam08668 491952002011 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 491952002012 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 491952002013 putative RNA binding site [nucleotide binding]; other site 491952002014 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 491952002015 S-adenosylmethionine binding site [chemical binding]; other site 491952002016 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 491952002017 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491952002018 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 491952002019 putative active site [active] 491952002020 Ap4A binding site [chemical binding]; other site 491952002021 nudix motif; other site 491952002022 putative metal binding site [ion binding]; other site 491952002023 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 491952002024 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 491952002025 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 491952002026 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491952002027 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491952002028 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 491952002029 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 491952002030 thymidylate synthase; Reviewed; Region: thyA; PRK01827 491952002031 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 491952002032 dimerization interface [polypeptide binding]; other site 491952002033 active site 491952002034 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 491952002035 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 491952002036 folate binding site [chemical binding]; other site 491952002037 NADP+ binding site [chemical binding]; other site 491952002038 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 491952002039 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 491952002040 PAS fold; Region: PAS_3; pfam08447 491952002041 putative active site [active] 491952002042 heme pocket [chemical binding]; other site 491952002043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952002044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952002045 metal binding site [ion binding]; metal-binding site 491952002046 active site 491952002047 I-site; other site 491952002048 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 491952002049 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 491952002050 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 491952002051 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 491952002052 Ferredoxin [Energy production and conversion]; Region: COG1146 491952002053 4Fe-4S binding domain; Region: Fer4; cl02805 491952002054 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 491952002055 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 491952002056 MutS domain I; Region: MutS_I; pfam01624 491952002057 MutS domain II; Region: MutS_II; pfam05188 491952002058 MutS domain III; Region: MutS_III; pfam05192 491952002059 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 491952002060 Walker A/P-loop; other site 491952002061 ATP binding site [chemical binding]; other site 491952002062 Q-loop/lid; other site 491952002063 ABC transporter signature motif; other site 491952002064 Walker B; other site 491952002065 D-loop; other site 491952002066 H-loop/switch region; other site 491952002067 Competence-damaged protein; Region: CinA; pfam02464 491952002068 recombinase A; Provisional; Region: recA; PRK09354 491952002069 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 491952002070 hexamer interface [polypeptide binding]; other site 491952002071 Walker A motif; other site 491952002072 ATP binding site [chemical binding]; other site 491952002073 Walker B motif; other site 491952002074 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 491952002075 CoA-transferase family III; Region: CoA_transf_3; pfam02515 491952002076 enoyl-CoA hydratase; Provisional; Region: PRK05862 491952002077 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 491952002078 substrate binding site [chemical binding]; other site 491952002079 oxyanion hole (OAH) forming residues; other site 491952002080 trimer interface [polypeptide binding]; other site 491952002081 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 491952002082 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 491952002083 putative active site [active] 491952002084 metal binding site [ion binding]; metal-binding site 491952002085 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 491952002086 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 491952002087 tetrameric interface [polypeptide binding]; other site 491952002088 NAD binding site [chemical binding]; other site 491952002089 catalytic residues [active] 491952002090 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491952002091 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 491952002092 putative DNA binding site [nucleotide binding]; other site 491952002093 putative Zn2+ binding site [ion binding]; other site 491952002094 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952002095 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 491952002096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002097 active site 491952002098 phosphorylation site [posttranslational modification] 491952002099 intermolecular recognition site; other site 491952002100 dimerization interface [polypeptide binding]; other site 491952002101 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952002102 Zn2+ binding site [ion binding]; other site 491952002103 Mg2+ binding site [ion binding]; other site 491952002104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952002105 HAMP domain; Region: HAMP; pfam00672 491952002106 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 491952002107 dimer interface [polypeptide binding]; other site 491952002108 phosphorylation site [posttranslational modification] 491952002109 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 491952002110 ATP binding site [chemical binding]; other site 491952002111 Mg2+ binding site [ion binding]; other site 491952002112 G-X-G motif; other site 491952002113 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002114 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002115 active site 491952002116 phosphorylation site [posttranslational modification] 491952002117 intermolecular recognition site; other site 491952002118 dimerization interface [polypeptide binding]; other site 491952002119 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002121 active site 491952002122 phosphorylation site [posttranslational modification] 491952002123 intermolecular recognition site; other site 491952002124 dimerization interface [polypeptide binding]; other site 491952002125 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 491952002126 putative binding surface; other site 491952002127 active site 491952002128 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002129 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002130 active site 491952002131 intermolecular recognition site; other site 491952002132 dimerization interface [polypeptide binding]; other site 491952002133 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002134 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002135 active site 491952002136 phosphorylation site [posttranslational modification] 491952002137 intermolecular recognition site; other site 491952002138 dimerization interface [polypeptide binding]; other site 491952002139 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952002140 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 491952002141 phosphorylation site [posttranslational modification] 491952002142 dimer interface [polypeptide binding]; other site 491952002143 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 491952002144 ATP binding site [chemical binding]; other site 491952002145 Mg2+ binding site [ion binding]; other site 491952002146 G-X-G motif; other site 491952002147 pyruvate kinase; Provisional; Region: PRK06354 491952002148 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 491952002149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952002150 putative substrate translocation pore; other site 491952002151 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491952002152 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491952002153 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491952002154 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491952002155 PAAR motif; Region: PAAR_motif; cl15808 491952002156 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 491952002157 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 491952002158 Protein of unknown function (DUF796); Region: DUF796; pfam05638 491952002159 Protein of unknown function (DUF770); Region: DUF770; pfam05591 491952002160 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 491952002161 Protein of unknown function (DUF877); Region: DUF877; pfam05943 491952002162 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 491952002163 Protein of unknown function (DUF877); Region: DUF877; pfam05943 491952002164 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 491952002165 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 491952002166 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 491952002167 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 491952002168 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 491952002169 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 491952002170 Walker A motif; other site 491952002171 ATP binding site [chemical binding]; other site 491952002172 Walker B motif; other site 491952002173 arginine finger; other site 491952002174 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 491952002175 Walker A motif; other site 491952002176 ATP binding site [chemical binding]; other site 491952002177 Walker B motif; other site 491952002178 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491952002179 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952002180 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 491952002181 phosphopeptide binding site; other site 491952002182 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 491952002183 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 491952002184 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 491952002185 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 491952002186 Sporulation related domain; Region: SPOR; cl10051 491952002187 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 491952002188 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 491952002189 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 491952002190 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 491952002191 active site 491952002192 ATP binding site [chemical binding]; other site 491952002193 substrate binding site [chemical binding]; other site 491952002194 activation loop (A-loop); other site 491952002195 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 491952002196 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 491952002197 dimerization interface [polypeptide binding]; other site 491952002198 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 491952002199 dimer interface [polypeptide binding]; other site 491952002200 phosphorylation site [posttranslational modification] 491952002201 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 491952002202 ATP binding site [chemical binding]; other site 491952002203 Mg2+ binding site [ion binding]; other site 491952002204 G-X-G motif; other site 491952002205 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 491952002206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002207 active site 491952002208 phosphorylation site [posttranslational modification] 491952002209 intermolecular recognition site; other site 491952002210 dimerization interface [polypeptide binding]; other site 491952002211 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 491952002212 DNA binding site [nucleotide binding] 491952002213 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 491952002214 recombination regulator RecX; Reviewed; Region: recX; PRK00117 491952002215 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 491952002216 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952002217 alanine racemase; Reviewed; Region: alr; PRK00053 491952002218 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 491952002219 active site 491952002220 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491952002221 substrate binding site [chemical binding]; other site 491952002222 catalytic residues [active] 491952002223 dimer interface [polypeptide binding]; other site 491952002224 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 491952002225 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 491952002226 motif 1; other site 491952002227 active site 491952002228 motif 2; other site 491952002229 motif 3; other site 491952002230 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; cl17802 491952002231 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 491952002232 DHHA1 domain; Region: DHHA1; pfam02272 491952002233 aspartate kinase; Reviewed; Region: PRK06635 491952002234 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 491952002235 putative nucleotide binding site [chemical binding]; other site 491952002236 putative catalytic residues [active] 491952002237 putative Mg ion binding site [ion binding]; other site 491952002238 putative aspartate binding site [chemical binding]; other site 491952002239 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 491952002240 putative allosteric regulatory site; other site 491952002241 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 491952002242 putative allosteric regulatory residue; other site 491952002243 carbon storage regulator; Provisional; Region: PRK01712 491952002244 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 491952002245 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 491952002246 FMN binding site [chemical binding]; other site 491952002247 active site 491952002248 catalytic residues [active] 491952002249 substrate binding site [chemical binding]; other site 491952002250 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 491952002251 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 491952002252 oxaloacetate decarboxylase; Provisional; Region: PRK14040 491952002253 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 491952002254 active site 491952002255 catalytic residues [active] 491952002256 metal binding site [ion binding]; metal-binding site 491952002257 homodimer binding site [polypeptide binding]; other site 491952002258 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 491952002259 carboxyltransferase (CT) interaction site; other site 491952002260 biotinylation site [posttranslational modification]; other site 491952002261 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 491952002262 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 491952002263 DNA-binding site [nucleotide binding]; DNA binding site 491952002264 RNA-binding motif; other site 491952002265 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 491952002266 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 491952002267 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 491952002268 trimer interface [polypeptide binding]; other site 491952002269 eyelet of channel; other site 491952002270 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491952002271 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491952002272 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 491952002273 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491952002274 DTW domain; Region: DTW; cl01221 491952002275 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 491952002276 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 491952002277 DNA-binding site [nucleotide binding]; DNA binding site 491952002278 RNA-binding motif; other site 491952002279 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952002280 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491952002281 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 491952002282 putative N-terminal domain interface [polypeptide binding]; other site 491952002283 putative dimer interface [polypeptide binding]; other site 491952002284 putative substrate binding pocket (H-site) [chemical binding]; other site 491952002285 Outer membrane lipoprotein; Region: YfiO; pfam13525 491952002286 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 491952002287 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 491952002288 RNA binding surface [nucleotide binding]; other site 491952002289 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491952002290 active site 491952002291 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 491952002292 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 491952002293 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 491952002294 Clp amino terminal domain; Region: Clp_N; pfam02861 491952002295 Clp amino terminal domain; Region: Clp_N; pfam02861 491952002296 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 491952002297 Walker A motif; other site 491952002298 ATP binding site [chemical binding]; other site 491952002299 Walker B motif; other site 491952002300 arginine finger; other site 491952002301 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 491952002302 Walker A motif; other site 491952002303 ATP binding site [chemical binding]; other site 491952002304 Walker B motif; other site 491952002305 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491952002306 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 491952002307 GTP-binding protein YchF; Reviewed; Region: PRK09601 491952002308 YchF GTPase; Region: YchF; cd01900 491952002309 G1 box; other site 491952002310 GTP/Mg2+ binding site [chemical binding]; other site 491952002311 Switch I region; other site 491952002312 G2 box; other site 491952002313 Switch II region; other site 491952002314 G3 box; other site 491952002315 G4 box; other site 491952002316 G5 box; other site 491952002317 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 491952002318 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 491952002319 putative active site [active] 491952002320 catalytic residue [active] 491952002321 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 491952002322 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 491952002323 5S rRNA interface [nucleotide binding]; other site 491952002324 CTC domain interface [polypeptide binding]; other site 491952002325 L16 interface [polypeptide binding]; other site 491952002326 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 491952002327 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491952002328 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952002329 active site 491952002330 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 491952002331 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 491952002332 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 491952002333 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 491952002334 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 491952002335 binding surface 491952002336 TPR motif; other site 491952002337 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491952002338 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 491952002339 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 491952002340 tRNA; other site 491952002341 putative tRNA binding site [nucleotide binding]; other site 491952002342 putative NADP binding site [chemical binding]; other site 491952002343 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 491952002344 peptide chain release factor 1; Validated; Region: prfA; PRK00591 491952002345 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491952002346 RF-1 domain; Region: RF-1; pfam00472 491952002347 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 491952002348 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 491952002349 hypothetical protein; Validated; Region: PRK02101 491952002350 PAS domain; Region: PAS_9; pfam13426 491952002351 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 491952002352 putative active site [active] 491952002353 heme pocket [chemical binding]; other site 491952002354 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952002355 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952002356 dimer interface [polypeptide binding]; other site 491952002357 putative CheW interface [polypeptide binding]; other site 491952002358 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 491952002359 HemY protein N-terminus; Region: HemY_N; pfam07219 491952002360 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 491952002361 uroporphyrinogen-III synthase; Validated; Region: PRK05752 491952002362 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 491952002363 active site 491952002364 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 491952002365 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 491952002366 domain interfaces; other site 491952002367 active site 491952002368 argininosuccinate lyase; Provisional; Region: PRK00855 491952002369 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 491952002370 active sites [active] 491952002371 tetramer interface [polypeptide binding]; other site 491952002372 diaminopimelate decarboxylase; Region: lysA; TIGR01048 491952002373 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 491952002374 active site 491952002375 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491952002376 substrate binding site [chemical binding]; other site 491952002377 catalytic residues [active] 491952002378 dimer interface [polypeptide binding]; other site 491952002379 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 491952002380 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491952002381 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491952002382 Protein of unknown function, DUF484; Region: DUF484; cl17449 491952002383 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 491952002384 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 491952002385 motif II; other site 491952002386 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 491952002387 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491952002388 catalytic residues [active] 491952002389 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 491952002390 Peptidase family M23; Region: Peptidase_M23; pfam01551 491952002391 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 491952002392 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 491952002393 active site 491952002394 HIGH motif; other site 491952002395 dimer interface [polypeptide binding]; other site 491952002396 KMSKS motif; other site 491952002397 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 491952002398 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952002399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952002400 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 491952002401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 491952002402 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491952002403 active site 491952002404 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491952002405 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952002406 DNA-binding site [nucleotide binding]; DNA binding site 491952002407 FCD domain; Region: FCD; pfam07729 491952002408 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952002409 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952002410 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 491952002411 DctM-like transporters; Region: DctM; pfam06808 491952002412 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491952002413 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 491952002414 malonyl-CoA synthase; Validated; Region: PRK07514 491952002415 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 491952002416 acyl-activating enzyme (AAE) consensus motif; other site 491952002417 active site 491952002418 AMP binding site [chemical binding]; other site 491952002419 CoA binding site [chemical binding]; other site 491952002420 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 491952002421 Chain length determinant protein; Region: Wzz; cl15801 491952002422 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 491952002423 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 491952002424 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 491952002425 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 491952002426 SLBB domain; Region: SLBB; pfam10531 491952002427 Pirin-related protein [General function prediction only]; Region: COG1741 491952002428 Pirin; Region: Pirin; pfam02678 491952002429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002430 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 491952002431 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 491952002432 putative dimerization interface [polypeptide binding]; other site 491952002433 Predicted permeases [General function prediction only]; Region: COG0679 491952002434 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 491952002435 active site 491952002436 tetramer interface; other site 491952002437 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 491952002438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002439 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 491952002440 dimerization interface [polypeptide binding]; other site 491952002441 Lysine efflux permease [General function prediction only]; Region: COG1279 491952002442 putative MFS family transporter protein; Provisional; Region: PRK03633 491952002443 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 491952002444 putative substrate translocation pore; other site 491952002445 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 491952002446 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952002447 Walker A/P-loop; other site 491952002448 ATP binding site [chemical binding]; other site 491952002449 Q-loop/lid; other site 491952002450 ABC transporter signature motif; other site 491952002451 Walker B; other site 491952002452 D-loop; other site 491952002453 H-loop/switch region; other site 491952002454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952002455 dimer interface [polypeptide binding]; other site 491952002456 conserved gate region; other site 491952002457 putative PBP binding loops; other site 491952002458 ABC-ATPase subunit interface; other site 491952002459 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491952002460 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 491952002461 transcriptional regulator BetI; Validated; Region: PRK00767 491952002462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952002463 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 491952002464 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 491952002465 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 491952002466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952002467 homodimer interface [polypeptide binding]; other site 491952002468 catalytic residue [active] 491952002469 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 491952002470 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 491952002471 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952002472 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952002473 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491952002474 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 491952002475 active site 491952002476 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 491952002477 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 491952002478 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491952002479 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 491952002480 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 491952002481 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 491952002482 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 491952002483 active site 491952002484 substrate-binding site [chemical binding]; other site 491952002485 metal-binding site [ion binding] 491952002486 ATP binding site [chemical binding]; other site 491952002487 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491952002488 active site 491952002489 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 491952002490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952002491 NAD(P) binding site [chemical binding]; other site 491952002492 active site 491952002493 YceI-like domain; Region: YceI; cl01001 491952002494 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952002495 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002496 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 491952002497 putative effector binding pocket; other site 491952002498 dimerization interface [polypeptide binding]; other site 491952002499 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 491952002500 "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 491952002501 active site 491952002502 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 491952002503 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 491952002504 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 491952002505 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 491952002506 putative dimer interface [polypeptide binding]; other site 491952002507 N-terminal domain interface [polypeptide binding]; other site 491952002508 putative substrate binding pocket (H-site) [chemical binding]; other site 491952002509 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952002510 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952002511 metal binding site [ion binding]; metal-binding site 491952002512 active site 491952002513 I-site; other site 491952002514 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 491952002515 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952002516 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 491952002517 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952002518 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952002519 active site 491952002520 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 491952002521 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 491952002522 Walker A motif; other site 491952002523 ATP binding site [chemical binding]; other site 491952002524 Walker B motif; other site 491952002525 arginine finger; other site 491952002526 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491952002527 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 491952002528 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491952002529 S4 RNA-binding domain; Region: S4; smart00363 491952002530 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 491952002531 RNA binding surface [nucleotide binding]; other site 491952002532 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 491952002533 S-adenosylmethionine binding site [chemical binding]; other site 491952002534 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 491952002535 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 491952002536 active site residue [active] 491952002537 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 491952002538 active site residue [active] 491952002539 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 491952002540 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 491952002541 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 491952002542 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 491952002543 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 491952002544 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491952002545 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 491952002546 putative metal binding site; other site 491952002547 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 491952002548 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 491952002549 Substrate binding site; other site 491952002550 metal-binding site 491952002551 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 491952002552 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 491952002553 putative active site [active] 491952002554 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 491952002555 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 491952002556 NADP binding site [chemical binding]; other site 491952002557 homopentamer interface [polypeptide binding]; other site 491952002558 substrate binding site [chemical binding]; other site 491952002559 active site 491952002560 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 491952002561 dimerization interface [polypeptide binding]; other site 491952002562 putative active cleft [active] 491952002563 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 491952002564 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 491952002565 putative ribose interaction site [chemical binding]; other site 491952002566 putative ADP binding site [chemical binding]; other site 491952002567 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 491952002568 active site 491952002569 nucleotide binding site [chemical binding]; other site 491952002570 HIGH motif; other site 491952002571 KMSKS motif; other site 491952002572 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 491952002573 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491952002574 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 491952002575 Walker A/P-loop; other site 491952002576 ATP binding site [chemical binding]; other site 491952002577 Q-loop/lid; other site 491952002578 ABC transporter signature motif; other site 491952002579 Walker B; other site 491952002580 D-loop; other site 491952002581 H-loop/switch region; other site 491952002582 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 491952002583 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 491952002584 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 491952002585 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 491952002586 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 491952002587 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 491952002588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952002589 dimer interface [polypeptide binding]; other site 491952002590 conserved gate region; other site 491952002591 putative PBP binding loops; other site 491952002592 ABC-ATPase subunit interface; other site 491952002593 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952002594 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 491952002595 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952002596 Walker A/P-loop; other site 491952002597 ATP binding site [chemical binding]; other site 491952002598 Q-loop/lid; other site 491952002599 ABC transporter signature motif; other site 491952002600 Walker B; other site 491952002601 D-loop; other site 491952002602 H-loop/switch region; other site 491952002603 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952002604 EamA-like transporter family; Region: EamA; pfam00892 491952002605 EamA-like transporter family; Region: EamA; pfam00892 491952002606 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952002607 EamA-like transporter family; Region: EamA; pfam00892 491952002608 EamA-like transporter family; Region: EamA; pfam00892 491952002609 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952002610 EamA-like transporter family; Region: EamA; pfam00892 491952002611 EamA-like transporter family; Region: EamA; pfam00892 491952002612 MltA-interacting protein MipA; Region: MipA; cl01504 491952002613 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 491952002614 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 491952002615 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 491952002616 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 491952002617 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 491952002618 replicative DNA helicase; Provisional; Region: PRK05748 491952002619 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 491952002620 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 491952002621 Walker A motif; other site 491952002622 ATP binding site [chemical binding]; other site 491952002623 Walker B motif; other site 491952002624 DNA binding loops [nucleotide binding] 491952002625 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 491952002626 PAS fold; Region: PAS_3; pfam08447 491952002627 putative active site [active] 491952002628 heme pocket [chemical binding]; other site 491952002629 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952002630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952002631 dimer interface [polypeptide binding]; other site 491952002632 putative CheW interface [polypeptide binding]; other site 491952002633 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 491952002634 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 491952002635 inhibitor-cofactor binding pocket; inhibition site 491952002636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952002637 catalytic residue [active] 491952002638 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 491952002639 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952002640 active site 491952002641 biotin synthase; Provisional; Region: PRK15108 491952002642 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 491952002643 FeS/SAM binding site; other site 491952002644 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 491952002645 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 491952002646 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 491952002647 substrate-cofactor binding pocket; other site 491952002648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952002649 catalytic residue [active] 491952002650 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 491952002651 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 491952002652 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 491952002653 S-adenosylmethionine binding site [chemical binding]; other site 491952002654 AAA domain; Region: AAA_26; pfam13500 491952002655 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 491952002656 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952002657 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 491952002658 putative active site [active] 491952002659 heme pocket [chemical binding]; other site 491952002660 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 491952002661 dimer interface [polypeptide binding]; other site 491952002662 phosphorylation site [posttranslational modification] 491952002663 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 491952002664 ATP binding site [chemical binding]; other site 491952002665 G-X-G motif; other site 491952002666 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491952002667 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002668 active site 491952002669 phosphorylation site [posttranslational modification] 491952002670 intermolecular recognition site; other site 491952002671 dimerization interface [polypeptide binding]; other site 491952002672 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 491952002673 Walker A motif; other site 491952002674 ATP binding site [chemical binding]; other site 491952002675 Walker B motif; other site 491952002676 arginine finger; other site 491952002677 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952002678 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 491952002679 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 491952002680 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 491952002681 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 491952002682 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 491952002683 MgtE intracellular N domain; Region: MgtE_N; smart00924 491952002684 FliG C-terminal domain; Region: FliG_C; pfam01706 491952002685 flagellar assembly protein H; Validated; Region: fliH; PRK05687 491952002686 Flagellar assembly protein FliH; Region: FliH; pfam02108 491952002687 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 491952002688 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 491952002689 Walker A motif/ATP binding site; other site 491952002690 Walker B motif; other site 491952002691 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 491952002692 Flagellar FliJ protein; Region: FliJ; pfam02050 491952002693 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 491952002694 anti sigma factor interaction site; other site 491952002695 regulatory phosphorylation site [posttranslational modification]; other site 491952002696 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002697 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002698 active site 491952002699 phosphorylation site [posttranslational modification] 491952002700 intermolecular recognition site; other site 491952002701 dimerization interface [polypeptide binding]; other site 491952002702 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 491952002703 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 491952002704 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 491952002705 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 491952002706 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 491952002707 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 491952002708 flagellar motor switch protein; Validated; Region: fliN; PRK05698 491952002709 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 491952002710 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 491952002711 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 491952002712 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 491952002713 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 491952002714 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 491952002715 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 491952002716 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 491952002717 FHIPEP family; Region: FHIPEP; pfam00771 491952002718 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 491952002719 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 491952002720 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 491952002721 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952002722 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491952002723 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 491952002724 DNA binding residues [nucleotide binding] 491952002725 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 491952002726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002727 active site 491952002728 phosphorylation site [posttranslational modification] 491952002729 intermolecular recognition site; other site 491952002730 dimerization interface [polypeptide binding]; other site 491952002731 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 491952002732 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 491952002733 putative binding surface; other site 491952002734 active site 491952002735 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 491952002736 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 491952002737 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 491952002738 ATP binding site [chemical binding]; other site 491952002739 Mg2+ binding site [ion binding]; other site 491952002740 G-X-G motif; other site 491952002741 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 491952002742 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 491952002743 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002744 active site 491952002745 phosphorylation site [posttranslational modification] 491952002746 intermolecular recognition site; other site 491952002747 dimerization interface [polypeptide binding]; other site 491952002748 CheB methylesterase; Region: CheB_methylest; pfam01339 491952002749 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 491952002750 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 491952002751 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 491952002752 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 491952002753 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952002754 ligand binding site [chemical binding]; other site 491952002755 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491952002756 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 491952002757 P-loop; other site 491952002758 Magnesium ion binding site [ion binding]; other site 491952002759 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 491952002760 Magnesium ion binding site [ion binding]; other site 491952002761 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 491952002762 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 491952002763 putative CheA interaction surface; other site 491952002764 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 491952002765 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 491952002766 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 491952002767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952002768 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 491952002769 Walker A/P-loop; other site 491952002770 ATP binding site [chemical binding]; other site 491952002771 Q-loop/lid; other site 491952002772 ABC transporter signature motif; other site 491952002773 Walker B; other site 491952002774 D-loop; other site 491952002775 H-loop/switch region; other site 491952002776 CcmB protein; Region: CcmB; pfam03379 491952002777 heme exporter protein CcmC; Region: ccmC; TIGR01191 491952002778 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 491952002779 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 491952002780 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 491952002781 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491952002782 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491952002783 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 491952002784 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 491952002785 binding surface 491952002786 TPR motif; other site 491952002787 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 491952002788 FtsZ protein binding site [polypeptide binding]; other site 491952002789 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 491952002790 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 491952002791 nucleotide binding pocket [chemical binding]; other site 491952002792 K-X-D-G motif; other site 491952002793 catalytic site [active] 491952002794 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 491952002795 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 491952002796 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 491952002797 Dimer interface [polypeptide binding]; other site 491952002798 BRCT sequence motif; other site 491952002799 Uncharacterized protein family (UPF0270); Region: UPF0270; pfam06794 491952002800 serine acetyltransferase; Provisional; Region: cysE; PRK11132 491952002801 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 491952002802 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 491952002803 trimer interface [polypeptide binding]; other site 491952002804 active site 491952002805 substrate binding site [chemical binding]; other site 491952002806 CoA binding site [chemical binding]; other site 491952002807 Uncharacterized conserved protein [Function unknown]; Region: COG4121 491952002808 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 491952002809 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952002810 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 491952002811 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 491952002812 active site 491952002813 Rdx family; Region: Rdx; cl01407 491952002814 YciI-like protein; Reviewed; Region: PRK11370 491952002815 intracellular septation protein A; Reviewed; Region: PRK00259 491952002816 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 491952002817 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 491952002818 active site 491952002819 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 491952002820 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 491952002821 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 491952002822 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 491952002823 RNA binding surface [nucleotide binding]; other site 491952002824 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 491952002825 probable active site [active] 491952002826 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 491952002827 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 491952002828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002829 active site 491952002830 phosphorylation site [posttranslational modification] 491952002831 intermolecular recognition site; other site 491952002832 dimerization interface [polypeptide binding]; other site 491952002833 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 491952002834 DNA binding site [nucleotide binding] 491952002835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952002836 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 491952002837 dimer interface [polypeptide binding]; other site 491952002838 phosphorylation site [posttranslational modification] 491952002839 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 491952002840 ATP binding site [chemical binding]; other site 491952002841 Mg2+ binding site [ion binding]; other site 491952002842 G-X-G motif; other site 491952002843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952002844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002845 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 491952002846 putative dimerization interface [polypeptide binding]; other site 491952002847 ornithine carbamoyltransferase; Provisional; Region: PRK00779 491952002848 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491952002849 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491952002850 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 491952002851 putative GSH binding site [chemical binding]; other site 491952002852 catalytic residues [active] 491952002853 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 491952002854 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 491952002855 dimer interface [polypeptide binding]; other site 491952002856 decamer (pentamer of dimers) interface [polypeptide binding]; other site 491952002857 catalytic triad [active] 491952002858 peroxidatic and resolving cysteines [active] 491952002859 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 491952002860 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952002861 putative metal binding site [ion binding]; other site 491952002862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952002863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002864 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 491952002865 substrate binding pocket [chemical binding]; other site 491952002866 dimerization interface [polypeptide binding]; other site 491952002867 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 491952002868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952002869 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 491952002870 putative dimerization interface [polypeptide binding]; other site 491952002871 Response regulator receiver domain; Region: Response_reg; pfam00072 491952002872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002873 active site 491952002874 phosphorylation site [posttranslational modification] 491952002875 intermolecular recognition site; other site 491952002876 dimerization interface [polypeptide binding]; other site 491952002877 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952002878 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952002879 metal binding site [ion binding]; metal-binding site 491952002880 active site 491952002881 I-site; other site 491952002882 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 491952002883 PAS fold; Region: PAS; pfam00989 491952002884 PAS fold; Region: PAS_4; pfam08448 491952002885 PAS domain; Region: PAS_9; pfam13426 491952002886 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952002887 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 491952002888 dimer interface [polypeptide binding]; other site 491952002889 phosphorylation site [posttranslational modification] 491952002890 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 491952002891 ATP binding site [chemical binding]; other site 491952002892 Mg2+ binding site [ion binding]; other site 491952002893 G-X-G motif; other site 491952002894 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952002895 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952002896 active site 491952002897 phosphorylation site [posttranslational modification] 491952002898 intermolecular recognition site; other site 491952002899 dimerization interface [polypeptide binding]; other site 491952002900 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 491952002901 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 491952002902 Walker A motif; other site 491952002903 ATP binding site [chemical binding]; other site 491952002904 Walker B motif; other site 491952002905 arginine finger; other site 491952002906 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 491952002907 metal ion-dependent adhesion site (MIDAS); other site 491952002908 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 491952002909 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 491952002910 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 491952002911 catalytic triad [active] 491952002912 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 491952002913 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 491952002914 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 491952002915 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 491952002916 Precorrin-8X methylmutase; Region: CbiC; pfam02570 491952002917 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 491952002918 active site 491952002919 putative homodimer interface [polypeptide binding]; other site 491952002920 SAM binding site [chemical binding]; other site 491952002921 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 491952002922 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 491952002923 S-adenosylmethionine binding site [chemical binding]; other site 491952002924 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 491952002925 active site 491952002926 SAM binding site [chemical binding]; other site 491952002927 homodimer interface [polypeptide binding]; other site 491952002928 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 491952002929 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 491952002930 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 491952002931 LysE type translocator; Region: LysE; cl00565 491952002932 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 491952002933 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491952002934 active site 491952002935 dimerization interface [polypeptide binding]; other site 491952002936 acetaldehyde dehydrogenase; Validated; Region: PRK08300 491952002937 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491952002938 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 491952002939 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 491952002940 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 491952002941 active site 491952002942 catalytic residues [active] 491952002943 metal binding site [ion binding]; metal-binding site 491952002944 DmpG-like communication domain; Region: DmpG_comm; pfam07836 491952002945 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 491952002946 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 491952002947 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952002948 homodimer interface [polypeptide binding]; other site 491952002949 catalytic residue [active] 491952002950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 491952002951 Transposase; Region: DEDD_Tnp_IS110; pfam01548 491952002952 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 491952002953 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 491952002954 active site 491952002955 iron coordination sites [ion binding]; other site 491952002956 substrate binding pocket [chemical binding]; other site 491952002957 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952002958 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952002959 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491952002960 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491952002961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952002962 DNA-binding site [nucleotide binding]; DNA binding site 491952002963 UTRA domain; Region: UTRA; pfam07702 491952002964 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 491952002965 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491952002966 active site 491952002967 catalytic tetrad [active] 491952002968 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 491952002969 DctM-like transporters; Region: DctM; pfam06808 491952002970 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491952002971 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952002972 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952002973 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 491952002974 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 491952002975 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 491952002976 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952002977 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952002978 metal binding site [ion binding]; metal-binding site 491952002979 active site 491952002980 I-site; other site 491952002981 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 491952002982 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 491952002983 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 491952002984 dimer interface [polypeptide binding]; other site 491952002985 FMN binding site [chemical binding]; other site 491952002986 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 491952002987 conserved cys residue [active] 491952002988 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952002989 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952002990 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952002991 Isochorismatase family; Region: Isochorismatase; pfam00857 491952002992 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 491952002993 catalytic triad [active] 491952002994 conserved cis-peptide bond; other site 491952002995 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952002996 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 491952002997 putative ligand binding site [chemical binding]; other site 491952002998 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 491952002999 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952003000 TM-ABC transporter signature motif; other site 491952003001 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491952003002 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952003003 Walker A/P-loop; other site 491952003004 ATP binding site [chemical binding]; other site 491952003005 Q-loop/lid; other site 491952003006 ABC transporter signature motif; other site 491952003007 Walker B; other site 491952003008 D-loop; other site 491952003009 H-loop/switch region; other site 491952003010 Predicted esterase [General function prediction only]; Region: COG0400 491952003011 putative hydrolase; Provisional; Region: PRK11460 491952003012 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952003013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952003014 metal binding site [ion binding]; metal-binding site 491952003015 active site 491952003016 I-site; other site 491952003017 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 491952003018 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 491952003019 catalytic triad [active] 491952003020 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 491952003021 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491952003022 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 491952003023 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 491952003024 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952003025 dimer interface [polypeptide binding]; other site 491952003026 conserved gate region; other site 491952003027 putative PBP binding loops; other site 491952003028 ABC-ATPase subunit interface; other site 491952003029 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952003030 dimer interface [polypeptide binding]; other site 491952003031 conserved gate region; other site 491952003032 putative PBP binding loops; other site 491952003033 ABC-ATPase subunit interface; other site 491952003034 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 491952003035 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952003036 Walker A/P-loop; other site 491952003037 ATP binding site [chemical binding]; other site 491952003038 Q-loop/lid; other site 491952003039 ABC transporter signature motif; other site 491952003040 Walker B; other site 491952003041 D-loop; other site 491952003042 H-loop/switch region; other site 491952003043 TOBE domain; Region: TOBE_2; pfam08402 491952003044 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 491952003045 putative 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate-binding protein; Region: phnS2; TIGR03261 491952003046 transcriptional regulator protein; Region: phnR; TIGR03337 491952003047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952003048 DNA-binding site [nucleotide binding]; DNA binding site 491952003049 UTRA domain; Region: UTRA; pfam07702 491952003050 Amidohydrolase; Region: Amidohydro_2; pfam04909 491952003051 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491952003052 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 491952003053 non-specific DNA binding site [nucleotide binding]; other site 491952003054 salt bridge; other site 491952003055 sequence-specific DNA binding site [nucleotide binding]; other site 491952003056 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 491952003057 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 491952003058 dimerization interface [polypeptide binding]; other site 491952003059 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952003060 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003061 dimer interface [polypeptide binding]; other site 491952003062 putative CheW interface [polypeptide binding]; other site 491952003063 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 491952003064 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491952003065 catalytic residues [active] 491952003066 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 491952003067 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 491952003068 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952003069 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491952003070 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 491952003071 putative N-terminal domain interface [polypeptide binding]; other site 491952003072 putative dimer interface [polypeptide binding]; other site 491952003073 putative substrate binding pocket (H-site) [chemical binding]; other site 491952003074 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 491952003075 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 491952003076 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 491952003077 dimerization interface [polypeptide binding]; other site 491952003078 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952003079 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003080 dimer interface [polypeptide binding]; other site 491952003081 putative CheW interface [polypeptide binding]; other site 491952003082 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 491952003083 PAS domain S-box; Region: sensory_box; TIGR00229 491952003084 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952003085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952003086 metal binding site [ion binding]; metal-binding site 491952003087 active site 491952003088 I-site; other site 491952003089 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 491952003090 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 491952003091 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 491952003092 active site 491952003093 FMN binding site [chemical binding]; other site 491952003094 substrate binding site [chemical binding]; other site 491952003095 3Fe-4S cluster binding site [ion binding]; other site 491952003096 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952003097 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 491952003098 putative metal binding site [ion binding]; other site 491952003099 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491952003100 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 491952003101 putative ligand binding site [chemical binding]; other site 491952003102 NAD binding site [chemical binding]; other site 491952003103 dimerization interface [polypeptide binding]; other site 491952003104 catalytic site [active] 491952003105 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 491952003106 putative substrate binding pocket [chemical binding]; other site 491952003107 trimer interface [polypeptide binding]; other site 491952003108 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 491952003109 dimerization interface [polypeptide binding]; other site 491952003110 substrate binding site [chemical binding]; other site 491952003111 active site 491952003112 calcium binding site [ion binding]; other site 491952003113 Vacuolating cyotoxin; Region: VacA; pfam02691 491952003114 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 491952003115 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 491952003116 active site 491952003117 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 491952003118 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491952003119 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952003120 dihydromonapterin reductase; Provisional; Region: PRK06483 491952003121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952003122 NAD(P) binding site [chemical binding]; other site 491952003123 active site 491952003124 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 491952003125 active site 491952003126 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 491952003127 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 491952003128 putative substrate translocation pore; other site 491952003129 enterobactin exporter EntS; Provisional; Region: PRK10489 491952003130 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 491952003131 putative substrate translocation pore; other site 491952003132 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 491952003133 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952003134 putative substrate translocation pore; other site 491952003135 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952003136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952003137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952003138 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491952003139 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952003140 NAD(P) binding site [chemical binding]; other site 491952003141 catalytic residues [active] 491952003142 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 491952003143 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 491952003144 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 491952003145 Phosphate transporter family; Region: PHO4; pfam01384 491952003146 Phosphate transporter family; Region: PHO4; pfam01384 491952003147 Phosphate transporter family; Region: PHO4; cl00396 491952003148 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952003149 DNA topoisomerase III; Provisional; Region: PRK07726 491952003150 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 491952003151 active site 491952003152 putative interdomain interaction site [polypeptide binding]; other site 491952003153 putative metal-binding site [ion binding]; other site 491952003154 putative nucleotide binding site [chemical binding]; other site 491952003155 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 491952003156 DNA binding groove [nucleotide binding] 491952003157 domain I; other site 491952003158 phosphate binding site [ion binding]; other site 491952003159 domain II; other site 491952003160 domain III; other site 491952003161 nucleotide binding site [chemical binding]; other site 491952003162 catalytic site [active] 491952003163 domain IV; other site 491952003164 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 491952003165 Ligand Binding Site [chemical binding]; other site 491952003166 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 491952003167 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 491952003168 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952003169 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491952003170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952003171 Coenzyme A binding pocket [chemical binding]; other site 491952003172 Cupin-like domain; Region: Cupin_8; pfam13621 491952003173 Cupin superfamily protein; Region: Cupin_4; pfam08007 491952003174 adenylosuccinate lyase; Provisional; Region: PRK09285 491952003175 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 491952003176 tetramer interface [polypeptide binding]; other site 491952003177 active site 491952003178 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 491952003179 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 491952003180 putative lysogenization regulator; Reviewed; Region: PRK00218 491952003181 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 491952003182 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 491952003183 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 491952003184 nudix motif; other site 491952003185 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 491952003186 pseudouridine synthase; Region: TIGR00093 491952003187 active site 491952003188 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 491952003189 DNA-binding site [nucleotide binding]; DNA binding site 491952003190 RNA-binding motif; other site 491952003191 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 491952003192 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 491952003193 Clp amino terminal domain; Region: Clp_N; pfam02861 491952003194 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 491952003195 Walker A motif; other site 491952003196 ATP binding site [chemical binding]; other site 491952003197 Walker B motif; other site 491952003198 arginine finger; other site 491952003199 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 491952003200 Walker A motif; other site 491952003201 ATP binding site [chemical binding]; other site 491952003202 Walker B motif; other site 491952003203 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 491952003204 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 491952003205 rRNA binding site [nucleotide binding]; other site 491952003206 predicted 30S ribosome binding site; other site 491952003207 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 491952003208 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 491952003209 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 491952003210 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 491952003211 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 491952003212 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 491952003213 recombination factor protein RarA; Reviewed; Region: PRK13342 491952003214 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 491952003215 Walker A motif; other site 491952003216 ATP binding site [chemical binding]; other site 491952003217 Walker B motif; other site 491952003218 arginine finger; other site 491952003219 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 491952003220 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 491952003221 seryl-tRNA synthetase; Provisional; Region: PRK05431 491952003222 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 491952003223 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 491952003224 dimer interface [polypeptide binding]; other site 491952003225 active site 491952003226 motif 1; other site 491952003227 motif 2; other site 491952003228 motif 3; other site 491952003229 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 491952003230 active site 491952003231 SAM binding site [chemical binding]; other site 491952003232 homodimer interface [polypeptide binding]; other site 491952003233 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 491952003234 DsrC like protein; Region: DsrC; pfam04358 491952003235 DsrH like protein; Region: DsrH; cl17347 491952003236 DsrE/DsrF-like family; Region: DrsE; cl00672 491952003237 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 491952003238 YccA-like proteins; Region: YccA_like; cd10433 491952003239 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 491952003240 response regulator; Provisional; Region: PRK09483 491952003241 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952003242 active site 491952003243 phosphorylation site [posttranslational modification] 491952003244 intermolecular recognition site; other site 491952003245 dimerization interface [polypeptide binding]; other site 491952003246 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 491952003247 DNA binding residues [nucleotide binding] 491952003248 dimerization interface [polypeptide binding]; other site 491952003249 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 491952003250 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 491952003251 GIY-YIG motif/motif A; other site 491952003252 active site 491952003253 catalytic site [active] 491952003254 putative DNA binding site [nucleotide binding]; other site 491952003255 metal binding site [ion binding]; metal-binding site 491952003256 UvrB/uvrC motif; Region: UVR; pfam02151 491952003257 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 491952003258 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 491952003259 Predicted permease; Region: DUF318; cl17795 491952003260 Predicted permease; Region: DUF318; cl17795 491952003261 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 491952003262 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 491952003263 DNA binding residues [nucleotide binding] 491952003264 dimer interface [polypeptide binding]; other site 491952003265 metal binding site [ion binding]; metal-binding site 491952003266 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 491952003267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952003268 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 491952003269 dimerization interface [polypeptide binding]; other site 491952003270 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 491952003271 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491952003272 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491952003273 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 491952003274 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 491952003275 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 491952003276 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 491952003277 Sulfatase; Region: Sulfatase; pfam00884 491952003278 putative carbohydrate kinase; Provisional; Region: PRK10565 491952003279 Uncharacterized conserved protein [Function unknown]; Region: COG0062 491952003280 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 491952003281 putative substrate binding site [chemical binding]; other site 491952003282 putative ATP binding site [chemical binding]; other site 491952003283 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952003284 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952003285 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 491952003286 putative dimerization interface [polypeptide binding]; other site 491952003287 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 491952003288 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 491952003289 putative acyltransferase; Provisional; Region: PRK05790 491952003290 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 491952003291 dimer interface [polypeptide binding]; other site 491952003292 active site 491952003293 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 491952003294 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 491952003295 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 491952003296 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 491952003297 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 491952003298 catalytic residues [active] 491952003299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952003300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952003301 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 491952003302 putative effector binding pocket; other site 491952003303 dimerization interface [polypeptide binding]; other site 491952003304 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491952003305 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 491952003306 active site 491952003307 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952003308 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 491952003309 NAD(P) binding site [chemical binding]; other site 491952003310 active site 491952003311 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952003312 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 491952003313 TM-ABC transporter signature motif; other site 491952003314 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952003315 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 491952003316 ligand binding site [chemical binding]; other site 491952003317 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491952003318 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952003319 Walker A/P-loop; other site 491952003320 ATP binding site [chemical binding]; other site 491952003321 Q-loop/lid; other site 491952003322 ABC transporter signature motif; other site 491952003323 Walker B; other site 491952003324 D-loop; other site 491952003325 H-loop/switch region; other site 491952003326 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952003327 short chain dehydrogenase; Provisional; Region: PRK06114 491952003328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952003329 NAD(P) binding site [chemical binding]; other site 491952003330 active site 491952003331 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 491952003332 TPP-binding site [chemical binding]; other site 491952003333 dimer interface [polypeptide binding]; other site 491952003334 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 491952003335 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 491952003336 PYR/PP interface [polypeptide binding]; other site 491952003337 dimer interface [polypeptide binding]; other site 491952003338 TPP binding site [chemical binding]; other site 491952003339 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491952003340 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 491952003341 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491952003342 nucleotide binding site [chemical binding]; other site 491952003343 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952003344 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 491952003345 ligand binding site [chemical binding]; other site 491952003346 dimerization interface [polypeptide binding]; other site 491952003347 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; cl02395 491952003348 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491952003349 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952003350 Walker A/P-loop; other site 491952003351 ATP binding site [chemical binding]; other site 491952003352 Q-loop/lid; other site 491952003353 ABC transporter signature motif; other site 491952003354 Walker B; other site 491952003355 D-loop; other site 491952003356 H-loop/switch region; other site 491952003357 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952003358 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952003359 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 491952003360 TM-ABC transporter signature motif; other site 491952003361 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 491952003362 MarR family; Region: MarR_2; pfam12802 491952003363 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 491952003364 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 491952003365 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 491952003366 putative ligand binding site [chemical binding]; other site 491952003367 putative NAD binding site [chemical binding]; other site 491952003368 catalytic site [active] 491952003369 CHASE domain; Region: CHASE; pfam03924 491952003370 PAS domain S-box; Region: sensory_box; TIGR00229 491952003371 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 491952003372 putative active site [active] 491952003373 heme pocket [chemical binding]; other site 491952003374 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491952003375 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 491952003376 putative active site [active] 491952003377 heme pocket [chemical binding]; other site 491952003378 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 491952003379 putative active site [active] 491952003380 heme pocket [chemical binding]; other site 491952003381 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 491952003382 dimer interface [polypeptide binding]; other site 491952003383 phosphorylation site [posttranslational modification] 491952003384 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 491952003385 ATP binding site [chemical binding]; other site 491952003386 Mg2+ binding site [ion binding]; other site 491952003387 G-X-G motif; other site 491952003388 Response regulator receiver domain; Region: Response_reg; pfam00072 491952003389 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952003390 active site 491952003391 phosphorylation site [posttranslational modification] 491952003392 intermolecular recognition site; other site 491952003393 dimerization interface [polypeptide binding]; other site 491952003394 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 491952003395 putative binding surface; other site 491952003396 active site 491952003397 PAS domain; Region: PAS_9; pfam13426 491952003398 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 491952003399 PAS domain; Region: PAS_9; pfam13426 491952003400 putative active site [active] 491952003401 heme pocket [chemical binding]; other site 491952003402 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003403 dimer interface [polypeptide binding]; other site 491952003404 putative CheW interface [polypeptide binding]; other site 491952003405 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491952003406 MarR family; Region: MarR_2; pfam12802 491952003407 DctM-like transporters; Region: DctM; pfam06808 491952003408 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491952003409 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 491952003410 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952003411 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952003412 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 491952003413 Coenzyme A transferase; Region: CoA_trans; smart00882 491952003414 Coenzyme A transferase; Region: CoA_trans; cl17247 491952003415 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 491952003416 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 491952003417 dimer interface [polypeptide binding]; other site 491952003418 active site 491952003419 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 491952003420 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 491952003421 substrate binding site [chemical binding]; other site 491952003422 oxyanion hole (OAH) forming residues; other site 491952003423 trimer interface [polypeptide binding]; other site 491952003424 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 491952003425 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 491952003426 NAD binding site [chemical binding]; other site 491952003427 homodimer interface [polypeptide binding]; other site 491952003428 homotetramer interface [polypeptide binding]; other site 491952003429 active site 491952003430 feruloyl-CoA synthase; Reviewed; Region: PRK08180 491952003431 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 491952003432 acyl-activating enzyme (AAE) consensus motif; other site 491952003433 putative AMP binding site [chemical binding]; other site 491952003434 putative active site [active] 491952003435 putative CoA binding site [chemical binding]; other site 491952003436 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 491952003437 active site 491952003438 Cation transport protein; Region: TrkH; cl17365 491952003439 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 491952003440 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 491952003441 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 491952003442 putative molybdopterin cofactor binding site [chemical binding]; other site 491952003443 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 491952003444 putative molybdopterin cofactor binding site; other site 491952003445 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 491952003446 putative peptidase; Provisional; Region: PRK11649 491952003447 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 491952003448 Peptidase family M23; Region: Peptidase_M23; pfam01551 491952003449 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 491952003450 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 491952003451 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 491952003452 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 491952003453 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 491952003454 motif II; other site 491952003455 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 491952003456 S-adenosylmethionine binding site [chemical binding]; other site 491952003457 acetyl-CoA synthetase; Provisional; Region: PRK00174 491952003458 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 491952003459 active site 491952003460 CoA binding site [chemical binding]; other site 491952003461 acyl-activating enzyme (AAE) consensus motif; other site 491952003462 AMP binding site [chemical binding]; other site 491952003463 acetate binding site [chemical binding]; other site 491952003464 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491952003465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952003466 active site 491952003467 phosphorylation site [posttranslational modification] 491952003468 intermolecular recognition site; other site 491952003469 dimerization interface [polypeptide binding]; other site 491952003470 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 491952003471 DNA binding residues [nucleotide binding] 491952003472 dimerization interface [polypeptide binding]; other site 491952003473 Haemolytic domain; Region: Haemolytic; pfam01809 491952003474 prephenate dehydratase; Provisional; Region: PRK11899 491952003475 Prephenate dehydratase; Region: PDT; pfam00800 491952003476 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 491952003477 putative L-Phe binding site [chemical binding]; other site 491952003478 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 491952003479 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 491952003480 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 491952003481 PGAP1-like protein; Region: PGAP1; pfam07819 491952003482 acyl-CoA esterase; Provisional; Region: PRK10673 491952003483 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 491952003484 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 491952003485 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 491952003486 catalytic loop [active] 491952003487 iron binding site [ion binding]; other site 491952003488 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 491952003489 dimer interface [polypeptide binding]; other site 491952003490 putative radical transfer pathway; other site 491952003491 diiron center [ion binding]; other site 491952003492 tyrosyl radical; other site 491952003493 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 491952003494 ATP cone domain; Region: ATP-cone; pfam03477 491952003495 Class I ribonucleotide reductase; Region: RNR_I; cd01679 491952003496 active site 491952003497 dimer interface [polypeptide binding]; other site 491952003498 catalytic residues [active] 491952003499 effector binding site; other site 491952003500 R2 peptide binding site; other site 491952003501 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 491952003502 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 491952003503 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 491952003504 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491952003505 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 491952003506 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 491952003507 diiron binding motif [ion binding]; other site 491952003508 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 491952003509 nucleotide binding site/active site [active] 491952003510 HIT family signature motif; other site 491952003511 catalytic residue [active] 491952003512 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 491952003513 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491952003514 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 491952003515 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 491952003516 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 491952003517 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 491952003518 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 491952003519 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 491952003520 purine monophosphate binding site [chemical binding]; other site 491952003521 dimer interface [polypeptide binding]; other site 491952003522 putative catalytic residues [active] 491952003523 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 491952003524 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 491952003525 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 491952003526 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 491952003527 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 491952003528 FMN binding site [chemical binding]; other site 491952003529 active site 491952003530 catalytic residues [active] 491952003531 substrate binding site [chemical binding]; other site 491952003532 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 491952003533 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 491952003534 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 491952003535 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 491952003536 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 491952003537 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491952003538 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491952003539 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491952003540 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 491952003541 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 491952003542 carboxyltransferase (CT) interaction site; other site 491952003543 biotinylation site [posttranslational modification]; other site 491952003544 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 491952003545 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 491952003546 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 491952003547 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 491952003548 DsbD alpha interface [polypeptide binding]; other site 491952003549 catalytic residues [active] 491952003550 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 491952003551 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491952003552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952003553 Coenzyme A binding pocket [chemical binding]; other site 491952003554 putative acetyltransferase; Provisional; Region: PRK03624 491952003555 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952003556 Coenzyme A binding pocket [chemical binding]; other site 491952003557 FRG domain; Region: FRG; pfam08867 491952003558 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 491952003559 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952003560 GST_N family, unknown subfamily 2; 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_2; cd03047 491952003561 putative C-terminal domain interface [polypeptide binding]; other site 491952003562 putative GSH binding site (G-site) [chemical binding]; other site 491952003563 putative dimer interface [polypeptide binding]; other site 491952003564 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 491952003565 N-terminal domain interface [polypeptide binding]; other site 491952003566 dimer interface [polypeptide binding]; other site 491952003567 substrate binding pocket (H-site) [chemical binding]; other site 491952003568 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 491952003569 NIPSNAP; Region: NIPSNAP; pfam07978 491952003570 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952003571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952003572 Coenzyme A binding pocket [chemical binding]; other site 491952003573 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 491952003574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952003575 DNA-binding site [nucleotide binding]; DNA binding site 491952003576 UTRA domain; Region: UTRA; pfam07702 491952003577 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952003578 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952003579 Walker A/P-loop; other site 491952003580 ATP binding site [chemical binding]; other site 491952003581 Q-loop/lid; other site 491952003582 ABC transporter signature motif; other site 491952003583 Walker B; other site 491952003584 D-loop; other site 491952003585 H-loop/switch region; other site 491952003586 TOBE domain; Region: TOBE_2; pfam08402 491952003587 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952003588 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952003589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952003590 dimer interface [polypeptide binding]; other site 491952003591 ABC-ATPase subunit interface; other site 491952003592 putative PBP binding loops; other site 491952003593 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952003594 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952003595 dimer interface [polypeptide binding]; other site 491952003596 conserved gate region; other site 491952003597 putative PBP binding loops; other site 491952003598 ABC-ATPase subunit interface; other site 491952003599 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952003600 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952003601 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 491952003602 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 491952003603 active site 491952003604 trimer interface [polypeptide binding]; other site 491952003605 allosteric site; other site 491952003606 active site lid [active] 491952003607 hexamer (dimer of trimers) interface [polypeptide binding]; other site 491952003608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491952003609 nucleotide binding site [chemical binding]; other site 491952003610 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 491952003611 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 491952003612 active site 491952003613 dimer interface [polypeptide binding]; other site 491952003614 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003615 dimer interface [polypeptide binding]; other site 491952003616 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 491952003617 putative CheW interface [polypeptide binding]; other site 491952003618 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 491952003619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952003620 substrate binding pocket [chemical binding]; other site 491952003621 membrane-bound complex binding site; other site 491952003622 hinge residues; other site 491952003623 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491952003624 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952003625 Coenzyme A binding pocket [chemical binding]; other site 491952003626 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952003627 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491952003628 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952003629 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952003630 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952003631 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 491952003632 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 491952003633 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952003634 Zn2+ binding site [ion binding]; other site 491952003635 Mg2+ binding site [ion binding]; other site 491952003636 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 491952003637 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952003638 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952003639 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 491952003640 putative active site [active] 491952003641 putative CoA binding site [chemical binding]; other site 491952003642 nudix motif; other site 491952003643 metal binding site [ion binding]; metal-binding site 491952003644 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 491952003645 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 491952003646 chorismate binding enzyme; Region: Chorismate_bind; cl10555 491952003647 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952003648 Type II transport protein GspH; Region: GspH; pfam12019 491952003649 NAD synthetase; Provisional; Region: PRK13981 491952003650 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 491952003651 multimer interface [polypeptide binding]; other site 491952003652 active site 491952003653 catalytic triad [active] 491952003654 protein interface 1 [polypeptide binding]; other site 491952003655 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 491952003656 homodimer interface [polypeptide binding]; other site 491952003657 NAD binding pocket [chemical binding]; other site 491952003658 ATP binding pocket [chemical binding]; other site 491952003659 Mg binding site [ion binding]; other site 491952003660 active-site loop [active] 491952003661 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 491952003662 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952003663 Uncharacterized conserved protein [Function unknown]; Region: COG1359 491952003664 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 491952003665 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 491952003666 RNA binding surface [nucleotide binding]; other site 491952003667 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 491952003668 probable active site [active] 491952003669 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 491952003670 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 491952003671 Paraquat-inducible protein A; Region: PqiA; pfam04403 491952003672 Paraquat-inducible protein A; Region: PqiA; pfam04403 491952003673 paraquat-inducible protein B; Provisional; Region: PRK10807 491952003674 mce related protein; Region: MCE; pfam02470 491952003675 mce related protein; Region: MCE; pfam02470 491952003676 mce related protein; Region: MCE; pfam02470 491952003677 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 491952003678 Protein of unknown function (DUF330); Region: DUF330; pfam03886 491952003679 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 491952003680 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 491952003681 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952003682 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 491952003683 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 491952003684 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 491952003685 tetramer interface [polypeptide binding]; other site 491952003686 active site 491952003687 Mg2+/Mn2+ binding site [ion binding]; other site 491952003688 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491952003689 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 491952003690 dimer interface [polypeptide binding]; other site 491952003691 active site 491952003692 catalytic residue [active] 491952003693 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952003694 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491952003695 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 491952003696 ligand binding site [chemical binding]; other site 491952003697 flexible hinge region; other site 491952003698 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 491952003699 ligand binding site [chemical binding]; other site 491952003700 flexible hinge region; other site 491952003701 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 491952003702 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952003703 putative acyl-acceptor binding pocket; other site 491952003704 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 491952003705 active site 491952003706 catalytic triad [active] 491952003707 oxyanion hole [active] 491952003708 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 491952003709 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 491952003710 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 491952003711 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 491952003712 Lipopolysaccharide-assembly; Region: LptE; cl01125 491952003713 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 491952003714 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491952003715 HIGH motif; other site 491952003716 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 491952003717 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 491952003718 active site 491952003719 KMSKS motif; other site 491952003720 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 491952003721 tRNA binding surface [nucleotide binding]; other site 491952003722 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 491952003723 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 491952003724 putative active site [active] 491952003725 catalytic triad [active] 491952003726 putative dimer interface [polypeptide binding]; other site 491952003727 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 491952003728 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 491952003729 Transporter associated domain; Region: CorC_HlyC; smart01091 491952003730 metal-binding heat shock protein; Provisional; Region: PRK00016 491952003731 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 491952003732 PhoH-like protein; Region: PhoH; pfam02562 491952003733 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 491952003734 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 491952003735 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 491952003736 FeS/SAM binding site; other site 491952003737 TRAM domain; Region: TRAM; pfam01938 491952003738 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952003739 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952003740 ligand binding site [chemical binding]; other site 491952003741 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952003742 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952003743 ligand binding site [chemical binding]; other site 491952003744 Uncharacterized conserved protein [Function unknown]; Region: COG2947 491952003745 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 491952003746 putative binding surface; other site 491952003747 active site 491952003748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952003749 Zn2+ binding site [ion binding]; other site 491952003750 Mg2+ binding site [ion binding]; other site 491952003751 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 491952003752 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 491952003753 putative active site [active] 491952003754 Zn binding site [ion binding]; other site 491952003755 topology modulation protein; Reviewed; Region: PRK08118 491952003756 AAA domain; Region: AAA_17; pfam13207 491952003757 MAPEG family; Region: MAPEG; cl09190 491952003758 MAPEG family; Region: MAPEG; cl09190 491952003759 Predicted transcriptional regulators [Transcription]; Region: COG1733 491952003760 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491952003761 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 491952003762 dimerization interface [polypeptide binding]; other site 491952003763 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952003764 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952003765 metal binding site [ion binding]; metal-binding site 491952003766 active site 491952003767 I-site; other site 491952003768 YCII-related domain; Region: YCII; cl00999 491952003769 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 491952003770 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 491952003771 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491952003772 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491952003773 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 491952003774 binding surface 491952003775 TPR motif; other site 491952003776 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491952003777 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 491952003778 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491952003779 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491952003780 active site 491952003781 ATP-dependent helicase HepA; Validated; Region: PRK04914 491952003782 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 491952003783 ATP binding site [chemical binding]; other site 491952003784 putative Mg++ binding site [ion binding]; other site 491952003785 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 491952003786 nucleotide binding region [chemical binding]; other site 491952003787 ATP-binding site [chemical binding]; other site 491952003788 hypothetical protein; Provisional; Region: PRK11568 491952003789 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 491952003790 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 491952003791 RmuC family; Region: RmuC; pfam02646 491952003792 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 491952003793 Cation efflux family; Region: Cation_efflux; pfam01545 491952003794 Putative exonuclease, RdgC; Region: RdgC; pfam04381 491952003795 thymidine kinase; Provisional; Region: PRK04296 491952003796 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 491952003797 ATP binding site [chemical binding]; other site 491952003798 Walker A motif; other site 491952003799 Walker B motif; other site 491952003800 LexA regulated protein; Provisional; Region: PRK11675 491952003801 carboxy-terminal protease; Provisional; Region: PRK11186 491952003802 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 491952003803 protein binding site [polypeptide binding]; other site 491952003804 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 491952003805 Catalytic dyad [active] 491952003806 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 491952003807 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 491952003808 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 491952003809 active site 491952003810 metal binding site [ion binding]; metal-binding site 491952003811 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 491952003812 flap endonuclease-like protein; Provisional; Region: PRK09482 491952003813 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 491952003814 active site 491952003815 metal binding site 1 [ion binding]; metal-binding site 491952003816 putative 5' ssDNA interaction site; other site 491952003817 metal binding site 3; metal-binding site 491952003818 metal binding site 2 [ion binding]; metal-binding site 491952003819 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 491952003820 putative DNA binding site [nucleotide binding]; other site 491952003821 putative metal binding site [ion binding]; other site 491952003822 Uncharacterized conserved protein [Function unknown]; Region: COG4715 491952003823 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952003824 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003825 dimer interface [polypeptide binding]; other site 491952003826 putative CheW interface [polypeptide binding]; other site 491952003827 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 491952003828 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491952003829 HIGH motif; other site 491952003830 K+-transporting ATPase, c chain; Region: KdpC; cl00944 491952003831 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 491952003832 active site 491952003833 KMSKS motif; other site 491952003834 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952003835 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952003836 dimer interface [polypeptide binding]; other site 491952003837 putative CheW interface [polypeptide binding]; other site 491952003838 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 491952003839 flavodoxin FldA; Validated; Region: PRK09267 491952003840 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952003841 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491952003842 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952003843 active site 491952003844 phosphorylation site [posttranslational modification] 491952003845 intermolecular recognition site; other site 491952003846 dimerization interface [polypeptide binding]; other site 491952003847 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 491952003848 Walker A motif; other site 491952003849 ATP binding site [chemical binding]; other site 491952003850 Walker B motif; other site 491952003851 arginine finger; other site 491952003852 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952003853 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 491952003854 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491952003855 putative active site [active] 491952003856 heme pocket [chemical binding]; other site 491952003857 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 491952003858 dimer interface [polypeptide binding]; other site 491952003859 phosphorylation site [posttranslational modification] 491952003860 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 491952003861 ATP binding site [chemical binding]; other site 491952003862 Mg2+ binding site [ion binding]; other site 491952003863 G-X-G motif; other site 491952003864 Predicted permeases [General function prediction only]; Region: COG0679 491952003865 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 491952003866 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952003867 active site 491952003868 phosphorylation site [posttranslational modification] 491952003869 intermolecular recognition site; other site 491952003870 dimerization interface [polypeptide binding]; other site 491952003871 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 491952003872 DNA binding site [nucleotide binding] 491952003873 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 491952003874 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 491952003875 dimerization interface [polypeptide binding]; other site 491952003876 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 491952003877 dimer interface [polypeptide binding]; other site 491952003878 phosphorylation site [posttranslational modification] 491952003879 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 491952003880 ATP binding site [chemical binding]; other site 491952003881 Mg2+ binding site [ion binding]; other site 491952003882 G-X-G motif; other site 491952003883 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952003884 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 491952003885 putative acyl-acceptor binding pocket; other site 491952003886 hypothetical protein; Provisional; Region: PRK12378 491952003887 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 491952003888 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 491952003889 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 491952003890 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 491952003891 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 491952003892 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 491952003893 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 491952003894 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491952003895 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491952003896 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491952003897 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 491952003898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952003899 NAD(P) binding site [chemical binding]; other site 491952003900 active site 491952003901 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 491952003902 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 491952003903 DNA gyrase subunit A; Validated; Region: PRK05560 491952003904 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 491952003905 CAP-like domain; other site 491952003906 active site 491952003907 primary dimer interface [polypeptide binding]; other site 491952003908 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491952003909 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491952003910 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491952003911 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 491952003912 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 491952003913 homodimer interface [polypeptide binding]; other site 491952003914 substrate-cofactor binding pocket; other site 491952003915 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491952003916 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952003917 catalytic residue [active] 491952003918 Chorismate mutase type II; Region: CM_2; cl00693 491952003919 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 491952003920 Prephenate dehydratase; Region: PDT; pfam00800 491952003921 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 491952003922 putative L-Phe binding site [chemical binding]; other site 491952003923 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 491952003924 prephenate dehydrogenase; Validated; Region: PRK08507 491952003925 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 491952003926 putative active site [active] 491952003927 cytidylate kinase; Provisional; Region: cmk; PRK00023 491952003928 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 491952003929 CMP-binding site; other site 491952003930 The sites determining sugar specificity; other site 491952003931 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 491952003932 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 491952003933 RNA binding site [nucleotide binding]; other site 491952003934 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 491952003935 RNA binding site [nucleotide binding]; other site 491952003936 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 491952003937 RNA binding site [nucleotide binding]; other site 491952003938 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 491952003939 RNA binding site [nucleotide binding]; other site 491952003940 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 491952003941 RNA binding site [nucleotide binding]; other site 491952003942 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 491952003943 RNA binding site [nucleotide binding]; other site 491952003944 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 491952003945 homodimer interaction site [polypeptide binding]; other site 491952003946 cofactor binding site; other site 491952003947 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 491952003948 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 491952003949 putative catalytic cysteine [active] 491952003950 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 491952003951 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 491952003952 active site 491952003953 (T/H)XGH motif; other site 491952003954 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 491952003955 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 491952003956 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 491952003957 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491952003958 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491952003959 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 491952003960 Transglycosylase SLT domain; Region: SLT_2; pfam13406 491952003961 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 491952003962 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491952003963 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 491952003964 rare lipoprotein A; Region: rlpA; TIGR00413 491952003965 Sporulation related domain; Region: SPOR; pfam05036 491952003966 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 491952003967 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 491952003968 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 491952003969 Protein of unknown function (DUF493); Region: DUF493; pfam04359 491952003970 lipoate-protein ligase B; Provisional; Region: PRK14342 491952003971 lipoyl synthase; Provisional; Region: PRK05481 491952003972 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 491952003973 FeS/SAM binding site; other site 491952003974 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491952003975 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491952003976 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 491952003977 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 491952003978 CAP-like domain; other site 491952003979 active site 491952003980 primary dimer interface [polypeptide binding]; other site 491952003981 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 491952003982 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 491952003983 heme binding site [chemical binding]; other site 491952003984 ferroxidase pore; other site 491952003985 ferroxidase diiron center [ion binding]; other site 491952003986 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 491952003987 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 491952003988 heme binding site [chemical binding]; other site 491952003989 ferroxidase pore; other site 491952003990 ferroxidase diiron center [ion binding]; other site 491952003991 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 491952003992 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 491952003993 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 491952003994 catalytic residues [active] 491952003995 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 491952003996 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 491952003997 active site 491952003998 hydrophilic channel; other site 491952003999 dimerization interface [polypeptide binding]; other site 491952004000 catalytic residues [active] 491952004001 active site lid [active] 491952004002 DTW domain; Region: DTW; cl01221 491952004003 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 491952004004 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 491952004005 biofilm formation regulator HmsP; Provisional; Region: PRK11829 491952004006 HAMP domain; Region: HAMP; pfam00672 491952004007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952004008 metal binding site [ion binding]; metal-binding site 491952004009 active site 491952004010 I-site; other site 491952004011 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 491952004012 phosphoribosylformylglycinamidine synthase, single chain form; Region: FGAM_synt; TIGR01735 491952004013 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 491952004014 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 491952004015 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491952004016 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 491952004017 Walker A/P-loop; other site 491952004018 ATP binding site [chemical binding]; other site 491952004019 Q-loop/lid; other site 491952004020 ABC transporter signature motif; other site 491952004021 Walker B; other site 491952004022 D-loop; other site 491952004023 H-loop/switch region; other site 491952004024 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 491952004025 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952004026 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952004027 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491952004028 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 491952004029 DNA binding residues [nucleotide binding] 491952004030 dimerization interface [polypeptide binding]; other site 491952004031 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 491952004032 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004033 active site 491952004034 phosphorylation site [posttranslational modification] 491952004035 intermolecular recognition site; other site 491952004036 ANTAR domain; Region: ANTAR; pfam03861 491952004037 NMT1-like family; Region: NMT1_2; pfam13379 491952004038 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491952004039 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491952004040 NMT1-like family; Region: NMT1_2; pfam13379 491952004041 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491952004042 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004043 dimer interface [polypeptide binding]; other site 491952004044 conserved gate region; other site 491952004045 putative PBP binding loops; other site 491952004046 ABC-ATPase subunit interface; other site 491952004047 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491952004048 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491952004049 Walker A/P-loop; other site 491952004050 ATP binding site [chemical binding]; other site 491952004051 Q-loop/lid; other site 491952004052 ABC transporter signature motif; other site 491952004053 Walker B; other site 491952004054 D-loop; other site 491952004055 H-loop/switch region; other site 491952004056 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 491952004057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952004058 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952004059 nitrite reductase subunit NirD; Provisional; Region: PRK14989 491952004060 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491952004061 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491952004062 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 491952004063 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 491952004064 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 491952004065 [4Fe-4S] binding site [ion binding]; other site 491952004066 molybdopterin cofactor binding site; other site 491952004067 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 491952004068 molybdopterin cofactor binding site; other site 491952004069 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 491952004070 hypothetical protein; Validated; Region: PRK09071 491952004071 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491952004072 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491952004073 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 491952004074 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 491952004075 GTP binding site; other site 491952004076 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 491952004077 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 491952004078 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 491952004079 active site 491952004080 substrate binding site [chemical binding]; other site 491952004081 cosubstrate binding site; other site 491952004082 catalytic site [active] 491952004083 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 491952004084 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 491952004085 dimerization interface [polypeptide binding]; other site 491952004086 putative ATP binding site [chemical binding]; other site 491952004087 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 491952004088 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 491952004089 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 491952004090 dimer interface [polypeptide binding]; other site 491952004091 active site 491952004092 citrylCoA binding site [chemical binding]; other site 491952004093 NADH binding [chemical binding]; other site 491952004094 cationic pore residues; other site 491952004095 oxalacetate/citrate binding site [chemical binding]; other site 491952004096 coenzyme A binding site [chemical binding]; other site 491952004097 catalytic triad [active] 491952004098 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 491952004099 Iron-sulfur protein interface; other site 491952004100 proximal quinone binding site [chemical binding]; other site 491952004101 SdhD (CybS) interface [polypeptide binding]; other site 491952004102 proximal heme binding site [chemical binding]; other site 491952004103 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 491952004104 SdhC subunit interface [polypeptide binding]; other site 491952004105 proximal heme binding site [chemical binding]; other site 491952004106 cardiolipin binding site; other site 491952004107 Iron-sulfur protein interface; other site 491952004108 proximal quinone binding site [chemical binding]; other site 491952004109 L-aspartate oxidase; Provisional; Region: PRK06175 491952004110 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK05675 491952004111 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 491952004112 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 491952004113 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 491952004114 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 491952004115 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 491952004116 TPP-binding site [chemical binding]; other site 491952004117 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 491952004118 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 491952004119 E3 interaction surface; other site 491952004120 lipoyl attachment site [posttranslational modification]; other site 491952004121 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 491952004122 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 491952004123 E3 interaction surface; other site 491952004124 lipoyl attachment site [posttranslational modification]; other site 491952004125 e3 binding domain; Region: E3_binding; pfam02817 491952004126 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 491952004127 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 491952004128 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952004129 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491952004130 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 491952004131 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 491952004132 CoA-ligase; Region: Ligase_CoA; pfam00549 491952004133 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 491952004134 CoA binding domain; Region: CoA_binding; pfam02629 491952004135 CoA-ligase; Region: Ligase_CoA; pfam00549 491952004136 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 491952004137 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952004138 Predicted dehydrogenase [General function prediction only]; Region: COG0579 491952004139 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 491952004140 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 491952004141 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 491952004142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004143 active site 491952004144 phosphorylation site [posttranslational modification] 491952004145 intermolecular recognition site; other site 491952004146 dimerization interface [polypeptide binding]; other site 491952004147 Transcriptional regulator; Region: CitT; pfam12431 491952004148 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 491952004149 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 491952004150 ATP binding site [chemical binding]; other site 491952004151 Mg2+ binding site [ion binding]; other site 491952004152 G-X-G motif; other site 491952004153 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 491952004154 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491952004155 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491952004156 DinB family; Region: DinB; cl17821 491952004157 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 491952004158 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 491952004159 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 491952004160 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 491952004161 active site 491952004162 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 491952004163 Catalytic domain of Protein Kinases; Region: PKc; cd00180 491952004164 active site 491952004165 ATP binding site [chemical binding]; other site 491952004166 substrate binding site [chemical binding]; other site 491952004167 activation loop (A-loop); other site 491952004168 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 491952004169 cyanate hydratase; Validated; Region: PRK02866 491952004170 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 491952004171 oligomer interface [polypeptide binding]; other site 491952004172 active site 491952004173 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 491952004174 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 491952004175 putative ligand binding site [chemical binding]; other site 491952004176 NAD binding site [chemical binding]; other site 491952004177 dimerization interface [polypeptide binding]; other site 491952004178 catalytic site [active] 491952004179 aldolase II superfamily protein; Provisional; Region: PRK07044 491952004180 intersubunit interface [polypeptide binding]; other site 491952004181 active site 491952004182 Zn2+ binding site [ion binding]; other site 491952004183 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004184 dimer interface [polypeptide binding]; other site 491952004185 conserved gate region; other site 491952004186 putative PBP binding loops; other site 491952004187 ABC-ATPase subunit interface; other site 491952004188 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952004189 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952004190 Walker A/P-loop; other site 491952004191 ATP binding site [chemical binding]; other site 491952004192 Q-loop/lid; other site 491952004193 ABC transporter signature motif; other site 491952004194 Walker B; other site 491952004195 D-loop; other site 491952004196 H-loop/switch region; other site 491952004197 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 491952004198 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952004199 substrate binding pocket [chemical binding]; other site 491952004200 membrane-bound complex binding site; other site 491952004201 hinge residues; other site 491952004202 oxidoreductase; Region: PLN02485 491952004203 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 491952004204 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 491952004205 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 491952004206 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 491952004207 agmatinase; Region: agmatinase; TIGR01230 491952004208 oligomer interface [polypeptide binding]; other site 491952004209 putative active site [active] 491952004210 Mn binding site [ion binding]; other site 491952004211 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952004212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004213 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 491952004214 dimerization interface [polypeptide binding]; other site 491952004215 LysE type translocator; Region: LysE; cl00565 491952004216 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952004217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004218 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 491952004219 dimerization interface [polypeptide binding]; other site 491952004220 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 491952004221 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952004222 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952004223 NADH kinase; Region: PLN02929 491952004224 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 491952004225 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 491952004226 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 491952004227 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 491952004228 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491952004229 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 491952004230 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 491952004231 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491952004232 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491952004233 putative active site [active] 491952004234 putative substrate binding site [chemical binding]; other site 491952004235 putative cosubstrate binding site; other site 491952004236 catalytic site [active] 491952004237 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 491952004238 Active Sites [active] 491952004239 D-lactate dehydrogenase; Provisional; Region: PRK11183 491952004240 FAD binding domain; Region: FAD_binding_4; pfam01565 491952004241 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 491952004242 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 491952004243 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 491952004244 active site 491952004245 Zn binding site [ion binding]; other site 491952004246 Family of unknown function (DUF695); Region: DUF695; pfam05117 491952004247 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 491952004248 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 491952004249 Family description; Region: VCBS; pfam13517 491952004250 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 491952004251 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 491952004252 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 491952004253 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 491952004254 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 491952004255 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004256 Coenzyme A binding pocket [chemical binding]; other site 491952004257 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491952004258 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491952004259 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 491952004260 iron-sulfur cluster [ion binding]; other site 491952004261 [2Fe-2S] cluster binding site [ion binding]; other site 491952004262 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 491952004263 hydrophobic ligand binding site; other site 491952004264 Cupin; Region: Cupin_6; pfam12852 491952004265 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952004266 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952004267 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952004268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004269 Coenzyme A binding pocket [chemical binding]; other site 491952004270 Protein of unknown function (DUF3265); Region: DUF3265; pfam11665 491952004271 Family of unknown function (DUF695); Region: DUF695; pfam05117 491952004272 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952004273 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 491952004274 active site 491952004275 metal binding site [ion binding]; metal-binding site 491952004276 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491952004277 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 491952004278 non-specific DNA binding site [nucleotide binding]; other site 491952004279 salt bridge; other site 491952004280 sequence-specific DNA binding site [nucleotide binding]; other site 491952004281 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 491952004282 Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are...; Region: PRX_family; cd02971 491952004283 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491952004284 catalytic triad [active] 491952004285 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952004286 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952004287 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 491952004288 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 491952004289 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 491952004290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004291 Coenzyme A binding pocket [chemical binding]; other site 491952004292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004293 Coenzyme A binding pocket [chemical binding]; other site 491952004294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952004295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004296 Coenzyme A binding pocket [chemical binding]; other site 491952004297 Uncharacterized protein family (UPF0160); Region: UPF0160; pfam03690 491952004298 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004299 Coenzyme A binding pocket [chemical binding]; other site 491952004300 Uncharacterized conserved protein [Function unknown]; Region: COG1359 491952004301 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 491952004302 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491952004303 classical (c) SDRs; Region: SDR_c; cd05233 491952004304 NAD(P) binding site [chemical binding]; other site 491952004305 active site 491952004306 Uncharacterized conserved protein [Function unknown]; Region: COG1683 491952004307 Protein of unknown function, DUF393; Region: DUF393; pfam04134 491952004308 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 491952004309 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952004310 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 491952004311 C-terminal domain interface [polypeptide binding]; other site 491952004312 GSH binding site (G-site) [chemical binding]; other site 491952004313 dimer interface [polypeptide binding]; other site 491952004314 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 491952004315 dimer interface [polypeptide binding]; other site 491952004316 N-terminal domain interface [polypeptide binding]; other site 491952004317 substrate binding pocket (H-site) [chemical binding]; other site 491952004318 Beta-lactamase; Region: Beta-lactamase; pfam00144 491952004319 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491952004320 SnoaL-like domain; Region: SnoaL_3; pfam13474 491952004321 SnoaL-like domain; Region: SnoaL_2; pfam12680 491952004322 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 491952004323 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491952004324 NAD binding site [chemical binding]; other site 491952004325 substrate binding site [chemical binding]; other site 491952004326 putative active site [active] 491952004327 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 491952004328 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952004329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004330 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 491952004331 putative effector binding pocket; other site 491952004332 dimerization interface [polypeptide binding]; other site 491952004333 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 491952004334 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 491952004335 putative active site [active] 491952004336 putative FMN binding site [chemical binding]; other site 491952004337 putative substrate binding site [chemical binding]; other site 491952004338 putative catalytic residue [active] 491952004339 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952004340 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 491952004341 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 491952004342 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491952004343 catalytic residue [active] 491952004344 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 491952004345 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 491952004346 active site 491952004347 V4R domain; Region: V4R; cl15268 491952004348 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 491952004349 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 491952004350 putative active site [active] 491952004351 putative FMN binding site [chemical binding]; other site 491952004352 putative substrate binding site [chemical binding]; other site 491952004353 putative catalytic residue [active] 491952004354 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952004355 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 491952004356 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 491952004357 Cysteine-rich domain; Region: CCG; pfam02754 491952004358 Cysteine-rich domain; Region: CCG; pfam02754 491952004359 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 491952004360 Electron transfer flavoprotein domain; Region: ETF; smart00893 491952004361 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 491952004362 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 491952004363 Electron transfer flavoprotein domain; Region: ETF; pfam01012 491952004364 Cache domain; Region: Cache_1; pfam02743 491952004365 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 491952004366 dimerization interface [polypeptide binding]; other site 491952004367 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952004368 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952004369 dimer interface [polypeptide binding]; other site 491952004370 putative CheW interface [polypeptide binding]; other site 491952004371 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 491952004372 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 491952004373 intersubunit interface [polypeptide binding]; other site 491952004374 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 491952004375 active site 491952004376 catalytic residues [active] 491952004377 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952004378 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 491952004379 active site 491952004380 homotetramer interface [polypeptide binding]; other site 491952004381 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 491952004382 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 491952004383 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 491952004384 tetrameric interface [polypeptide binding]; other site 491952004385 NAD binding site [chemical binding]; other site 491952004386 catalytic residues [active] 491952004387 substrate binding site [chemical binding]; other site 491952004388 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952004389 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004390 dimer interface [polypeptide binding]; other site 491952004391 conserved gate region; other site 491952004392 putative PBP binding loops; other site 491952004393 ABC-ATPase subunit interface; other site 491952004394 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952004395 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004396 dimer interface [polypeptide binding]; other site 491952004397 conserved gate region; other site 491952004398 putative PBP binding loops; other site 491952004399 ABC-ATPase subunit interface; other site 491952004400 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952004401 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 491952004402 Walker A/P-loop; other site 491952004403 ATP binding site [chemical binding]; other site 491952004404 Q-loop/lid; other site 491952004405 ABC transporter signature motif; other site 491952004406 Walker B; other site 491952004407 D-loop; other site 491952004408 H-loop/switch region; other site 491952004409 TOBE domain; Region: TOBE_2; pfam08402 491952004410 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491952004411 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491952004412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952004413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004414 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 491952004415 dimerization interface [polypeptide binding]; other site 491952004416 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 491952004417 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 491952004418 tetrameric interface [polypeptide binding]; other site 491952004419 NAD binding site [chemical binding]; other site 491952004420 catalytic residues [active] 491952004421 substrate binding site [chemical binding]; other site 491952004422 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 491952004423 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952004424 putative metal binding site [ion binding]; other site 491952004425 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952004426 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952004427 short chain dehydrogenase; Provisional; Region: PRK06500 491952004428 classical (c) SDRs; Region: SDR_c; cd05233 491952004429 NAD(P) binding site [chemical binding]; other site 491952004430 active site 491952004431 Sporulation related domain; Region: SPOR; pfam05036 491952004432 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 491952004433 oxidase reductase; Provisional; Region: PTZ00273 491952004434 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 491952004435 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 491952004436 nucleoside/Zn binding site; other site 491952004437 dimer interface [polypeptide binding]; other site 491952004438 catalytic motif [active] 491952004439 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491952004440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952004441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952004442 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491952004443 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491952004444 Walker A/P-loop; other site 491952004445 ATP binding site [chemical binding]; other site 491952004446 Q-loop/lid; other site 491952004447 ABC transporter signature motif; other site 491952004448 Walker B; other site 491952004449 D-loop; other site 491952004450 H-loop/switch region; other site 491952004451 NMT1/THI5 like; Region: NMT1; pfam09084 491952004452 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 491952004453 substrate binding pocket [chemical binding]; other site 491952004454 membrane-bound complex binding site; other site 491952004455 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 491952004456 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 491952004457 FAD binding domain; Region: FAD_binding_4; pfam01565 491952004458 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 491952004459 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 491952004460 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 491952004461 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 491952004462 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 491952004463 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 491952004464 XdhC Rossmann domain; Region: XdhC_C; pfam13478 491952004465 Protein of unknown function (DUF419); Region: DUF419; cl15265 491952004466 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491952004467 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 491952004468 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952004469 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004470 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 491952004471 dimerization interface [polypeptide binding]; other site 491952004472 substrate binding pocket [chemical binding]; other site 491952004473 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 491952004474 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 491952004475 domain interface [polypeptide binding]; other site 491952004476 putative active site [active] 491952004477 catalytic site [active] 491952004478 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 491952004479 domain interface [polypeptide binding]; other site 491952004480 putative active site [active] 491952004481 catalytic site [active] 491952004482 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491952004483 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 491952004484 [2Fe-2S] cluster binding site [ion binding]; other site 491952004485 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 491952004486 putative alpha subunit interface [polypeptide binding]; other site 491952004487 putative active site [active] 491952004488 putative substrate binding site [chemical binding]; other site 491952004489 Fe binding site [ion binding]; other site 491952004490 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 491952004491 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 491952004492 FAD binding pocket [chemical binding]; other site 491952004493 FAD binding motif [chemical binding]; other site 491952004494 phosphate binding motif [ion binding]; other site 491952004495 beta-alpha-beta structure motif; other site 491952004496 NAD binding pocket [chemical binding]; other site 491952004497 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 491952004498 catalytic loop [active] 491952004499 iron binding site [ion binding]; other site 491952004500 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 491952004501 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 491952004502 conserved cys residue [active] 491952004503 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952004504 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 491952004505 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 491952004506 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 491952004507 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 491952004508 Ligand binding site; other site 491952004509 Putative Catalytic site; other site 491952004510 DXD motif; other site 491952004511 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952004512 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004513 active site 491952004514 phosphorylation site [posttranslational modification] 491952004515 intermolecular recognition site; other site 491952004516 dimerization interface [polypeptide binding]; other site 491952004517 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 491952004518 DNA binding site [nucleotide binding] 491952004519 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952004520 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 491952004521 dimer interface [polypeptide binding]; other site 491952004522 phosphorylation site [posttranslational modification] 491952004523 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 491952004524 ATP binding site [chemical binding]; other site 491952004525 Mg2+ binding site [ion binding]; other site 491952004526 G-X-G motif; other site 491952004527 Pirin; Region: Pirin; pfam02678 491952004528 Pirin-related protein [General function prediction only]; Region: COG1741 491952004529 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 491952004530 Predicted membrane protein [Function unknown]; Region: COG2246 491952004531 GtrA-like protein; Region: GtrA; pfam04138 491952004532 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 491952004533 active site 1 [active] 491952004534 dimer interface [polypeptide binding]; other site 491952004535 hexamer interface [polypeptide binding]; other site 491952004536 active site 2 [active] 491952004537 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491952004538 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952004539 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 491952004540 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 491952004541 active site 491952004542 homodimer interface [polypeptide binding]; other site 491952004543 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 491952004544 Aspartase; Region: Aspartase; cd01357 491952004545 active sites [active] 491952004546 tetramer interface [polypeptide binding]; other site 491952004547 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 491952004548 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 491952004549 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 491952004550 sequence-specific DNA binding site [nucleotide binding]; other site 491952004551 salt bridge; other site 491952004552 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 491952004553 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952004554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952004555 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 491952004556 dimerization interface [polypeptide binding]; other site 491952004557 substrate binding pocket [chemical binding]; other site 491952004558 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952004559 EamA-like transporter family; Region: EamA; pfam00892 491952004560 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 491952004561 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 491952004562 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 491952004563 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 491952004564 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 491952004565 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 491952004566 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 491952004567 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 491952004568 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 491952004569 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 491952004570 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 491952004571 Protein export membrane protein; Region: SecD_SecF; pfam02355 491952004572 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 491952004573 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 491952004574 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 491952004575 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 491952004576 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 491952004577 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952004578 ligand binding site [chemical binding]; other site 491952004579 GTPase RsgA; Reviewed; Region: PRK12288 491952004580 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 491952004581 GTPase/Zn-binding domain interface [polypeptide binding]; other site 491952004582 GTP/Mg2+ binding site [chemical binding]; other site 491952004583 G4 box; other site 491952004584 G5 box; other site 491952004585 G1 box; other site 491952004586 Switch I region; other site 491952004587 G2 box; other site 491952004588 G3 box; other site 491952004589 Switch II region; other site 491952004590 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 491952004591 catalytic site [active] 491952004592 putative active site [active] 491952004593 putative substrate binding site [chemical binding]; other site 491952004594 dimer interface [polypeptide binding]; other site 491952004595 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952004596 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 491952004597 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 491952004598 AMIN domain; Region: AMIN; pfam11741 491952004599 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 491952004600 active site 491952004601 metal binding site [ion binding]; metal-binding site 491952004602 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 491952004603 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491952004604 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 491952004605 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 491952004606 ATP binding site [chemical binding]; other site 491952004607 Mg2+ binding site [ion binding]; other site 491952004608 G-X-G motif; other site 491952004609 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 491952004610 ATP binding site [chemical binding]; other site 491952004611 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 491952004612 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 491952004613 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 491952004614 bacterial Hfq-like; Region: Hfq; cd01716 491952004615 hexamer interface [polypeptide binding]; other site 491952004616 Sm1 motif; other site 491952004617 RNA binding site [nucleotide binding]; other site 491952004618 Sm2 motif; other site 491952004619 GTPase HflX; Provisional; Region: PRK11058 491952004620 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 491952004621 HflX GTPase family; Region: HflX; cd01878 491952004622 G1 box; other site 491952004623 GTP/Mg2+ binding site [chemical binding]; other site 491952004624 Switch I region; other site 491952004625 G2 box; other site 491952004626 G3 box; other site 491952004627 Switch II region; other site 491952004628 G4 box; other site 491952004629 G5 box; other site 491952004630 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 491952004631 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 491952004632 HflK protein; Region: hflK; TIGR01933 491952004633 HflC protein; Region: hflC; TIGR01932 491952004634 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 491952004635 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 491952004636 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 491952004637 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 491952004638 dimer interface [polypeptide binding]; other site 491952004639 motif 1; other site 491952004640 active site 491952004641 motif 2; other site 491952004642 motif 3; other site 491952004643 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 491952004644 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 491952004645 GDP-binding site [chemical binding]; other site 491952004646 ACT binding site; other site 491952004647 IMP binding site; other site 491952004648 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952004649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004650 active site 491952004651 phosphorylation site [posttranslational modification] 491952004652 intermolecular recognition site; other site 491952004653 dimerization interface [polypeptide binding]; other site 491952004654 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 491952004655 DNA binding site [nucleotide binding] 491952004656 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 491952004657 dimerization interface [polypeptide binding]; other site 491952004658 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 491952004659 dimer interface [polypeptide binding]; other site 491952004660 phosphorylation site [posttranslational modification] 491952004661 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 491952004662 ATP binding site [chemical binding]; other site 491952004663 Mg2+ binding site [ion binding]; other site 491952004664 G-X-G motif; other site 491952004665 cell division protein MraZ; Reviewed; Region: PRK00326 491952004666 MraZ protein; Region: MraZ; pfam02381 491952004667 MraZ protein; Region: MraZ; pfam02381 491952004668 MraW methylase family; Region: Methyltransf_5; cl17771 491952004669 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 491952004670 Cell division protein FtsL; Region: FtsL; pfam04999 491952004671 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 491952004672 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 491952004673 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 491952004674 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491952004675 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 491952004676 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491952004677 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491952004678 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 491952004679 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491952004680 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491952004681 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491952004682 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 491952004683 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 491952004684 Mg++ binding site [ion binding]; other site 491952004685 putative catalytic motif [active] 491952004686 putative substrate binding site [chemical binding]; other site 491952004687 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 491952004688 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952004689 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491952004690 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491952004691 cell division protein FtsW; Region: ftsW; TIGR02614 491952004692 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 491952004693 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 491952004694 active site 491952004695 homodimer interface [polypeptide binding]; other site 491952004696 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 491952004697 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 491952004698 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491952004699 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 491952004700 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 491952004701 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 491952004702 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491952004703 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 491952004704 Cell division protein FtsQ; Region: FtsQ; pfam03799 491952004705 cell division protein FtsA; Region: ftsA; TIGR01174 491952004706 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 491952004707 nucleotide binding site [chemical binding]; other site 491952004708 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 491952004709 Cell division protein FtsA; Region: FtsA; pfam14450 491952004710 cell division protein FtsZ; Validated; Region: PRK09330 491952004711 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 491952004712 nucleotide binding site [chemical binding]; other site 491952004713 SulA interaction site; other site 491952004714 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 491952004715 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 491952004716 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 491952004717 DEAD/DEAH box helicase; Region: DEAD; pfam00270 491952004718 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 491952004719 SEC-C motif; Region: SEC-C; pfam02810 491952004720 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 491952004721 heterotetramer interface [polypeptide binding]; other site 491952004722 active site pocket [active] 491952004723 cleavage site 491952004724 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 491952004725 active site 491952004726 8-oxo-dGMP binding site [chemical binding]; other site 491952004727 nudix motif; other site 491952004728 metal binding site [ion binding]; metal-binding site 491952004729 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004730 Response regulator receiver domain; Region: Response_reg; pfam00072 491952004731 active site 491952004732 phosphorylation site [posttranslational modification] 491952004733 intermolecular recognition site; other site 491952004734 dimerization interface [polypeptide binding]; other site 491952004735 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 491952004736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952004737 active site 491952004738 phosphorylation site [posttranslational modification] 491952004739 intermolecular recognition site; other site 491952004740 dimerization interface [polypeptide binding]; other site 491952004741 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 491952004742 Putative phosphatase (DUF442); Region: DUF442; cl17385 491952004743 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 491952004744 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 491952004745 non-specific DNA binding site [nucleotide binding]; other site 491952004746 salt bridge; other site 491952004747 sequence-specific DNA binding site [nucleotide binding]; other site 491952004748 Cupin domain; Region: Cupin_2; pfam07883 491952004749 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 491952004750 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 491952004751 GIY-YIG motif/motif A; other site 491952004752 putative active site [active] 491952004753 putative metal binding site [ion binding]; other site 491952004754 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 491952004755 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 491952004756 S-adenosylmethionine binding site [chemical binding]; other site 491952004757 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 491952004758 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 491952004759 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 491952004760 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 491952004761 active site 491952004762 dimer interface [polypeptide binding]; other site 491952004763 motif 1; other site 491952004764 motif 2; other site 491952004765 motif 3; other site 491952004766 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 491952004767 anticodon binding site; other site 491952004768 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 491952004769 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 491952004770 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 491952004771 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 491952004772 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 491952004773 23S rRNA binding site [nucleotide binding]; other site 491952004774 L21 binding site [polypeptide binding]; other site 491952004775 L13 binding site [polypeptide binding]; other site 491952004776 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 491952004777 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 491952004778 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 491952004779 dimer interface [polypeptide binding]; other site 491952004780 motif 1; other site 491952004781 active site 491952004782 motif 2; other site 491952004783 motif 3; other site 491952004784 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 491952004785 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 491952004786 putative tRNA-binding site [nucleotide binding]; other site 491952004787 B3/4 domain; Region: B3_4; pfam03483 491952004788 tRNA synthetase B5 domain; Region: B5; smart00874 491952004789 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 491952004790 dimer interface [polypeptide binding]; other site 491952004791 motif 1; other site 491952004792 motif 3; other site 491952004793 motif 2; other site 491952004794 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 491952004795 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 491952004796 IHF dimer interface [polypeptide binding]; other site 491952004797 IHF - DNA interface [nucleotide binding]; other site 491952004798 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 491952004799 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 491952004800 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952004801 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952004802 metal binding site [ion binding]; metal-binding site 491952004803 active site 491952004804 I-site; other site 491952004805 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 491952004806 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952004807 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952004808 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 491952004809 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952004810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952004811 Coenzyme A binding pocket [chemical binding]; other site 491952004812 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 491952004813 Coenzyme A binding pocket [chemical binding]; other site 491952004814 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491952004815 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952004816 NAD(P) binding site [chemical binding]; other site 491952004817 catalytic residues [active] 491952004818 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 491952004819 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 491952004820 motif II; other site 491952004821 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491952004822 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491952004823 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491952004824 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 491952004825 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952004826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004827 dimer interface [polypeptide binding]; other site 491952004828 conserved gate region; other site 491952004829 putative PBP binding loops; other site 491952004830 ABC-ATPase subunit interface; other site 491952004831 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491952004832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952004833 dimer interface [polypeptide binding]; other site 491952004834 conserved gate region; other site 491952004835 ABC-ATPase subunit interface; other site 491952004836 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491952004837 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952004838 Walker A/P-loop; other site 491952004839 ATP binding site [chemical binding]; other site 491952004840 Q-loop/lid; other site 491952004841 ABC transporter signature motif; other site 491952004842 Walker B; other site 491952004843 D-loop; other site 491952004844 H-loop/switch region; other site 491952004845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952004846 Walker A/P-loop; other site 491952004847 ATP binding site [chemical binding]; other site 491952004848 Q-loop/lid; other site 491952004849 ABC transporter signature motif; other site 491952004850 Walker B; other site 491952004851 D-loop; other site 491952004852 H-loop/switch region; other site 491952004853 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491952004854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952004855 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952004856 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952004857 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491952004858 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952004859 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 491952004860 putative active site [active] 491952004861 Zn binding site [ion binding]; other site 491952004862 succinic semialdehyde dehydrogenase; Region: PLN02278 491952004863 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 491952004864 tetramerization interface [polypeptide binding]; other site 491952004865 NAD(P) binding site [chemical binding]; other site 491952004866 catalytic residues [active] 491952004867 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952004868 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 491952004869 putative DNA binding site [nucleotide binding]; other site 491952004870 putative Zn2+ binding site [ion binding]; other site 491952004871 AsnC family; Region: AsnC_trans_reg; pfam01037 491952004872 hypothetical protein; Provisional; Region: PRK05965 491952004873 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 491952004874 inhibitor-cofactor binding pocket; inhibition site 491952004875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952004876 catalytic residue [active] 491952004877 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 491952004878 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 491952004879 putative ligand binding site [chemical binding]; other site 491952004880 NAD binding site [chemical binding]; other site 491952004881 dimerization interface [polypeptide binding]; other site 491952004882 catalytic site [active] 491952004883 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 491952004884 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952004885 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952004886 metal binding site [ion binding]; metal-binding site 491952004887 active site 491952004888 I-site; other site 491952004889 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 491952004890 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 491952004891 Imelysin; Region: Peptidase_M75; pfam09375 491952004892 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 491952004893 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 491952004894 Imelysin; Region: Peptidase_M75; cl09159 491952004895 Predicted flavoproteins [General function prediction only]; Region: COG2081 491952004896 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 491952004897 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952004898 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952004899 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952004900 ligand binding site [chemical binding]; other site 491952004901 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952004902 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 491952004903 dimer interface [polypeptide binding]; other site 491952004904 active site 491952004905 metal binding site [ion binding]; metal-binding site 491952004906 glutathione binding site [chemical binding]; other site 491952004907 Nucleoid-associated protein [General function prediction only]; Region: COG3081 491952004908 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 491952004909 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 491952004910 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 491952004911 motif II; other site 491952004912 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 491952004913 DTW domain; Region: DTW; cl01221 491952004914 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 491952004915 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952004916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952004917 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 491952004918 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 491952004919 ATP binding site [chemical binding]; other site 491952004920 putative Mg++ binding site [ion binding]; other site 491952004921 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 491952004922 nucleotide binding region [chemical binding]; other site 491952004923 ATP-binding site [chemical binding]; other site 491952004924 Double zinc ribbon; Region: DZR; pfam12773 491952004925 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 491952004926 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 491952004927 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 491952004928 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 491952004929 active site residue [active] 491952004930 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 491952004931 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 491952004932 Walker A motif; other site 491952004933 ATP binding site [chemical binding]; other site 491952004934 Walker B motif; other site 491952004935 arginine finger; other site 491952004936 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 491952004937 hypothetical protein; Validated; Region: PRK00153 491952004938 recombination protein RecR; Reviewed; Region: recR; PRK00076 491952004939 RecR protein; Region: RecR; pfam02132 491952004940 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 491952004941 putative active site [active] 491952004942 putative metal-binding site [ion binding]; other site 491952004943 tetramer interface [polypeptide binding]; other site 491952004944 ribonuclease D; Region: rnd; TIGR01388 491952004945 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 491952004946 catalytic site [active] 491952004947 putative active site [active] 491952004948 putative substrate binding site [chemical binding]; other site 491952004949 HRDC domain; Region: HRDC; pfam00570 491952004950 YcgL domain; Region: YcgL; pfam05166 491952004951 hypothetical protein; Provisional; Region: PRK05170 491952004952 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 491952004953 metal ion-dependent adhesion site (MIDAS); other site 491952004954 TIGR03503 family protein; Region: TIGR03503 491952004955 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 491952004956 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 491952004957 putative active site [active] 491952004958 putative dimer interface [polypeptide binding]; other site 491952004959 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 491952004960 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 491952004961 dimer interface [polypeptide binding]; other site 491952004962 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952004963 catalytic residue [active] 491952004964 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 491952004965 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 491952004966 ATP binding site [chemical binding]; other site 491952004967 putative Mg++ binding site [ion binding]; other site 491952004968 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 491952004969 nucleotide binding region [chemical binding]; other site 491952004970 ATP-binding site [chemical binding]; other site 491952004971 Helicase associated domain (HA2); Region: HA2; pfam04408 491952004972 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 491952004973 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 491952004974 VacJ like lipoprotein; Region: VacJ; cl01073 491952004975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952004976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952004977 metal binding site [ion binding]; metal-binding site 491952004978 active site 491952004979 I-site; other site 491952004980 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 491952004981 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 491952004982 maltose O-acetyltransferase; Provisional; Region: PRK10092 491952004983 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 491952004984 active site 491952004985 substrate binding site [chemical binding]; other site 491952004986 trimer interface [polypeptide binding]; other site 491952004987 CoA binding site [chemical binding]; other site 491952004988 transaldolase-like protein; Provisional; Region: PTZ00411 491952004989 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 491952004990 active site 491952004991 dimer interface [polypeptide binding]; other site 491952004992 catalytic residue [active] 491952004993 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 491952004994 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 491952004995 FMN binding site [chemical binding]; other site 491952004996 active site 491952004997 catalytic residues [active] 491952004998 substrate binding site [chemical binding]; other site 491952004999 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 491952005000 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491952005001 synthetase active site [active] 491952005002 NTP binding site [chemical binding]; other site 491952005003 metal binding site [ion binding]; metal-binding site 491952005004 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 491952005005 KilA-N domain; Region: KilA-N; pfam04383 491952005006 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 491952005007 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 491952005008 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491952005009 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 491952005010 Endonuclease I; Region: Endonuclease_1; pfam04231 491952005011 104 kDa microneme/rhoptry antigen; Provisional; Region: PTZ00449 491952005012 carbon storage regulator; Provisional; Region: PRK01712 491952005013 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 491952005014 non-specific DNA binding site [nucleotide binding]; other site 491952005015 salt bridge; other site 491952005016 sequence-specific DNA binding site [nucleotide binding]; other site 491952005017 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 491952005018 Catalytic site [active] 491952005019 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 491952005020 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 491952005021 YaeQ protein; Region: YaeQ; pfam07152 491952005022 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491952005023 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 491952005024 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 491952005025 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 491952005026 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 491952005027 catalytic residues [active] 491952005028 dimer interface [polypeptide binding]; other site 491952005029 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 491952005030 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005031 Walker A/P-loop; other site 491952005032 ATP binding site [chemical binding]; other site 491952005033 Q-loop/lid; other site 491952005034 ABC transporter signature motif; other site 491952005035 Walker B; other site 491952005036 D-loop; other site 491952005037 H-loop/switch region; other site 491952005038 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 491952005039 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952005040 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 491952005041 hypothetical protein; Provisional; Region: PRK11622 491952005042 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 491952005043 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 491952005044 active site 491952005045 Zn binding site [ion binding]; other site 491952005046 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 491952005047 Part of AAA domain; Region: AAA_19; pfam13245 491952005048 Family description; Region: UvrD_C_2; pfam13538 491952005049 oxidase reductase; Provisional; Region: PTZ00273 491952005050 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 491952005051 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 491952005052 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 491952005053 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 491952005054 putative active site [active] 491952005055 putative dimer interface [polypeptide binding]; other site 491952005056 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 491952005057 dimerization interface [polypeptide binding]; other site 491952005058 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952005059 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952005060 dimer interface [polypeptide binding]; other site 491952005061 putative CheW interface [polypeptide binding]; other site 491952005062 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 491952005063 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 491952005064 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 491952005065 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 491952005066 dimerization interface [polypeptide binding]; other site 491952005067 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 491952005068 ATP binding site [chemical binding]; other site 491952005069 Mg2+ binding site [ion binding]; other site 491952005070 G-X-G motif; other site 491952005071 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952005072 HAMP domain; Region: HAMP; pfam00672 491952005073 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952005074 dimer interface [polypeptide binding]; other site 491952005075 putative CheW interface [polypeptide binding]; other site 491952005076 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 491952005077 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 491952005078 Catalytic site [active] 491952005079 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 491952005080 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 491952005081 active site 491952005082 DNA binding site [nucleotide binding] 491952005083 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 491952005084 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 491952005085 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 491952005086 non-specific DNA binding site [nucleotide binding]; other site 491952005087 salt bridge; other site 491952005088 sequence-specific DNA binding site [nucleotide binding]; other site 491952005089 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 491952005090 Catalytic site [active] 491952005091 2-isopropylmalate synthase; Validated; Region: PRK03739 491952005092 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 491952005093 active site 491952005094 catalytic residues [active] 491952005095 metal binding site [ion binding]; metal-binding site 491952005096 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 491952005097 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952005098 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 491952005099 putative DNA binding site [nucleotide binding]; other site 491952005100 putative Zn2+ binding site [ion binding]; other site 491952005101 AsnC family; Region: AsnC_trans_reg; pfam01037 491952005102 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 491952005103 dimerization interface [polypeptide binding]; other site 491952005104 active site 491952005105 helicase 45; Provisional; Region: PTZ00424 491952005106 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 491952005107 ATP binding site [chemical binding]; other site 491952005108 Mg++ binding site [ion binding]; other site 491952005109 motif III; other site 491952005110 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 491952005111 nucleotide binding region [chemical binding]; other site 491952005112 ATP-binding site [chemical binding]; other site 491952005113 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 491952005114 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 491952005115 S1 domain; Region: S1_2; pfam13509 491952005116 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 491952005117 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 491952005118 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 491952005119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 491952005120 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 491952005121 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 491952005122 DNA binding site [nucleotide binding] 491952005123 active site 491952005124 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 491952005125 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 491952005126 oligomerisation interface [polypeptide binding]; other site 491952005127 mobile loop; other site 491952005128 roof hairpin; other site 491952005129 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 491952005130 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 491952005131 ring oligomerisation interface [polypeptide binding]; other site 491952005132 ATP/Mg binding site [chemical binding]; other site 491952005133 stacking interactions; other site 491952005134 hinge regions; other site 491952005135 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 491952005136 Chromate transporter; Region: Chromate_transp; pfam02417 491952005137 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 491952005138 active site residue [active] 491952005139 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 491952005140 LysE type translocator; Region: LysE; cl00565 491952005141 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491952005142 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952005143 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 491952005144 FimV N-terminal domain; Region: FimV_core; TIGR03505 491952005145 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 491952005146 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 491952005147 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 491952005148 dimerization interface 3.5A [polypeptide binding]; other site 491952005149 active site 491952005150 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 491952005151 active site 491952005152 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 491952005153 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 491952005154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005155 catalytic residue [active] 491952005156 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 491952005157 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 491952005158 substrate binding site [chemical binding]; other site 491952005159 active site 491952005160 catalytic residues [active] 491952005161 heterodimer interface [polypeptide binding]; other site 491952005162 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 491952005163 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 491952005164 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 491952005165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 491952005166 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 491952005167 Sporulation related domain; Region: SPOR; pfam05036 491952005168 Colicin V production protein; Region: Colicin_V; cl00567 491952005169 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 491952005170 amidophosphoribosyltransferase; Provisional; Region: PRK09246 491952005171 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 491952005172 active site 491952005173 tetramer interface [polypeptide binding]; other site 491952005174 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952005175 active site 491952005176 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 491952005177 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 491952005178 homodimer interface [polypeptide binding]; other site 491952005179 substrate-cofactor binding pocket; other site 491952005180 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005181 catalytic residue [active] 491952005182 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491952005183 Protein export membrane protein; Region: SecD_SecF; cl14618 491952005184 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491952005185 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952005186 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952005187 ABC transporter ATPase component; Reviewed; Region: PRK11147 491952005188 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005189 Walker A/P-loop; other site 491952005190 ATP binding site [chemical binding]; other site 491952005191 Q-loop/lid; other site 491952005192 ABC transporter signature motif; other site 491952005193 Walker B; other site 491952005194 D-loop; other site 491952005195 H-loop/switch region; other site 491952005196 ABC transporter; Region: ABC_tran_2; pfam12848 491952005197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952005198 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 491952005199 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 491952005200 nucleotide binding site [chemical binding]; other site 491952005201 putative NEF/HSP70 interaction site [polypeptide binding]; other site 491952005202 SBD interface [polypeptide binding]; other site 491952005203 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 491952005204 nucleotide binding site [chemical binding]; other site 491952005205 putative NEF/HSP70 interaction site [polypeptide binding]; other site 491952005206 SBD interface [polypeptide binding]; other site 491952005207 DNA-K related protein; Region: DUF3731; pfam12531 491952005208 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 491952005209 active site flap/lid [active] 491952005210 nucleophilic elbow; other site 491952005211 catalytic triad [active] 491952005212 DNA ligase; Provisional; Region: PRK09125 491952005213 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 491952005214 DNA binding site [nucleotide binding] 491952005215 active site 491952005216 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 491952005217 DNA binding site [nucleotide binding] 491952005218 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952005219 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 491952005220 dimerization interface [polypeptide binding]; other site 491952005221 putative DNA binding site [nucleotide binding]; other site 491952005222 putative Zn2+ binding site [ion binding]; other site 491952005223 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 491952005224 putative catalytic site [active] 491952005225 putative phosphate binding site [ion binding]; other site 491952005226 active site 491952005227 metal binding site A [ion binding]; metal-binding site 491952005228 DNA binding site [nucleotide binding] 491952005229 putative AP binding site [nucleotide binding]; other site 491952005230 putative metal binding site B [ion binding]; other site 491952005231 glutathione reductase; Validated; Region: PRK06116 491952005232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952005233 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952005234 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491952005235 Periplasmic pectate lyase; Region: Pectate_lyase_2; pfam06917 491952005236 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 491952005237 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 491952005238 metal binding site [ion binding]; metal-binding site 491952005239 dimer interface [polypeptide binding]; other site 491952005240 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 491952005241 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 491952005242 catalytic loop [active] 491952005243 iron binding site [ion binding]; other site 491952005244 exonuclease subunit SbcD; Provisional; Region: PRK10966 491952005245 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 491952005246 active site 491952005247 metal binding site [ion binding]; metal-binding site 491952005248 DNA binding site [nucleotide binding] 491952005249 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 491952005250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005251 AAA domain; Region: AAA_23; pfam13476 491952005252 Walker A/P-loop; other site 491952005253 ATP binding site [chemical binding]; other site 491952005254 Q-loop/lid; other site 491952005255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005256 ABC transporter signature motif; other site 491952005257 Walker B; other site 491952005258 D-loop; other site 491952005259 H-loop/switch region; other site 491952005260 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 491952005261 septum formation inhibitor; Reviewed; Region: minC; PRK00339 491952005262 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 491952005263 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 491952005264 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 491952005265 Switch I; other site 491952005266 Switch II; other site 491952005267 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 491952005268 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 491952005269 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 491952005270 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491952005271 active site 491952005272 catalytic tetrad [active] 491952005273 elongation factor G; Reviewed; Region: PRK00007 491952005274 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 491952005275 G1 box; other site 491952005276 putative GEF interaction site [polypeptide binding]; other site 491952005277 GTP/Mg2+ binding site [chemical binding]; other site 491952005278 Switch I region; other site 491952005279 G2 box; other site 491952005280 G3 box; other site 491952005281 Switch II region; other site 491952005282 G4 box; other site 491952005283 G5 box; other site 491952005284 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 491952005285 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 491952005286 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 491952005287 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 491952005288 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491952005289 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 491952005290 Bacterial SH3 domain; Region: SH3_3; cl17532 491952005291 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 491952005292 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 491952005293 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491952005294 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 491952005295 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 491952005296 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 491952005297 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 491952005298 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 491952005299 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 491952005300 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952005301 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 491952005302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952005303 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 491952005304 substrate binding site [chemical binding]; other site 491952005305 dimerization interface [polypeptide binding]; other site 491952005306 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491952005307 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491952005308 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 491952005309 ArsC family; Region: ArsC; pfam03960 491952005310 catalytic residues [active] 491952005311 prolyl-tRNA synthetase; Provisional; Region: PRK09194 491952005312 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 491952005313 dimer interface [polypeptide binding]; other site 491952005314 motif 1; other site 491952005315 active site 491952005316 motif 2; other site 491952005317 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 491952005318 putative deacylase active site [active] 491952005319 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 491952005320 active site 491952005321 motif 3; other site 491952005322 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 491952005323 anticodon binding site; other site 491952005324 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 491952005325 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 491952005326 putative fumarate hydratase; Provisional; Region: PRK15392 491952005327 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 491952005328 Fumarase C-terminus; Region: Fumerase_C; pfam05683 491952005329 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 491952005330 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952005331 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 491952005332 putative dimerization interface [polypeptide binding]; other site 491952005333 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 491952005334 gating phenylalanine in ion channel; other site 491952005335 enterobactin receptor protein; Provisional; Region: PRK13483 491952005336 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 491952005337 N-terminal plug; other site 491952005338 ligand-binding site [chemical binding]; other site 491952005339 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005340 Response regulator receiver domain; Region: Response_reg; pfam00072 491952005341 active site 491952005342 phosphorylation site [posttranslational modification] 491952005343 intermolecular recognition site; other site 491952005344 dimerization interface [polypeptide binding]; other site 491952005345 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 491952005346 Benzoate membrane transport protein; Region: BenE; pfam03594 491952005347 benzoate transporter; Region: benE; TIGR00843 491952005348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952005349 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491952005350 DNA-binding site [nucleotide binding]; DNA binding site 491952005351 FCD domain; Region: FCD; pfam07729 491952005352 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952005353 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 491952005354 Mg2+ binding site [ion binding]; other site 491952005355 G-X-G motif; other site 491952005356 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 491952005357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005358 active site 491952005359 phosphorylation site [posttranslational modification] 491952005360 intermolecular recognition site; other site 491952005361 dimerization interface [polypeptide binding]; other site 491952005362 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 491952005363 TPR motif; other site 491952005364 binding surface 491952005365 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 491952005366 Domain of unknown function (DUF329); Region: DUF329; pfam03884 491952005367 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 491952005368 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 491952005369 CoA-binding site [chemical binding]; other site 491952005370 ATP-binding [chemical binding]; other site 491952005371 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 491952005372 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 491952005373 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 491952005374 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 491952005375 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 491952005376 Type II/IV secretion system protein; Region: T2SE; pfam00437 491952005377 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 491952005378 Walker A motif; other site 491952005379 ATP binding site [chemical binding]; other site 491952005380 Walker B motif; other site 491952005381 Pilin (bacterial filament); Region: Pilin; pfam00114 491952005382 phosphate acetyltransferase; Reviewed; Region: PRK05632 491952005383 DRTGG domain; Region: DRTGG; pfam07085 491952005384 phosphate acetyltransferase; Region: pta; TIGR00651 491952005385 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 491952005386 propionate/acetate kinase; Provisional; Region: PRK12379 491952005387 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 491952005388 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 491952005389 dimerization interface [polypeptide binding]; other site 491952005390 active site 491952005391 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 491952005392 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 491952005393 dimer interface [polypeptide binding]; other site 491952005394 TPP-binding site [chemical binding]; other site 491952005395 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 491952005396 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 491952005397 E3 interaction surface; other site 491952005398 lipoyl attachment site [posttranslational modification]; other site 491952005399 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 491952005400 E3 interaction surface; other site 491952005401 lipoyl attachment site [posttranslational modification]; other site 491952005402 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 491952005403 E3 interaction surface; other site 491952005404 lipoyl attachment site [posttranslational modification]; other site 491952005405 e3 binding domain; Region: E3_binding; pfam02817 491952005406 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 491952005407 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 491952005408 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491952005409 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491952005410 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 491952005411 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 491952005412 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 491952005413 homodimer interface [polypeptide binding]; other site 491952005414 oligonucleotide binding site [chemical binding]; other site 491952005415 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 491952005416 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 491952005417 RNA binding surface [nucleotide binding]; other site 491952005418 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491952005419 active site 491952005420 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 491952005421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005422 active site 491952005423 phosphorylation site [posttranslational modification] 491952005424 intermolecular recognition site; other site 491952005425 dimerization interface [polypeptide binding]; other site 491952005426 HD domain; Region: HD_5; pfam13487 491952005427 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952005428 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 491952005429 dimer interface [polypeptide binding]; other site 491952005430 phosphorylation site [posttranslational modification] 491952005431 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 491952005432 ATP binding site [chemical binding]; other site 491952005433 Mg2+ binding site [ion binding]; other site 491952005434 G-X-G motif; other site 491952005435 Heme NO binding; Region: HNOB; pfam07700 491952005436 glycine dehydrogenase; Provisional; Region: PRK05367 491952005437 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 491952005438 tetramer interface [polypeptide binding]; other site 491952005439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005440 catalytic residue [active] 491952005441 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 491952005442 tetramer interface [polypeptide binding]; other site 491952005443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005444 catalytic residue [active] 491952005445 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 491952005446 lipoyl attachment site [posttranslational modification]; other site 491952005447 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 491952005448 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 491952005449 dimer interface [polypeptide binding]; other site 491952005450 active site 491952005451 glycine-pyridoxal phosphate binding site [chemical binding]; other site 491952005452 folate binding site [chemical binding]; other site 491952005453 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 491952005454 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491952005455 Protein of unknown function, DUF462; Region: DUF462; pfam04315 491952005456 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 491952005457 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 491952005458 ligand binding site [chemical binding]; other site 491952005459 NAD binding site [chemical binding]; other site 491952005460 catalytic site [active] 491952005461 homodimer interface [polypeptide binding]; other site 491952005462 Flagellar protein YcgR; Region: YcgR_2; pfam12945 491952005463 heat shock protein HtpX; Provisional; Region: PRK05457 491952005464 aminotransferase AlaT; Validated; Region: PRK09265 491952005465 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 491952005466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005467 homodimer interface [polypeptide binding]; other site 491952005468 catalytic residue [active] 491952005469 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 491952005470 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 491952005471 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 491952005472 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952005473 catalytic residue [active] 491952005474 YceG-like family; Region: YceG; pfam02618 491952005475 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 491952005476 dimerization interface [polypeptide binding]; other site 491952005477 thymidylate kinase; Validated; Region: tmk; PRK00698 491952005478 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 491952005479 TMP-binding site; other site 491952005480 ATP-binding site [chemical binding]; other site 491952005481 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 491952005482 DNA polymerase III subunit delta'; Validated; Region: PRK08485 491952005483 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491952005484 active site 491952005485 AAA domain; Region: AAA_32; pfam13654 491952005486 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491952005487 TIGR02302 family protein; Region: aProt_lowcomp 491952005488 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 491952005489 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952005490 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952005491 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 491952005492 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491952005493 active site 491952005494 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 491952005495 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 491952005496 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952005497 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 491952005498 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 491952005499 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 491952005500 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952005501 Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR_unk; cd04787 491952005502 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 491952005503 DNA binding residues [nucleotide binding] 491952005504 dimer interface [polypeptide binding]; other site 491952005505 copper exporting ATPase; Provisional; Region: copA; PRK10671 491952005506 Heavy-metal-associated domain; Region: HMA; pfam00403 491952005507 metal-binding site [ion binding] 491952005508 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 491952005509 metal-binding site [ion binding] 491952005510 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 491952005511 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 491952005512 motif II; other site 491952005513 dUMP phosphatase; Provisional; Region: PRK09449 491952005514 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 491952005515 motif II; other site 491952005516 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 491952005517 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 491952005518 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 491952005519 Tetramer interface [polypeptide binding]; other site 491952005520 active site 491952005521 FMN-binding site [chemical binding]; other site 491952005522 HemK family putative methylases; Region: hemK_fam; TIGR00536 491952005523 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 491952005524 S-adenosylmethionine binding site [chemical binding]; other site 491952005525 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 491952005526 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 491952005527 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 491952005528 tandem repeat interface [polypeptide binding]; other site 491952005529 oligomer interface [polypeptide binding]; other site 491952005530 active site residues [active] 491952005531 (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 491952005532 dimer interaction site [polypeptide binding]; other site 491952005533 substrate-binding tunnel; other site 491952005534 active site 491952005535 catalytic site [active] 491952005536 substrate binding site [chemical binding]; other site 491952005537 succinate dehydrogenase, hydrophobic membrane anchor protein; Region: succ_dehyd_anc; TIGR02968 491952005538 Iron-sulfur protein interface; other site 491952005539 proximal heme binding site [chemical binding]; other site 491952005540 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 491952005541 Iron-sulfur protein interface; other site 491952005542 proximal quinone binding site [chemical binding]; other site 491952005543 SdhD (CybS) interface [polypeptide binding]; other site 491952005544 proximal heme binding site [chemical binding]; other site 491952005545 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 491952005546 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 491952005547 NAD binding site [chemical binding]; other site 491952005548 substrate binding site [chemical binding]; other site 491952005549 catalytic Zn binding site [ion binding]; other site 491952005550 tetramer interface [polypeptide binding]; other site 491952005551 structural Zn binding site [ion binding]; other site 491952005552 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 491952005553 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 491952005554 CPxP motif; other site 491952005555 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491952005556 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 491952005557 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 491952005558 FeS/SAM binding site; other site 491952005559 HemN C-terminal domain; Region: HemN_C; pfam06969 491952005560 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 491952005561 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 491952005562 ligand binding site [chemical binding]; other site 491952005563 flexible hinge region; other site 491952005564 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 491952005565 putative switch regulator; other site 491952005566 non-specific DNA interactions [nucleotide binding]; other site 491952005567 DNA binding site [nucleotide binding] 491952005568 sequence specific DNA binding site [nucleotide binding]; other site 491952005569 putative cAMP binding site [chemical binding]; other site 491952005570 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952005571 active site 491952005572 YfaZ precursor; Region: YfaZ; pfam07437 491952005573 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 491952005574 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 491952005575 Ligand Binding Site [chemical binding]; other site 491952005576 SprT homologues; Region: SprT; cl01182 491952005577 hypothetical protein; Provisional; Region: PRK04860 491952005578 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 491952005579 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 491952005580 ATP binding site [chemical binding]; other site 491952005581 putative Mg++ binding site [ion binding]; other site 491952005582 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 491952005583 nucleotide binding region [chemical binding]; other site 491952005584 ATP-binding site [chemical binding]; other site 491952005585 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 491952005586 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 491952005587 Response regulator receiver domain; Region: Response_reg; pfam00072 491952005588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005589 active site 491952005590 phosphorylation site [posttranslational modification] 491952005591 intermolecular recognition site; other site 491952005592 dimerization interface [polypeptide binding]; other site 491952005593 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 491952005594 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 491952005595 anti sigma factor interaction site; other site 491952005596 regulatory phosphorylation site [posttranslational modification]; other site 491952005597 BolA-like protein; Region: BolA; cl00386 491952005598 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 491952005599 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 491952005600 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 491952005601 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 491952005602 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 491952005603 putative active site [active] 491952005604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952005605 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 491952005606 NAD(P) binding site [chemical binding]; other site 491952005607 active site 491952005608 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491952005609 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491952005610 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491952005611 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 491952005612 ferrochelatase; Reviewed; Region: hemH; PRK00035 491952005613 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 491952005614 C-terminal domain interface [polypeptide binding]; other site 491952005615 active site 491952005616 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 491952005617 active site 491952005618 N-terminal domain interface [polypeptide binding]; other site 491952005619 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952005620 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 491952005621 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952005622 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005623 active site 491952005624 phosphorylation site [posttranslational modification] 491952005625 intermolecular recognition site; other site 491952005626 dimerization interface [polypeptide binding]; other site 491952005627 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 491952005628 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 491952005629 active site 491952005630 DNA polymerase II; Reviewed; Region: PRK05762 491952005631 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 491952005632 active site 491952005633 catalytic site [active] 491952005634 substrate binding site [chemical binding]; other site 491952005635 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 491952005636 active site 491952005637 metal-binding site 491952005638 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 491952005639 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491952005640 FtsX-like permease family; Region: FtsX; pfam02687 491952005641 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 491952005642 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491952005643 Walker A/P-loop; other site 491952005644 ATP binding site [chemical binding]; other site 491952005645 Q-loop/lid; other site 491952005646 ABC transporter signature motif; other site 491952005647 Walker B; other site 491952005648 D-loop; other site 491952005649 H-loop/switch region; other site 491952005650 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 491952005651 active site 491952005652 catalytic triad [active] 491952005653 oxyanion hole [active] 491952005654 switch loop; other site 491952005655 glycerate dehydrogenase; Provisional; Region: PRK06932 491952005656 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 491952005657 putative ligand binding site [chemical binding]; other site 491952005658 putative NAD binding site [chemical binding]; other site 491952005659 catalytic site [active] 491952005660 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491952005661 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 491952005662 active site 491952005663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952005664 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 491952005665 translation initiation factor Sui1; Validated; Region: PRK06824 491952005666 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 491952005667 putative rRNA binding site [nucleotide binding]; other site 491952005668 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952005669 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952005670 metal binding site [ion binding]; metal-binding site 491952005671 active site 491952005672 I-site; other site 491952005673 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 491952005674 active site 491952005675 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 491952005676 non-specific DNA binding site [nucleotide binding]; other site 491952005677 salt bridge; other site 491952005678 sequence-specific DNA binding site [nucleotide binding]; other site 491952005679 HipA N-terminal domain; Region: Couple_hipA; pfam13657 491952005680 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 491952005681 HipA-like N-terminal domain; Region: HipA_N; pfam07805 491952005682 HipA-like C-terminal domain; Region: HipA_C; pfam07804 491952005683 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 491952005684 putative FMN binding site [chemical binding]; other site 491952005685 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491952005686 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 491952005687 quinolinate synthetase; Provisional; Region: PRK09375 491952005688 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 491952005689 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 491952005690 binding surface 491952005691 TPR motif; other site 491952005692 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952005693 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952005694 ligand binding site [chemical binding]; other site 491952005695 translocation protein TolB; Provisional; Region: tolB; PRK00178 491952005696 TolB amino-terminal domain; Region: TolB_N; pfam04052 491952005697 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491952005698 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491952005699 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 491952005700 TolA protein; Region: tolA_full; TIGR02794 491952005701 TonB C terminal; Region: TonB_2; pfam13103 491952005702 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 491952005703 TolR protein; Region: tolR; TIGR02801 491952005704 TolQ protein; Region: tolQ; TIGR02796 491952005705 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 491952005706 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 491952005707 Walker A motif; other site 491952005708 ATP binding site [chemical binding]; other site 491952005709 Walker B motif; other site 491952005710 arginine finger; other site 491952005711 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 491952005712 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 491952005713 RuvA N terminal domain; Region: RuvA_N; pfam01330 491952005714 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 491952005715 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 491952005716 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 491952005717 active site 491952005718 putative DNA-binding cleft [nucleotide binding]; other site 491952005719 dimer interface [polypeptide binding]; other site 491952005720 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 491952005721 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 491952005722 dimer interface [polypeptide binding]; other site 491952005723 anticodon binding site; other site 491952005724 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 491952005725 homodimer interface [polypeptide binding]; other site 491952005726 motif 1; other site 491952005727 active site 491952005728 motif 2; other site 491952005729 GAD domain; Region: GAD; pfam02938 491952005730 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 491952005731 active site 491952005732 motif 3; other site 491952005733 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 491952005734 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491952005735 MarR family; Region: MarR_2; pfam12802 491952005736 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 491952005737 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 491952005738 FAD binding pocket [chemical binding]; other site 491952005739 FAD binding motif [chemical binding]; other site 491952005740 phosphate binding motif [ion binding]; other site 491952005741 NAD binding pocket [chemical binding]; other site 491952005742 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 491952005743 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 491952005744 CysD dimerization site [polypeptide binding]; other site 491952005745 G1 box; other site 491952005746 putative GEF interaction site [polypeptide binding]; other site 491952005747 GTP/Mg2+ binding site [chemical binding]; other site 491952005748 Switch I region; other site 491952005749 G2 box; other site 491952005750 G3 box; other site 491952005751 Switch II region; other site 491952005752 G4 box; other site 491952005753 G5 box; other site 491952005754 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 491952005755 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 491952005756 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 491952005757 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 491952005758 Active Sites [active] 491952005759 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 491952005760 superoxide dismutase; Provisional; Region: PRK10543 491952005761 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 491952005762 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 491952005763 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 491952005764 putative metal binding site [ion binding]; other site 491952005765 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 491952005766 Predicted transporter component [General function prediction only]; Region: COG2391 491952005767 Sulphur transport; Region: Sulf_transp; pfam04143 491952005768 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 491952005769 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 491952005770 dimer interface [polypeptide binding]; other site 491952005771 active site 491952005772 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491952005773 catalytic residues [active] 491952005774 substrate binding site [chemical binding]; other site 491952005775 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 491952005776 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 491952005777 MOSC domain; Region: MOSC; pfam03473 491952005778 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 491952005779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005780 Walker A/P-loop; other site 491952005781 ATP binding site [chemical binding]; other site 491952005782 Q-loop/lid; other site 491952005783 ABC transporter signature motif; other site 491952005784 Walker B; other site 491952005785 D-loop; other site 491952005786 H-loop/switch region; other site 491952005787 ABC transporter; Region: ABC_tran_2; pfam12848 491952005788 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952005789 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491952005790 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 491952005791 ligand binding site [chemical binding]; other site 491952005792 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 491952005793 homotrimer interaction site [polypeptide binding]; other site 491952005794 putative active site [active] 491952005795 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 491952005796 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 491952005797 Walker A motif; other site 491952005798 homodimer interface [polypeptide binding]; other site 491952005799 ATP binding site [chemical binding]; other site 491952005800 hydroxycobalamin binding site [chemical binding]; other site 491952005801 Walker B motif; other site 491952005802 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 491952005803 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 491952005804 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 491952005805 substrate binding pocket [chemical binding]; other site 491952005806 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 491952005807 B12 binding site [chemical binding]; other site 491952005808 cobalt ligand [ion binding]; other site 491952005809 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 491952005810 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952005811 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952005812 active site 491952005813 phosphorylation site [posttranslational modification] 491952005814 intermolecular recognition site; other site 491952005815 dimerization interface [polypeptide binding]; other site 491952005816 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 491952005817 DNA binding site [nucleotide binding] 491952005818 HAMP domain; Region: HAMP; pfam00672 491952005819 dimerization interface [polypeptide binding]; other site 491952005820 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 491952005821 dimer interface [polypeptide binding]; other site 491952005822 phosphorylation site [posttranslational modification] 491952005823 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 491952005824 ATP binding site [chemical binding]; other site 491952005825 Mg2+ binding site [ion binding]; other site 491952005826 G-X-G motif; other site 491952005827 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 491952005828 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491952005829 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 491952005830 substrate binding pocket [chemical binding]; other site 491952005831 membrane-bound complex binding site; other site 491952005832 hinge residues; other site 491952005833 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491952005834 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952005835 dimer interface [polypeptide binding]; other site 491952005836 conserved gate region; other site 491952005837 putative PBP binding loops; other site 491952005838 ABC-ATPase subunit interface; other site 491952005839 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491952005840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952005841 dimer interface [polypeptide binding]; other site 491952005842 conserved gate region; other site 491952005843 putative PBP binding loops; other site 491952005844 ABC-ATPase subunit interface; other site 491952005845 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 491952005846 Predicted deacylase [General function prediction only]; Region: COG3608 491952005847 active site 491952005848 Zn binding site [ion binding]; other site 491952005849 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952005850 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952005851 Walker A/P-loop; other site 491952005852 ATP binding site [chemical binding]; other site 491952005853 Q-loop/lid; other site 491952005854 ABC transporter signature motif; other site 491952005855 Walker B; other site 491952005856 D-loop; other site 491952005857 H-loop/switch region; other site 491952005858 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 491952005859 sequence-specific DNA binding site [nucleotide binding]; other site 491952005860 salt bridge; other site 491952005861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952005862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952005863 metal binding site [ion binding]; metal-binding site 491952005864 active site 491952005865 I-site; other site 491952005866 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491952005867 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 491952005868 ligand binding site [chemical binding]; other site 491952005869 flexible hinge region; other site 491952005870 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491952005871 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 491952005872 ligand binding site [chemical binding]; other site 491952005873 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 491952005874 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 491952005875 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 491952005876 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 491952005877 ABC-ATPase subunit interface; other site 491952005878 dimer interface [polypeptide binding]; other site 491952005879 putative PBP binding regions; other site 491952005880 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 491952005881 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 491952005882 metal binding site [ion binding]; metal-binding site 491952005883 hypothetical protein; Provisional; Region: PRK06847 491952005884 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952005885 Cupin; Region: Cupin_6; pfam12852 491952005886 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952005887 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952005888 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952005889 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952005890 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952005891 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 491952005892 DNA-binding site [nucleotide binding]; DNA binding site 491952005893 FCD domain; Region: FCD; pfam07729 491952005894 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952005895 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952005896 Walker A/P-loop; other site 491952005897 ATP binding site [chemical binding]; other site 491952005898 Q-loop/lid; other site 491952005899 ABC transporter signature motif; other site 491952005900 Walker B; other site 491952005901 D-loop; other site 491952005902 H-loop/switch region; other site 491952005903 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491952005904 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952005905 dimer interface [polypeptide binding]; other site 491952005906 conserved gate region; other site 491952005907 putative PBP binding loops; other site 491952005908 ABC-ATPase subunit interface; other site 491952005909 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952005910 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952005911 dimer interface [polypeptide binding]; other site 491952005912 conserved gate region; other site 491952005913 putative PBP binding loops; other site 491952005914 ABC-ATPase subunit interface; other site 491952005915 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491952005916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 491952005917 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 491952005918 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 491952005919 haemagglutination activity domain; Region: Haemagg_act; pfam05860 491952005920 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952005921 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952005922 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952005923 haemagglutination activity domain; Region: Haemagg_act; pfam05860 491952005924 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 491952005925 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 491952005926 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952005927 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952005928 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 491952005929 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 491952005930 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 491952005931 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 491952005932 aminopeptidase N; Provisional; Region: pepN; PRK14015 491952005933 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 491952005934 active site 491952005935 Zn binding site [ion binding]; other site 491952005936 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 491952005937 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 491952005938 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 491952005939 Rhomboid family; Region: Rhomboid; pfam01694 491952005940 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 491952005941 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 491952005942 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 491952005943 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 491952005944 phosphoglucomutase; Validated; Region: PRK07564 491952005945 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 491952005946 active site 491952005947 substrate binding site [chemical binding]; other site 491952005948 metal binding site [ion binding]; metal-binding site 491952005949 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 491952005950 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 491952005951 dimer interface [polypeptide binding]; other site 491952005952 active site 491952005953 CoA binding pocket [chemical binding]; other site 491952005954 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 491952005955 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 491952005956 active site 491952005957 nucleophile elbow; other site 491952005958 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 491952005959 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 491952005960 FAD binding domain; Region: FAD_binding_4; pfam01565 491952005961 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 491952005962 Low molecular weight phosphatase family; Region: LMWPc; cd00115 491952005963 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 491952005964 active site 491952005965 Uncharacterized conserved protein [Function unknown]; Region: COG2835 491952005966 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 491952005967 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 491952005968 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 491952005969 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 491952005970 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 491952005971 Competence protein; Region: Competence; pfam03772 491952005972 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 491952005973 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491952005974 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 491952005975 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 491952005976 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 491952005977 Walker A/P-loop; other site 491952005978 ATP binding site [chemical binding]; other site 491952005979 Q-loop/lid; other site 491952005980 ABC transporter signature motif; other site 491952005981 Walker B; other site 491952005982 D-loop; other site 491952005983 H-loop/switch region; other site 491952005984 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 491952005985 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 491952005986 FtsX-like permease family; Region: FtsX; pfam02687 491952005987 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 491952005988 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 491952005989 ATP binding site [chemical binding]; other site 491952005990 active site 491952005991 substrate binding site [chemical binding]; other site 491952005992 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 491952005993 dihydrodipicolinate synthase; Region: dapA; TIGR00674 491952005994 dimer interface [polypeptide binding]; other site 491952005995 active site 491952005996 catalytic residue [active] 491952005997 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 491952005998 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 491952005999 catalytic triad [active] 491952006000 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 491952006001 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491952006002 active site 491952006003 catalytic tetrad [active] 491952006004 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 491952006005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 491952006006 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 491952006007 inner membrane transport permease; Provisional; Region: PRK15066 491952006008 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491952006009 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491952006010 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952006011 Walker A/P-loop; other site 491952006012 ATP binding site [chemical binding]; other site 491952006013 Q-loop/lid; other site 491952006014 ABC transporter signature motif; other site 491952006015 Walker B; other site 491952006016 D-loop; other site 491952006017 H-loop/switch region; other site 491952006018 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 491952006019 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 491952006020 dimer interface [polypeptide binding]; other site 491952006021 active site 491952006022 acyl carrier protein; Provisional; Region: acpP; PRK00982 491952006023 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 491952006024 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 491952006025 NAD(P) binding site [chemical binding]; other site 491952006026 homotetramer interface [polypeptide binding]; other site 491952006027 homodimer interface [polypeptide binding]; other site 491952006028 active site 491952006029 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 491952006030 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 491952006031 Fatty acid synthesis protein; Region: FA_synthesis; cl17261 491952006032 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 491952006033 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 491952006034 Maf-like protein; Region: Maf; pfam02545 491952006035 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 491952006036 active site 491952006037 dimer interface [polypeptide binding]; other site 491952006038 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952006039 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 491952006040 catalytic site [active] 491952006041 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 491952006042 catalytic core [active] 491952006043 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 491952006044 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 491952006045 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 491952006046 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 491952006047 Uncharacterized conserved protein [Function unknown]; Region: COG0397 491952006048 hypothetical protein; Validated; Region: PRK00029 491952006049 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 491952006050 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 491952006051 ATP binding site [chemical binding]; other site 491952006052 Mg++ binding site [ion binding]; other site 491952006053 motif III; other site 491952006054 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 491952006055 nucleotide binding region [chemical binding]; other site 491952006056 ATP-binding site [chemical binding]; other site 491952006057 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 491952006058 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 491952006059 DEAD_2; Region: DEAD_2; pfam06733 491952006060 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 491952006061 LexA repressor; Validated; Region: PRK00215 491952006062 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 491952006063 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 491952006064 Catalytic site [active] 491952006065 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 491952006066 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 491952006067 active site 491952006068 interdomain interaction site; other site 491952006069 putative metal-binding site [ion binding]; other site 491952006070 nucleotide binding site [chemical binding]; other site 491952006071 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 491952006072 domain I; other site 491952006073 DNA binding groove [nucleotide binding] 491952006074 phosphate binding site [ion binding]; other site 491952006075 domain II; other site 491952006076 domain III; other site 491952006077 nucleotide binding site [chemical binding]; other site 491952006078 catalytic site [active] 491952006079 domain IV; other site 491952006080 Domain of unknown function (DUF2935); Region: DUF2935; pfam11155 491952006081 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491952006082 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 491952006083 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 491952006084 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 491952006085 Tim44-like domain; Region: Tim44; cl09208 491952006086 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 491952006087 Ligand Binding Site [chemical binding]; other site 491952006088 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 491952006089 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491952006090 active site 491952006091 HIGH motif; other site 491952006092 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 491952006093 KMSKS motif; other site 491952006094 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 491952006095 tRNA binding surface [nucleotide binding]; other site 491952006096 anticodon binding site; other site 491952006097 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 491952006098 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491952006099 active site 491952006100 HIGH motif; other site 491952006101 nucleotide binding site [chemical binding]; other site 491952006102 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 491952006103 KMSKS motif; other site 491952006104 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 491952006105 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 491952006106 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 491952006107 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491952006108 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 491952006109 putative DNA binding site [nucleotide binding]; other site 491952006110 putative Zn2+ binding site [ion binding]; other site 491952006111 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952006112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952006113 Coenzyme A binding pocket [chemical binding]; other site 491952006114 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 491952006115 Ligand Binding Site [chemical binding]; other site 491952006116 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 491952006117 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 491952006118 FeS/SAM binding site; other site 491952006119 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 491952006120 substrate binding site [chemical binding]; other site 491952006121 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 491952006122 putative active site [active] 491952006123 putative metal binding site [ion binding]; other site 491952006124 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 491952006125 active site 491952006126 dinuclear metal binding site [ion binding]; other site 491952006127 dimerization interface [polypeptide binding]; other site 491952006128 Uncharacterized conserved protein [Function unknown]; Region: COG1262 491952006129 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 491952006130 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 491952006131 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 491952006132 substrate binding site [chemical binding]; other site 491952006133 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 491952006134 substrate binding site [chemical binding]; other site 491952006135 ligand binding site [chemical binding]; other site 491952006136 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 491952006137 30S subunit binding site; other site 491952006138 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491952006139 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 491952006140 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 491952006141 tartrate dehydrogenase; Region: TTC; TIGR02089 491952006142 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 491952006143 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 491952006144 substrate binding site [chemical binding]; other site 491952006145 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 491952006146 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 491952006147 substrate binding site [chemical binding]; other site 491952006148 ligand binding site [chemical binding]; other site 491952006149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952006150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952006151 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 491952006152 dimerization interface [polypeptide binding]; other site 491952006153 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 491952006154 putative substrate translocation pore; other site 491952006155 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952006156 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 491952006157 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 491952006158 active site 491952006159 catalytic site [active] 491952006160 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 491952006161 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491952006162 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 491952006163 CPxP motif; other site 491952006164 Peptidase family M48; Region: Peptidase_M48; cl12018 491952006165 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 491952006166 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491952006167 TPR motif; other site 491952006168 binding surface 491952006169 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 491952006170 Int/Topo IB signature motif; other site 491952006171 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 491952006172 MoaE homodimer interface [polypeptide binding]; other site 491952006173 MoaD interaction [polypeptide binding]; other site 491952006174 active site residues [active] 491952006175 Ubiquitin-like proteins; Region: UBQ; cl00155 491952006176 charged pocket; other site 491952006177 hydrophobic patch; other site 491952006178 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 491952006179 trimer interface [polypeptide binding]; other site 491952006180 dimer interface [polypeptide binding]; other site 491952006181 putative active site [active] 491952006182 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 491952006183 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491952006184 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006185 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006186 metal binding site [ion binding]; metal-binding site 491952006187 active site 491952006188 I-site; other site 491952006189 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 491952006190 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 491952006191 HSP70 interaction site [polypeptide binding]; other site 491952006192 Bacterial SH3 domain; Region: SH3_3; cl17532 491952006193 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 491952006194 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 491952006195 Cache domain; Region: Cache_1; pfam02743 491952006196 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 491952006197 dimerization interface [polypeptide binding]; other site 491952006198 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952006199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952006200 dimer interface [polypeptide binding]; other site 491952006201 putative CheW interface [polypeptide binding]; other site 491952006202 elongation factor P; Provisional; Region: PRK04542 491952006203 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 491952006204 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 491952006205 RNA binding site [nucleotide binding]; other site 491952006206 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 491952006207 RNA binding site [nucleotide binding]; other site 491952006208 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 491952006209 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 491952006210 putative active site [active] 491952006211 Zn binding site [ion binding]; other site 491952006212 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 491952006213 MarC family integral membrane protein; Region: MarC; cl00919 491952006214 Response regulator receiver domain; Region: Response_reg; pfam00072 491952006215 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006216 active site 491952006217 phosphorylation site [posttranslational modification] 491952006218 intermolecular recognition site; other site 491952006219 dimerization interface [polypeptide binding]; other site 491952006220 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006222 metal binding site [ion binding]; metal-binding site 491952006223 active site 491952006224 I-site; other site 491952006225 PAS fold; Region: PAS_4; pfam08448 491952006226 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 491952006227 putative active site [active] 491952006228 heme pocket [chemical binding]; other site 491952006229 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 491952006230 GAF domain; Region: GAF; pfam01590 491952006231 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 491952006232 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 491952006233 putative active site [active] 491952006234 heme pocket [chemical binding]; other site 491952006235 nitrogen fixation negative regulator NifL; Region: nifL_nitrog; TIGR02938 491952006236 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 491952006237 putative active site [active] 491952006238 heme pocket [chemical binding]; other site 491952006239 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 491952006240 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 491952006241 dimer interface [polypeptide binding]; other site 491952006242 phosphorylation site [posttranslational modification] 491952006243 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 491952006244 ATP binding site [chemical binding]; other site 491952006245 Mg2+ binding site [ion binding]; other site 491952006246 G-X-G motif; other site 491952006247 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952006248 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006249 active site 491952006250 phosphorylation site [posttranslational modification] 491952006251 intermolecular recognition site; other site 491952006252 dimerization interface [polypeptide binding]; other site 491952006253 Response regulator receiver domain; Region: Response_reg; pfam00072 491952006254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006255 active site 491952006256 phosphorylation site [posttranslational modification] 491952006257 intermolecular recognition site; other site 491952006258 dimerization interface [polypeptide binding]; other site 491952006259 Hpt domain; Region: Hpt; pfam01627 491952006260 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 491952006261 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952006262 Walker A/P-loop; other site 491952006263 ATP binding site [chemical binding]; other site 491952006264 Q-loop/lid; other site 491952006265 ABC transporter signature motif; other site 491952006266 Walker B; other site 491952006267 D-loop; other site 491952006268 H-loop/switch region; other site 491952006269 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491952006270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952006271 Walker A/P-loop; other site 491952006272 ATP binding site [chemical binding]; other site 491952006273 Q-loop/lid; other site 491952006274 ABC transporter signature motif; other site 491952006275 Walker B; other site 491952006276 D-loop; other site 491952006277 H-loop/switch region; other site 491952006278 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491952006279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952006280 dimer interface [polypeptide binding]; other site 491952006281 conserved gate region; other site 491952006282 putative PBP binding loops; other site 491952006283 ABC-ATPase subunit interface; other site 491952006284 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952006285 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952006286 dimer interface [polypeptide binding]; other site 491952006287 conserved gate region; other site 491952006288 putative PBP binding loops; other site 491952006289 ABC-ATPase subunit interface; other site 491952006290 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491952006291 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 491952006292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952006293 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952006294 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 491952006295 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 491952006296 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 491952006297 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 491952006298 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 491952006299 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 491952006300 active site 491952006301 intersubunit interface [polypeptide binding]; other site 491952006302 catalytic residue [active] 491952006303 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 491952006304 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 491952006305 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 491952006306 classical (c) SDRs; Region: SDR_c; cd05233 491952006307 NAD(P) binding site [chemical binding]; other site 491952006308 active site 491952006309 dihydroxy-acid dehydratase; Validated; Region: PRK06131 491952006310 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 491952006311 Melibiase; Region: Melibiase; pfam02065 491952006312 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952006313 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952006314 dimer interface [polypeptide binding]; other site 491952006315 conserved gate region; other site 491952006316 putative PBP binding loops; other site 491952006317 ABC-ATPase subunit interface; other site 491952006318 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 491952006319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952006320 dimer interface [polypeptide binding]; other site 491952006321 conserved gate region; other site 491952006322 putative PBP binding loops; other site 491952006323 ABC-ATPase subunit interface; other site 491952006324 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491952006325 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491952006326 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952006327 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952006328 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952006329 Walker A/P-loop; other site 491952006330 ATP binding site [chemical binding]; other site 491952006331 Q-loop/lid; other site 491952006332 ABC transporter signature motif; other site 491952006333 Walker B; other site 491952006334 D-loop; other site 491952006335 H-loop/switch region; other site 491952006336 Dienelactone hydrolase family; Region: DLH; pfam01738 491952006337 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491952006338 heat shock protein 90; Provisional; Region: PRK05218 491952006339 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 491952006340 ATP binding site [chemical binding]; other site 491952006341 Mg2+ binding site [ion binding]; other site 491952006342 G-X-G motif; other site 491952006343 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 491952006344 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 491952006345 S-adenosylmethionine binding site [chemical binding]; other site 491952006346 Protein of unknown function, DUF599; Region: DUF599; pfam04654 491952006347 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 491952006348 active site 491952006349 substrate binding pocket [chemical binding]; other site 491952006350 dimer interface [polypeptide binding]; other site 491952006351 helicase 45; Provisional; Region: PTZ00424 491952006352 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 491952006353 ATP binding site [chemical binding]; other site 491952006354 Mg++ binding site [ion binding]; other site 491952006355 motif III; other site 491952006356 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 491952006357 nucleotide binding region [chemical binding]; other site 491952006358 ATP-binding site [chemical binding]; other site 491952006359 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 491952006360 putative RNA binding site [nucleotide binding]; other site 491952006361 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 491952006362 Domain of unknown function DUF20; Region: UPF0118; pfam01594 491952006363 exonuclease I; Provisional; Region: sbcB; PRK11779 491952006364 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 491952006365 active site 491952006366 catalytic site [active] 491952006367 substrate binding site [chemical binding]; other site 491952006368 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 491952006369 hypothetical protein; Provisional; Region: PRK01842 491952006370 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 491952006371 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006372 active site 491952006373 phosphorylation site [posttranslational modification] 491952006374 intermolecular recognition site; other site 491952006375 dimerization interface [polypeptide binding]; other site 491952006376 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952006377 Zn2+ binding site [ion binding]; other site 491952006378 Mg2+ binding site [ion binding]; other site 491952006379 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 491952006380 dimer interface [polypeptide binding]; other site 491952006381 phosphorylation site [posttranslational modification] 491952006382 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 491952006383 ATP binding site [chemical binding]; other site 491952006384 Mg2+ binding site [ion binding]; other site 491952006385 G-X-G motif; other site 491952006386 Response regulator receiver domain; Region: Response_reg; pfam00072 491952006387 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006388 active site 491952006389 phosphorylation site [posttranslational modification] 491952006390 intermolecular recognition site; other site 491952006391 dimerization interface [polypeptide binding]; other site 491952006392 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 491952006393 metal coordination site [ion binding]; other site 491952006394 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 491952006395 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 491952006396 active site 491952006397 catalytic tetrad [active] 491952006398 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 491952006399 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 491952006400 hinge; other site 491952006401 active site 491952006402 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 491952006403 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 491952006404 FeS/SAM binding site; other site 491952006405 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 491952006406 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 491952006407 ThiS interaction site; other site 491952006408 putative active site [active] 491952006409 tetramer interface [polypeptide binding]; other site 491952006410 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 491952006411 thiS-thiF/thiG interaction site; other site 491952006412 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 491952006413 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 491952006414 dimer interface [polypeptide binding]; other site 491952006415 substrate binding site [chemical binding]; other site 491952006416 ATP binding site [chemical binding]; other site 491952006417 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 491952006418 thiamine phosphate binding site [chemical binding]; other site 491952006419 active site 491952006420 pyrophosphate binding site [ion binding]; other site 491952006421 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 491952006422 ThiC-associated domain; Region: ThiC-associated; pfam13667 491952006423 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 491952006424 Predicted methyltransferases [General function prediction only]; Region: COG0313 491952006425 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 491952006426 putative SAM binding site [chemical binding]; other site 491952006427 putative homodimer interface [polypeptide binding]; other site 491952006428 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 491952006429 putative ligand binding site [chemical binding]; other site 491952006430 hypothetical protein; Reviewed; Region: PRK12497 491952006431 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 491952006432 dimer interface [polypeptide binding]; other site 491952006433 active site 491952006434 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 491952006435 stringent starvation protein A; Provisional; Region: sspA; PRK09481 491952006436 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 491952006437 C-terminal domain interface [polypeptide binding]; other site 491952006438 putative GSH binding site (G-site) [chemical binding]; other site 491952006439 dimer interface [polypeptide binding]; other site 491952006440 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 491952006441 dimer interface [polypeptide binding]; other site 491952006442 N-terminal domain interface [polypeptide binding]; other site 491952006443 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 491952006444 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 491952006445 23S rRNA interface [nucleotide binding]; other site 491952006446 L3 interface [polypeptide binding]; other site 491952006447 Predicted ATPase [General function prediction only]; Region: COG1485 491952006448 Uncharacterized conserved protein [Function unknown]; Region: COG0327 491952006449 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 491952006450 serine endoprotease; Provisional; Region: PRK10898 491952006451 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491952006452 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 491952006453 protein binding site [polypeptide binding]; other site 491952006454 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 491952006455 hydrophobic ligand binding site; other site 491952006456 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 491952006457 histidinol dehydrogenase; Region: hisD; TIGR00069 491952006458 NAD binding site [chemical binding]; other site 491952006459 dimerization interface [polypeptide binding]; other site 491952006460 product binding site; other site 491952006461 substrate binding site [chemical binding]; other site 491952006462 zinc binding site [ion binding]; other site 491952006463 catalytic residues [active] 491952006464 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 491952006465 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 491952006466 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 491952006467 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 491952006468 hinge; other site 491952006469 active site 491952006470 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 491952006471 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 491952006472 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 491952006473 mce related protein; Region: MCE; pfam02470 491952006474 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 491952006475 Permease; Region: Permease; cl00510 491952006476 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 491952006477 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 491952006478 Walker A/P-loop; other site 491952006479 ATP binding site [chemical binding]; other site 491952006480 Q-loop/lid; other site 491952006481 ABC transporter signature motif; other site 491952006482 Walker B; other site 491952006483 D-loop; other site 491952006484 H-loop/switch region; other site 491952006485 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 491952006486 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 491952006487 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 491952006488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 491952006489 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 491952006490 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 491952006491 OstA-like protein; Region: OstA; pfam03968 491952006492 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 491952006493 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 491952006494 Walker A/P-loop; other site 491952006495 ATP binding site [chemical binding]; other site 491952006496 Q-loop/lid; other site 491952006497 ABC transporter signature motif; other site 491952006498 Walker B; other site 491952006499 D-loop; other site 491952006500 H-loop/switch region; other site 491952006501 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 491952006502 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 491952006503 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 491952006504 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 491952006505 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 491952006506 active site 491952006507 phosphorylation site [posttranslational modification] 491952006508 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 491952006509 dimerization domain swap beta strand [polypeptide binding]; other site 491952006510 regulatory protein interface [polypeptide binding]; other site 491952006511 active site 491952006512 regulatory phosphorylation site [posttranslational modification]; other site 491952006513 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 491952006514 MgtE intracellular N domain; Region: MgtE_N; smart00924 491952006515 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 491952006516 Divalent cation transporter; Region: MgtE; pfam01769 491952006517 Protein of unknown function (DUF615); Region: DUF615; pfam04751 491952006518 nitrilase; Region: PLN02798 491952006519 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 491952006520 putative active site [active] 491952006521 catalytic triad [active] 491952006522 dimer interface [polypeptide binding]; other site 491952006523 TIGR02099 family protein; Region: TIGR02099 491952006524 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 491952006525 ribonuclease G; Provisional; Region: PRK11712 491952006526 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 491952006527 homodimer interface [polypeptide binding]; other site 491952006528 oligonucleotide binding site [chemical binding]; other site 491952006529 Maf-like protein; Region: Maf; pfam02545 491952006530 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 491952006531 active site 491952006532 dimer interface [polypeptide binding]; other site 491952006533 rod shape-determining protein MreD; Region: MreD; cl01087 491952006534 rod shape-determining protein MreC; Provisional; Region: PRK13922 491952006535 rod shape-determining protein MreC; Region: MreC; pfam04085 491952006536 rod shape-determining protein MreB; Provisional; Region: PRK13927 491952006537 MreB and similar proteins; Region: MreB_like; cd10225 491952006538 nucleotide binding site [chemical binding]; other site 491952006539 Mg binding site [ion binding]; other site 491952006540 putative protofilament interaction site [polypeptide binding]; other site 491952006541 RodZ interaction site [polypeptide binding]; other site 491952006542 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 491952006543 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 491952006544 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 491952006545 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 491952006546 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 491952006547 GatB domain; Region: GatB_Yqey; smart00845 491952006548 Response regulator receiver domain; Region: Response_reg; pfam00072 491952006549 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006550 active site 491952006551 phosphorylation site [posttranslational modification] 491952006552 intermolecular recognition site; other site 491952006553 dimerization interface [polypeptide binding]; other site 491952006554 Response regulator receiver domain; Region: Response_reg; pfam00072 491952006555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006556 active site 491952006557 phosphorylation site [posttranslational modification] 491952006558 intermolecular recognition site; other site 491952006559 dimerization interface [polypeptide binding]; other site 491952006560 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006561 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006562 metal binding site [ion binding]; metal-binding site 491952006563 active site 491952006564 I-site; other site 491952006565 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 491952006566 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 491952006567 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 491952006568 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 491952006569 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 491952006570 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 491952006571 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 491952006572 active site 491952006573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006575 metal binding site [ion binding]; metal-binding site 491952006576 active site 491952006577 I-site; other site 491952006578 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491952006579 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952006580 Walker A/P-loop; other site 491952006581 ATP binding site [chemical binding]; other site 491952006582 Q-loop/lid; other site 491952006583 ABC transporter signature motif; other site 491952006584 Walker B; other site 491952006585 D-loop; other site 491952006586 H-loop/switch region; other site 491952006587 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952006588 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952006589 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 491952006590 TM-ABC transporter signature motif; other site 491952006591 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952006592 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 491952006593 TM-ABC transporter signature motif; other site 491952006594 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491952006595 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 491952006596 putative ligand binding site [chemical binding]; other site 491952006597 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 491952006598 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 491952006599 active site 491952006600 purine riboside binding site [chemical binding]; other site 491952006601 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 491952006602 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 491952006603 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 491952006604 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 491952006605 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 491952006606 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 491952006607 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 491952006608 S-adenosylmethionine binding site [chemical binding]; other site 491952006609 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952006610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952006611 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 491952006612 putative dimerization interface [polypeptide binding]; other site 491952006613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 491952006614 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 491952006615 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 491952006616 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 491952006617 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 491952006618 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 491952006619 putative active site pocket [active] 491952006620 dimerization interface [polypeptide binding]; other site 491952006621 putative catalytic residue [active] 491952006622 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 491952006623 L-lactate permease; Region: Lactate_perm; cl00701 491952006624 PAS domain S-box; Region: sensory_box; TIGR00229 491952006625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006627 metal binding site [ion binding]; metal-binding site 491952006628 active site 491952006629 I-site; other site 491952006630 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 491952006631 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952006632 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491952006633 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 491952006634 xylose isomerase; Provisional; Region: PRK05474 491952006635 xylose isomerase; Region: xylose_isom_A; TIGR02630 491952006636 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 491952006637 putative dimerization interface [polypeptide binding]; other site 491952006638 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952006639 putative ligand binding site [chemical binding]; other site 491952006640 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952006641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952006642 xylulokinase; Provisional; Region: PRK15027 491952006643 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 491952006644 N- and C-terminal domain interface [polypeptide binding]; other site 491952006645 active site 491952006646 MgATP binding site [chemical binding]; other site 491952006647 catalytic site [active] 491952006648 metal binding site [ion binding]; metal-binding site 491952006649 xylulose binding site [chemical binding]; other site 491952006650 homodimer interface [polypeptide binding]; other site 491952006651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952006652 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 491952006653 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 491952006654 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952006655 TM-ABC transporter signature motif; other site 491952006656 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 491952006657 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952006658 Walker A/P-loop; other site 491952006659 ATP binding site [chemical binding]; other site 491952006660 Q-loop/lid; other site 491952006661 ABC transporter signature motif; other site 491952006662 Walker B; other site 491952006663 D-loop; other site 491952006664 H-loop/switch region; other site 491952006665 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952006666 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 491952006667 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 491952006668 putative ligand binding site [chemical binding]; other site 491952006669 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006671 metal binding site [ion binding]; metal-binding site 491952006672 active site 491952006673 I-site; other site 491952006674 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491952006675 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952006676 dimer interface [polypeptide binding]; other site 491952006677 conserved gate region; other site 491952006678 putative PBP binding loops; other site 491952006679 ABC-ATPase subunit interface; other site 491952006680 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 491952006681 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491952006682 Walker A/P-loop; other site 491952006683 ATP binding site [chemical binding]; other site 491952006684 Q-loop/lid; other site 491952006685 ABC transporter signature motif; other site 491952006686 Walker B; other site 491952006687 D-loop; other site 491952006688 H-loop/switch region; other site 491952006689 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 491952006690 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 491952006691 substrate binding pocket [chemical binding]; other site 491952006692 membrane-bound complex binding site; other site 491952006693 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 491952006694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952006695 DNA-binding site [nucleotide binding]; DNA binding site 491952006696 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 491952006697 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952006698 homodimer interface [polypeptide binding]; other site 491952006699 catalytic residue [active] 491952006700 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952006701 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 491952006702 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 491952006703 putative NAD(P) binding site [chemical binding]; other site 491952006704 homodimer interface [polypeptide binding]; other site 491952006705 homotetramer interface [polypeptide binding]; other site 491952006706 active site 491952006707 aminotransferase; Validated; Region: PRK07678 491952006708 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 491952006709 inhibitor-cofactor binding pocket; inhibition site 491952006710 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952006711 catalytic residue [active] 491952006712 methionine sulfoxide reductase A; Provisional; Region: PRK00058 491952006713 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006714 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006715 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006716 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006717 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006718 VCBS repeat; Region: VCBS_repeat; TIGR01965 491952006719 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 491952006720 PA14 domain; Region: PA14; cl08459 491952006721 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 491952006722 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491952006723 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491952006724 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 491952006725 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 491952006726 Ligand Binding Site [chemical binding]; other site 491952006727 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 491952006728 Ligand Binding Site [chemical binding]; other site 491952006729 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 491952006730 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 491952006731 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952006732 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952006733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952006734 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952006735 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491952006736 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 491952006737 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952006738 HAMP domain; Region: HAMP; pfam00672 491952006739 dimerization interface [polypeptide binding]; other site 491952006740 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 491952006741 dimer interface [polypeptide binding]; other site 491952006742 phosphorylation site [posttranslational modification] 491952006743 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 491952006744 ATP binding site [chemical binding]; other site 491952006745 Mg2+ binding site [ion binding]; other site 491952006746 G-X-G motif; other site 491952006747 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952006748 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952006749 active site 491952006750 phosphorylation site [posttranslational modification] 491952006751 intermolecular recognition site; other site 491952006752 dimerization interface [polypeptide binding]; other site 491952006753 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 491952006754 DNA binding site [nucleotide binding] 491952006755 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 491952006756 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 491952006757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491952006758 EamA-like transporter family; Region: EamA; pfam00892 491952006759 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 491952006760 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952006761 catalytic residue [active] 491952006762 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 491952006763 LysE type translocator; Region: LysE; cl00565 491952006764 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 491952006765 EamA-like transporter family; Region: EamA; pfam00892 491952006766 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 491952006767 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 491952006768 active site 491952006769 motif I; other site 491952006770 motif II; other site 491952006771 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 491952006772 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 491952006773 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 491952006774 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 491952006775 active site 491952006776 homodimer interface [polypeptide binding]; other site 491952006777 catalytic site [active] 491952006778 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 491952006779 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491952006780 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952006781 Walker A/P-loop; other site 491952006782 ATP binding site [chemical binding]; other site 491952006783 Q-loop/lid; other site 491952006784 ABC transporter signature motif; other site 491952006785 Walker B; other site 491952006786 D-loop; other site 491952006787 H-loop/switch region; other site 491952006788 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 491952006789 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 491952006790 putative substrate translocation pore; other site 491952006791 HopJ type III effector protein; Region: HopJ; pfam08888 491952006792 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 491952006793 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 491952006794 active site 491952006795 motif I; other site 491952006796 motif II; other site 491952006797 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491952006798 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 491952006799 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 491952006800 putative aromatic amino acid binding site; other site 491952006801 PAS domain; Region: PAS; smart00091 491952006802 putative active site [active] 491952006803 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 491952006804 MarR family; Region: MarR_2; pfam12802 491952006805 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 491952006806 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491952006807 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 491952006808 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 491952006809 dimerization interface [polypeptide binding]; other site 491952006810 putative active cleft [active] 491952006811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952006812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952006813 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 491952006814 substrate binding pocket [chemical binding]; other site 491952006815 dimerization interface [polypeptide binding]; other site 491952006816 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 491952006817 active site clefts [active] 491952006818 zinc binding site [ion binding]; other site 491952006819 dimer interface [polypeptide binding]; other site 491952006820 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 491952006821 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 491952006822 S-adenosylmethionine binding site [chemical binding]; other site 491952006823 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952006824 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952006825 metal binding site [ion binding]; metal-binding site 491952006826 active site 491952006827 I-site; other site 491952006828 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 491952006829 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 491952006830 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 491952006831 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 491952006832 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 491952006833 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 491952006834 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491952006835 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491952006836 putative active site [active] 491952006837 putative substrate binding site [chemical binding]; other site 491952006838 putative cosubstrate binding site; other site 491952006839 catalytic site [active] 491952006840 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 491952006841 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 491952006842 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 491952006843 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 491952006844 S-adenosylmethionine binding site [chemical binding]; other site 491952006845 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 491952006846 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 491952006847 quinone interaction residues [chemical binding]; other site 491952006848 active site 491952006849 catalytic residues [active] 491952006850 FMN binding site [chemical binding]; other site 491952006851 substrate binding site [chemical binding]; other site 491952006852 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 491952006853 MoxR-like ATPases [General function prediction only]; Region: COG0714 491952006854 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 491952006855 Walker A motif; other site 491952006856 ATP binding site [chemical binding]; other site 491952006857 Walker B motif; other site 491952006858 arginine finger; other site 491952006859 Protein of unknown function DUF58; Region: DUF58; pfam01882 491952006860 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 491952006861 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 491952006862 metal ion-dependent adhesion site (MIDAS); other site 491952006863 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 491952006864 metal ion-dependent adhesion site (MIDAS); other site 491952006865 Tetratricopeptide repeat; Region: TPR_16; pfam13432 491952006866 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 491952006867 TPR motif; other site 491952006868 Oxygen tolerance; Region: BatD; pfam13584 491952006869 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 491952006870 periplasmic folding chaperone; Provisional; Region: PRK10788 491952006871 SurA N-terminal domain; Region: SurA_N_3; cl07813 491952006872 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 491952006873 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 491952006874 IHF dimer interface [polypeptide binding]; other site 491952006875 IHF - DNA interface [nucleotide binding]; other site 491952006876 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 491952006877 Found in ATP-dependent protease La (LON); Region: LON; smart00464 491952006878 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 491952006879 Walker A motif; other site 491952006880 ATP binding site [chemical binding]; other site 491952006881 Walker B motif; other site 491952006882 arginine finger; other site 491952006883 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 491952006884 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 491952006885 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 491952006886 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 491952006887 Walker A motif; other site 491952006888 ATP binding site [chemical binding]; other site 491952006889 Walker B motif; other site 491952006890 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491952006891 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 491952006892 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 491952006893 oligomer interface [polypeptide binding]; other site 491952006894 active site residues [active] 491952006895 trigger factor; Provisional; Region: tig; PRK01490 491952006896 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952006897 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 491952006898 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 491952006899 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952006900 active site 491952006901 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 491952006902 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952006903 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 491952006904 Protein of unknown function (DUF539); Region: DUF539; cl01129 491952006905 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 491952006906 ApbE family; Region: ApbE; pfam02424 491952006907 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 491952006908 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 491952006909 catalytic loop [active] 491952006910 iron binding site [ion binding]; other site 491952006911 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 491952006912 FAD binding pocket [chemical binding]; other site 491952006913 FAD binding motif [chemical binding]; other site 491952006914 phosphate binding motif [ion binding]; other site 491952006915 beta-alpha-beta structure motif; other site 491952006916 NAD binding pocket [chemical binding]; other site 491952006917 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 491952006918 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 491952006919 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 491952006920 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 491952006921 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 491952006922 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 491952006923 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 491952006924 E3 interaction surface; other site 491952006925 lipoyl attachment site [posttranslational modification]; other site 491952006926 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 491952006927 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 491952006928 active site 491952006929 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 491952006930 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 491952006931 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 491952006932 ATP binding site [chemical binding]; other site 491952006933 putative Mg++ binding site [ion binding]; other site 491952006934 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 491952006935 nucleotide binding region [chemical binding]; other site 491952006936 ATP-binding site [chemical binding]; other site 491952006937 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 491952006938 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 491952006939 putative inner membrane peptidase; Provisional; Region: PRK11778 491952006940 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 491952006941 tandem repeat interface [polypeptide binding]; other site 491952006942 oligomer interface [polypeptide binding]; other site 491952006943 active site residues [active] 491952006944 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 491952006945 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 491952006946 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 491952006947 active site 491952006948 catalytic site [active] 491952006949 substrate binding site [chemical binding]; other site 491952006950 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 491952006951 RNA/DNA hybrid binding site [nucleotide binding]; other site 491952006952 active site 491952006953 Methyltransferase domain; Region: Methyltransf_11; pfam08241 491952006954 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 491952006955 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 491952006956 N-acetyl-D-glucosamine binding site [chemical binding]; other site 491952006957 catalytic residue [active] 491952006958 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491952006959 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491952006960 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 491952006961 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491952006962 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 491952006963 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952006964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952006965 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 491952006966 dimerization interface [polypeptide binding]; other site 491952006967 substrate binding pocket [chemical binding]; other site 491952006968 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 491952006969 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 491952006970 ATP binding site [chemical binding]; other site 491952006971 Mg++ binding site [ion binding]; other site 491952006972 motif III; other site 491952006973 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 491952006974 nucleotide binding region [chemical binding]; other site 491952006975 ATP-binding site [chemical binding]; other site 491952006976 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 491952006977 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 491952006978 FAD binding site [chemical binding]; other site 491952006979 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 491952006980 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 491952006981 putative active site [active] 491952006982 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 491952006983 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 491952006984 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 491952006985 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 491952006986 putative acyl-acceptor binding pocket; other site 491952006987 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 491952006988 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952006989 ABC transporter signature motif; other site 491952006990 Walker B; other site 491952006991 D-loop; other site 491952006992 H-loop/switch region; other site 491952006993 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 491952006994 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 491952006995 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 491952006996 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 491952006997 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 491952006998 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 491952006999 GTP/Mg2+ binding site [chemical binding]; other site 491952007000 G4 box; other site 491952007001 G5 box; other site 491952007002 G1 box; other site 491952007003 Switch I region; other site 491952007004 G2 box; other site 491952007005 G3 box; other site 491952007006 Switch II region; other site 491952007007 Protein of unknown function, DUF479; Region: DUF479; cl01203 491952007008 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 491952007009 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 491952007010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952007011 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952007012 dimer interface [polypeptide binding]; other site 491952007013 conserved gate region; other site 491952007014 putative PBP binding loops; other site 491952007015 ABC-ATPase subunit interface; other site 491952007016 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 491952007017 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952007018 dimer interface [polypeptide binding]; other site 491952007019 conserved gate region; other site 491952007020 putative PBP binding loops; other site 491952007021 ABC-ATPase subunit interface; other site 491952007022 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491952007023 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952007024 Walker A/P-loop; other site 491952007025 ATP binding site [chemical binding]; other site 491952007026 Q-loop/lid; other site 491952007027 ABC transporter signature motif; other site 491952007028 Walker B; other site 491952007029 D-loop; other site 491952007030 H-loop/switch region; other site 491952007031 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491952007032 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952007033 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 491952007034 Walker A/P-loop; other site 491952007035 ATP binding site [chemical binding]; other site 491952007036 Q-loop/lid; other site 491952007037 ABC transporter signature motif; other site 491952007038 Walker B; other site 491952007039 D-loop; other site 491952007040 H-loop/switch region; other site 491952007041 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491952007042 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007043 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007044 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491952007045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952007046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952007047 metal binding site [ion binding]; metal-binding site 491952007048 active site 491952007049 I-site; other site 491952007050 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 491952007051 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 491952007052 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 491952007053 ATP binding site [chemical binding]; other site 491952007054 Mg++ binding site [ion binding]; other site 491952007055 motif III; other site 491952007056 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 491952007057 nucleotide binding region [chemical binding]; other site 491952007058 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 491952007059 putative RNA binding site [nucleotide binding]; other site 491952007060 guanine deaminase; Provisional; Region: PRK09228 491952007061 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 491952007062 active site 491952007063 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 491952007064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952007065 putative substrate translocation pore; other site 491952007066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952007067 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952007068 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491952007069 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 491952007070 Peptidase family M23; Region: Peptidase_M23; pfam01551 491952007071 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 491952007072 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 491952007073 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 491952007074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952007075 catalytic residue [active] 491952007076 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 491952007077 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 491952007078 substrate binding site [chemical binding]; other site 491952007079 active site 491952007080 catalytic residues [active] 491952007081 heterodimer interface [polypeptide binding]; other site 491952007082 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 491952007083 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952007084 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952007085 active site 491952007086 phosphorylation site [posttranslational modification] 491952007087 intermolecular recognition site; other site 491952007088 dimerization interface [polypeptide binding]; other site 491952007089 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952007090 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952007091 metal binding site [ion binding]; metal-binding site 491952007092 active site 491952007093 I-site; other site 491952007094 PAS domain S-box; Region: sensory_box; TIGR00229 491952007095 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 491952007096 putative active site [active] 491952007097 heme pocket [chemical binding]; other site 491952007098 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 491952007099 dimer interface [polypeptide binding]; other site 491952007100 phosphorylation site [posttranslational modification] 491952007101 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 491952007102 ATP binding site [chemical binding]; other site 491952007103 Mg2+ binding site [ion binding]; other site 491952007104 G-X-G motif; other site 491952007105 Response regulator receiver domain; Region: Response_reg; pfam00072 491952007106 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952007107 active site 491952007108 phosphorylation site [posttranslational modification] 491952007109 intermolecular recognition site; other site 491952007110 dimerization interface [polypeptide binding]; other site 491952007111 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 491952007112 Avidin family; Region: Avidin; pfam01382 491952007113 Pepsin-like aspartic proteases, bilobal enzymes that cleave bonds in peptides at acidic pH; Region: pepsin_like; cd05471 491952007114 inhibitor binding site; inhibition site 491952007115 catalytic motif [active] 491952007116 catalytic residue [active] 491952007117 Active site flap [active] 491952007118 Glycosyl hydrolase family 79, N-terminal domain; Region: Glyco_hydro_79n; pfam03662 491952007119 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 491952007120 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 491952007121 intersubunit interface [polypeptide binding]; other site 491952007122 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952007123 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 491952007124 ABC-ATPase subunit interface; other site 491952007125 dimer interface [polypeptide binding]; other site 491952007126 putative PBP binding regions; other site 491952007127 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952007128 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 491952007129 ABC-ATPase subunit interface; other site 491952007130 dimer interface [polypeptide binding]; other site 491952007131 putative PBP binding regions; other site 491952007132 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491952007133 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952007134 Walker A/P-loop; other site 491952007135 ATP binding site [chemical binding]; other site 491952007136 Q-loop/lid; other site 491952007137 ABC transporter signature motif; other site 491952007138 Walker B; other site 491952007139 D-loop; other site 491952007140 H-loop/switch region; other site 491952007141 enterobactin exporter EntS; Provisional; Region: PRK10489 491952007142 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 491952007143 putative substrate translocation pore; other site 491952007144 Condensation domain; Region: Condensation; pfam00668 491952007145 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 491952007146 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 491952007147 acyl-activating enzyme (AAE) consensus motif; other site 491952007148 AMP binding site [chemical binding]; other site 491952007149 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 491952007150 Condensation domain; Region: Condensation; pfam00668 491952007151 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 491952007152 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 491952007153 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 491952007154 acyl-activating enzyme (AAE) consensus motif; other site 491952007155 AMP binding site [chemical binding]; other site 491952007156 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 491952007157 MbtH-like protein; Region: MbtH; pfam03621 491952007158 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 491952007159 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 491952007160 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 491952007161 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 491952007162 N-terminal plug; other site 491952007163 ligand-binding site [chemical binding]; other site 491952007164 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 491952007165 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 491952007166 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 491952007167 putative NAD(P) binding site [chemical binding]; other site 491952007168 active site 491952007169 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 491952007170 hydrophobic substrate binding pocket; other site 491952007171 Isochorismatase family; Region: Isochorismatase; pfam00857 491952007172 active site 491952007173 conserved cis-peptide bond; other site 491952007174 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 491952007175 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 491952007176 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 491952007177 acyl-activating enzyme (AAE) consensus motif; other site 491952007178 active site 491952007179 AMP binding site [chemical binding]; other site 491952007180 substrate binding site [chemical binding]; other site 491952007181 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 491952007182 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 491952007183 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 491952007184 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 491952007185 intersubunit interface [polypeptide binding]; other site 491952007186 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952007187 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 491952007188 ABC-ATPase subunit interface; other site 491952007189 dimer interface [polypeptide binding]; other site 491952007190 putative PBP binding regions; other site 491952007191 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491952007192 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952007193 Walker A/P-loop; other site 491952007194 ATP binding site [chemical binding]; other site 491952007195 Q-loop/lid; other site 491952007196 ABC transporter signature motif; other site 491952007197 Walker B; other site 491952007198 D-loop; other site 491952007199 H-loop/switch region; other site 491952007200 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 491952007201 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 491952007202 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 491952007203 multidrug resistance protein MdtH; Provisional; Region: PRK11646 491952007204 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 491952007205 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 491952007206 MFS/sugar transport protein; Region: MFS_2; pfam13347 491952007207 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 491952007208 Cupin domain; Region: Cupin_2; pfam07883 491952007209 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952007210 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952007211 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 491952007212 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 491952007213 putative substrate translocation pore; other site 491952007214 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 491952007215 active site 491952007216 catalytic residues [active] 491952007217 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 491952007218 active site 491952007219 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952007220 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952007221 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491952007222 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 491952007223 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 491952007224 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 491952007225 DNA interaction; other site 491952007226 Metal-binding active site; metal-binding site 491952007227 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 491952007228 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 491952007229 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491952007230 PYR/PP interface [polypeptide binding]; other site 491952007231 dimer interface [polypeptide binding]; other site 491952007232 TPP binding site [chemical binding]; other site 491952007233 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491952007234 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 491952007235 TPP-binding site; other site 491952007236 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952007237 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 491952007238 substrate binding site [chemical binding]; other site 491952007239 ATP binding site [chemical binding]; other site 491952007240 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 491952007241 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 491952007242 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 491952007243 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952007244 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491952007245 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491952007246 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491952007247 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 491952007248 putative active site [active] 491952007249 Predicted membrane protein (DUF2127); Region: DUF2127; pfam09900 491952007250 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 491952007251 active site 491952007252 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 491952007253 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 491952007254 dimer interface [polypeptide binding]; other site 491952007255 active site 491952007256 heme binding site [chemical binding]; other site 491952007257 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 491952007258 cytosine permease; Provisional; Region: codB; PRK11017 491952007259 Na binding site [ion binding]; other site 491952007260 cytosine deaminase; Provisional; Region: PRK09230 491952007261 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 491952007262 active site 491952007263 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952007264 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 491952007265 dimerization interface [polypeptide binding]; other site 491952007266 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952007267 dimer interface [polypeptide binding]; other site 491952007268 putative CheW interface [polypeptide binding]; other site 491952007269 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 491952007270 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 491952007271 dimerization interface [polypeptide binding]; other site 491952007272 NAD binding site [chemical binding]; other site 491952007273 ligand binding site [chemical binding]; other site 491952007274 catalytic site [active] 491952007275 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 491952007276 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 491952007277 dimer interface [polypeptide binding]; other site 491952007278 active site 491952007279 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 491952007280 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 491952007281 substrate binding site [chemical binding]; other site 491952007282 oxyanion hole (OAH) forming residues; other site 491952007283 trimer interface [polypeptide binding]; other site 491952007284 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 491952007285 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 491952007286 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 491952007287 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 491952007288 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 491952007289 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 491952007290 Ligand binding site [chemical binding]; other site 491952007291 Electron transfer flavoprotein domain; Region: ETF; pfam01012 491952007292 enoyl-CoA hydratase; Provisional; Region: PRK06688 491952007293 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 491952007294 substrate binding site [chemical binding]; other site 491952007295 oxyanion hole (OAH) forming residues; other site 491952007296 trimer interface [polypeptide binding]; other site 491952007297 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 491952007298 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 491952007299 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 491952007300 acyl-activating enzyme (AAE) consensus motif; other site 491952007301 putative AMP binding site [chemical binding]; other site 491952007302 putative active site [active] 491952007303 putative CoA binding site [chemical binding]; other site 491952007304 SCP-2 sterol transfer family; Region: SCP2; pfam02036 491952007305 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 491952007306 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 491952007307 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 491952007308 active site 491952007309 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 491952007310 TraB family; Region: TraB; pfam01963 491952007311 hypothetical protein; Provisional; Region: PRK07538 491952007312 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952007313 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 491952007314 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 491952007315 two-component sensor protein; Provisional; Region: cpxA; PRK09470 491952007316 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 491952007317 dimerization interface [polypeptide binding]; other site 491952007318 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 491952007319 dimer interface [polypeptide binding]; other site 491952007320 phosphorylation site [posttranslational modification] 491952007321 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 491952007322 ATP binding site [chemical binding]; other site 491952007323 Mg2+ binding site [ion binding]; other site 491952007324 G-X-G motif; other site 491952007325 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 491952007326 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952007327 active site 491952007328 phosphorylation site [posttranslational modification] 491952007329 intermolecular recognition site; other site 491952007330 dimerization interface [polypeptide binding]; other site 491952007331 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 491952007332 DNA binding site [nucleotide binding] 491952007333 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 491952007334 dimer interface [polypeptide binding]; other site 491952007335 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 491952007336 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 491952007337 homodimer interface [polypeptide binding]; other site 491952007338 substrate-cofactor binding pocket; other site 491952007339 catalytic residue [active] 491952007340 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 491952007341 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 491952007342 MAPEG family; Region: MAPEG; cl09190 491952007343 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 491952007344 DinB family; Region: DinB; cl17821 491952007345 DoxX-like family; Region: DoxX_2; pfam13564 491952007346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007348 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 491952007349 dimerization interface [polypeptide binding]; other site 491952007350 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 491952007351 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 491952007352 S-adenosylmethionine binding site [chemical binding]; other site 491952007353 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007354 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491952007355 Coenzyme A binding pocket [chemical binding]; other site 491952007356 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952007357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007358 Coenzyme A binding pocket [chemical binding]; other site 491952007359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007360 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007361 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 491952007362 putative effector binding pocket; other site 491952007363 dimerization interface [polypeptide binding]; other site 491952007364 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 491952007365 dimer interface [polypeptide binding]; other site 491952007366 FMN binding site [chemical binding]; other site 491952007367 haemagglutination activity domain; Region: Haemagg_act; pfam05860 491952007368 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952007369 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952007370 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 491952007371 Predicted secreted acid phosphatase [General function prediction only]; Region: COG2503 491952007372 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007373 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491952007374 Coenzyme A binding pocket [chemical binding]; other site 491952007375 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952007376 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952007377 metal binding site [ion binding]; metal-binding site 491952007378 active site 491952007379 I-site; other site 491952007380 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491952007381 trimer interface [polypeptide binding]; other site 491952007382 active site 491952007383 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 491952007384 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 491952007385 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 491952007386 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 491952007387 active site 491952007388 HIGH motif; other site 491952007389 KMSKS motif; other site 491952007390 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 491952007391 anticodon binding site; other site 491952007392 tRNA binding surface [nucleotide binding]; other site 491952007393 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 491952007394 dimer interface [polypeptide binding]; other site 491952007395 putative tRNA-binding site [nucleotide binding]; other site 491952007396 electron transport complex protein RsxA; Provisional; Region: PRK05151 491952007397 ferredoxin; Provisional; Region: PRK08764 491952007398 Putative Fe-S cluster; Region: FeS; pfam04060 491952007399 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 491952007400 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 491952007401 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 491952007402 SLBB domain; Region: SLBB; pfam10531 491952007403 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 491952007404 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 491952007405 FMN-binding domain; Region: FMN_bind; cl01081 491952007406 electron transport complex RsxE subunit; Provisional; Region: PRK12405 491952007407 endonuclease III; Provisional; Region: PRK10702 491952007408 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 491952007409 minor groove reading motif; other site 491952007410 helix-hairpin-helix signature motif; other site 491952007411 substrate binding pocket [chemical binding]; other site 491952007412 active site 491952007413 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 491952007414 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952007415 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 491952007416 dimer interface [polypeptide binding]; other site 491952007417 phosphorylation site [posttranslational modification] 491952007418 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 491952007419 ATP binding site [chemical binding]; other site 491952007420 Mg2+ binding site [ion binding]; other site 491952007421 G-X-G motif; other site 491952007422 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491952007423 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 491952007424 active site 491952007425 phosphorylation site [posttranslational modification] 491952007426 intermolecular recognition site; other site 491952007427 dimerization interface [polypeptide binding]; other site 491952007428 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 491952007429 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 491952007430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952007431 catalytic residue [active] 491952007432 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 491952007433 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 491952007434 inhibitor-cofactor binding pocket; inhibition site 491952007435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952007436 catalytic residue [active] 491952007437 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 491952007438 active site 491952007439 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 491952007440 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952007441 substrate binding site [chemical binding]; other site 491952007442 dimer interface [polypeptide binding]; other site 491952007443 ATP binding site [chemical binding]; other site 491952007444 argininosuccinate synthase; Provisional; Region: PRK13820 491952007445 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 491952007446 ANP binding site [chemical binding]; other site 491952007447 Substrate Binding Site II [chemical binding]; other site 491952007448 Substrate Binding Site I [chemical binding]; other site 491952007449 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 491952007450 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952007451 ligand binding site [chemical binding]; other site 491952007452 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 491952007453 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 491952007454 dimer interface [polypeptide binding]; other site 491952007455 catalytic site [active] 491952007456 putative active site [active] 491952007457 putative substrate binding site [chemical binding]; other site 491952007458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 491952007459 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 491952007460 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 491952007461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 491952007462 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 491952007463 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 491952007464 N-terminal plug; other site 491952007465 ligand-binding site [chemical binding]; other site 491952007466 putative protease; Provisional; Region: PRK15452 491952007467 Peptidase family U32; Region: Peptidase_U32; pfam01136 491952007468 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 491952007469 Predicted flavoprotein [General function prediction only]; Region: COG0431 491952007470 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491952007471 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 491952007472 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 491952007473 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 491952007474 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 491952007475 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 491952007476 DNA binding residues [nucleotide binding] 491952007477 putative dimer interface [polypeptide binding]; other site 491952007478 Putative amidotransferase; Region: DUF4066; pfam13278 491952007479 conserved cys residue [active] 491952007480 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 491952007481 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952007482 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952007483 MltA-interacting protein MipA; Region: MipA; cl01504 491952007484 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 491952007485 putative hydrophobic ligand binding site [chemical binding]; other site 491952007486 Predicted transcriptional regulators [Transcription]; Region: COG1733 491952007487 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491952007488 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 491952007489 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952007490 putative active site [active] 491952007491 putative metal binding site [ion binding]; other site 491952007492 DJ-1 family protein; Region: not_thiJ; TIGR01383 491952007493 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 491952007494 conserved cys residue [active] 491952007495 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 491952007496 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952007497 active site 491952007498 phosphorylation site [posttranslational modification] 491952007499 intermolecular recognition site; other site 491952007500 dimerization interface [polypeptide binding]; other site 491952007501 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 491952007502 DNA binding residues [nucleotide binding] 491952007503 dimerization interface [polypeptide binding]; other site 491952007504 Beta/Gamma crystallin; Region: Crystall; cl02528 491952007505 Beta/Gamma crystallin; Region: Crystall; cl02528 491952007506 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 491952007507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952007508 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 491952007509 dimer interface [polypeptide binding]; other site 491952007510 phosphorylation site [posttranslational modification] 491952007511 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 491952007512 ATP binding site [chemical binding]; other site 491952007513 Mg2+ binding site [ion binding]; other site 491952007514 G-X-G motif; other site 491952007515 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 491952007516 Cupin domain; Region: Cupin_2; cl17218 491952007517 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 491952007518 Uncharacterized conserved protein [Function unknown]; Region: COG3791 491952007519 Predicted membrane protein [Function unknown]; Region: COG2259 491952007520 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 491952007521 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952007522 active site 491952007523 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952007524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007525 Coenzyme A binding pocket [chemical binding]; other site 491952007526 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491952007527 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 491952007528 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 491952007529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952007530 Walker A/P-loop; other site 491952007531 ATP binding site [chemical binding]; other site 491952007532 Q-loop/lid; other site 491952007533 ABC transporter signature motif; other site 491952007534 Walker B; other site 491952007535 D-loop; other site 491952007536 H-loop/switch region; other site 491952007537 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 491952007538 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 491952007539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952007540 Q-loop/lid; other site 491952007541 ABC transporter signature motif; other site 491952007542 Walker B; other site 491952007543 D-loop; other site 491952007544 H-loop/switch region; other site 491952007545 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 491952007546 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 491952007547 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 491952007548 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 491952007549 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 491952007550 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491952007551 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 491952007552 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 491952007553 substrate binding pocket [chemical binding]; other site 491952007554 active site 491952007555 iron coordination sites [ion binding]; other site 491952007556 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 491952007557 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 491952007558 homodimer interface [polypeptide binding]; other site 491952007559 substrate-cofactor binding pocket; other site 491952007560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952007561 catalytic residue [active] 491952007562 Beta-lactamase; Region: Beta-lactamase; pfam00144 491952007563 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 491952007564 Sensors of blue-light using FAD; Region: BLUF; pfam04940 491952007565 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 491952007566 aromatic arch; other site 491952007567 DCoH dimer interaction site [polypeptide binding]; other site 491952007568 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 491952007569 DCoH tetramer interaction site [polypeptide binding]; other site 491952007570 substrate binding site [chemical binding]; other site 491952007571 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 491952007572 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007573 Coenzyme A binding pocket [chemical binding]; other site 491952007574 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 491952007575 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952007576 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 491952007577 NAD(P) binding site [chemical binding]; other site 491952007578 catalytic residues [active] 491952007579 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 491952007580 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 491952007581 NAD(P) binding site [chemical binding]; other site 491952007582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952007583 active site 491952007584 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491952007585 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 491952007586 TM-ABC transporter signature motif; other site 491952007587 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952007588 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 491952007589 TM-ABC transporter signature motif; other site 491952007590 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491952007591 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491952007592 Walker A/P-loop; other site 491952007593 ATP binding site [chemical binding]; other site 491952007594 Q-loop/lid; other site 491952007595 ABC transporter signature motif; other site 491952007596 Walker B; other site 491952007597 D-loop; other site 491952007598 H-loop/switch region; other site 491952007599 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491952007600 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491952007601 Walker A/P-loop; other site 491952007602 ATP binding site [chemical binding]; other site 491952007603 Q-loop/lid; other site 491952007604 ABC transporter signature motif; other site 491952007605 Walker B; other site 491952007606 D-loop; other site 491952007607 H-loop/switch region; other site 491952007608 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491952007609 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_4; cd06337 491952007610 putative ligand binding site [chemical binding]; other site 491952007611 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952007612 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 491952007613 NAD(P) binding site [chemical binding]; other site 491952007614 catalytic residues [active] 491952007615 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952007616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952007617 Nitrate and nitrite sensing; Region: NIT; pfam08376 491952007618 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952007619 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 491952007620 dimerization interface [polypeptide binding]; other site 491952007621 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952007622 dimer interface [polypeptide binding]; other site 491952007623 putative CheW interface [polypeptide binding]; other site 491952007624 hypothetical protein; Provisional; Region: PRK09256 491952007625 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 491952007626 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 491952007627 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 491952007628 active site 491952007629 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 491952007630 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 491952007631 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 491952007632 Walker A motif; other site 491952007633 ATP binding site [chemical binding]; other site 491952007634 Walker B motif; other site 491952007635 arginine finger; other site 491952007636 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952007637 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 491952007638 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 491952007639 TrkA-N domain; Region: TrkA_N; pfam02254 491952007640 Flavodoxin domain; Region: Flavodoxin_5; cl17428 491952007641 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 491952007642 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 491952007643 transmembrane helices; other site 491952007644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 491952007645 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 491952007646 Sporulation related domain; Region: SPOR; pfam05036 491952007647 Predicted membrane protein [Function unknown]; Region: COG1238 491952007648 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 491952007649 dimerization interface [polypeptide binding]; other site 491952007650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952007651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952007652 dimer interface [polypeptide binding]; other site 491952007653 putative CheW interface [polypeptide binding]; other site 491952007654 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 491952007655 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 491952007656 glycogen branching enzyme; Provisional; Region: PRK05402 491952007657 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 491952007658 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 491952007659 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 491952007660 active site 491952007661 catalytic site [active] 491952007662 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 491952007663 Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]; Region: PulA; COG1523 491952007664 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 491952007665 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 491952007666 active site 491952007667 catalytic site [active] 491952007668 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952007669 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952007670 dimer interface [polypeptide binding]; other site 491952007671 putative CheW interface [polypeptide binding]; other site 491952007672 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952007673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952007674 active site 491952007675 phosphorylation site [posttranslational modification] 491952007676 intermolecular recognition site; other site 491952007677 dimerization interface [polypeptide binding]; other site 491952007678 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 491952007679 binding surface 491952007680 TPR motif; other site 491952007681 Tetratricopeptide repeat; Region: TPR_12; pfam13424 491952007682 serine/threonine protein kinase; Provisional; Region: PRK11768 491952007683 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 491952007684 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 491952007685 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 491952007686 ATP binding site [chemical binding]; other site 491952007687 putative Mg++ binding site [ion binding]; other site 491952007688 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 491952007689 nucleotide binding region [chemical binding]; other site 491952007690 ATP-binding site [chemical binding]; other site 491952007691 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 491952007692 dimer interface [polypeptide binding]; other site 491952007693 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952007694 metal binding site [ion binding]; metal-binding site 491952007695 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 491952007696 GIY-YIG motif/motif A; other site 491952007697 putative active site [active] 491952007698 putative metal binding site [ion binding]; other site 491952007699 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952007700 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 491952007701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952007702 DNA-binding site [nucleotide binding]; DNA binding site 491952007703 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 491952007704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952007705 homodimer interface [polypeptide binding]; other site 491952007706 catalytic residue [active] 491952007707 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491952007708 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952007709 Walker A/P-loop; other site 491952007710 ATP binding site [chemical binding]; other site 491952007711 Q-loop/lid; other site 491952007712 ABC transporter signature motif; other site 491952007713 Walker B; other site 491952007714 D-loop; other site 491952007715 H-loop/switch region; other site 491952007716 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952007717 FecCD transport family; Region: FecCD; pfam01032 491952007718 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952007719 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 491952007720 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 491952007721 ABC-ATPase subunit interface; other site 491952007722 dimer interface [polypeptide binding]; other site 491952007723 putative PBP binding regions; other site 491952007724 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 491952007725 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 491952007726 siderophore binding site; other site 491952007727 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491952007728 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007729 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007730 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491952007731 dimerization interface [polypeptide binding]; other site 491952007732 Tannase and feruloyl esterase; Region: Tannase; pfam07519 491952007733 Putative cyclase; Region: Cyclase; pfam04199 491952007734 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 491952007735 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491952007736 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 491952007737 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 491952007738 putative substrate translocation pore; other site 491952007739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007741 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 491952007742 dimerization interface [polypeptide binding]; other site 491952007743 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 491952007744 trimer interface [polypeptide binding]; other site 491952007745 eyelet of channel; other site 491952007746 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007747 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007748 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 491952007749 substrate binding pocket [chemical binding]; other site 491952007750 dimerization interface [polypeptide binding]; other site 491952007751 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 491952007752 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 491952007753 catalytic loop [active] 491952007754 iron binding site [ion binding]; other site 491952007755 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 491952007756 FAD binding pocket [chemical binding]; other site 491952007757 FAD binding motif [chemical binding]; other site 491952007758 phosphate binding motif [ion binding]; other site 491952007759 beta-alpha-beta structure motif; other site 491952007760 NAD binding pocket [chemical binding]; other site 491952007761 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491952007762 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 491952007763 iron-sulfur cluster [ion binding]; other site 491952007764 [2Fe-2S] cluster binding site [ion binding]; other site 491952007765 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 491952007766 putative alpha subunit interface [polypeptide binding]; other site 491952007767 putative active site [active] 491952007768 putative substrate binding site [chemical binding]; other site 491952007769 Fe binding site [ion binding]; other site 491952007770 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 491952007771 inter-subunit interface; other site 491952007772 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 491952007773 [2Fe-2S] cluster binding site [ion binding]; other site 491952007774 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 491952007775 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 491952007776 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 491952007777 DctM-like transporters; Region: DctM; pfam06808 491952007778 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 491952007779 maleylacetoacetate isomerase; Region: maiA; TIGR01262 491952007780 C-terminal domain interface [polypeptide binding]; other site 491952007781 GSH binding site (G-site) [chemical binding]; other site 491952007782 putative dimer interface [polypeptide binding]; other site 491952007783 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 491952007784 dimer interface [polypeptide binding]; other site 491952007785 N-terminal domain interface [polypeptide binding]; other site 491952007786 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 491952007787 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 491952007788 Cupin domain; Region: Cupin_2; pfam07883 491952007789 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 491952007790 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491952007791 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952007792 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 491952007793 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 491952007794 DctM-like transporters; Region: DctM; pfam06808 491952007795 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491952007796 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 491952007797 putative DNA binding site [nucleotide binding]; other site 491952007798 putative Zn2+ binding site [ion binding]; other site 491952007799 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952007800 Cupin; Region: Cupin_6; pfam12852 491952007801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952007802 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952007803 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952007804 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491952007805 FAD binding domain; Region: FAD_binding_4; pfam01565 491952007806 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 491952007807 Cysteine-rich domain; Region: CCG; pfam02754 491952007808 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 491952007809 FAD binding domain; Region: FAD_binding_4; pfam01565 491952007810 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 491952007811 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 491952007812 acyl-activating enzyme (AAE) consensus motif; other site 491952007813 putative AMP binding site [chemical binding]; other site 491952007814 putative active site [active] 491952007815 putative CoA binding site [chemical binding]; other site 491952007816 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952007817 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 491952007818 NAD(P) binding site [chemical binding]; other site 491952007819 catalytic residues [active] 491952007820 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952007821 NADH(P)-binding; Region: NAD_binding_10; pfam13460 491952007822 NAD(P) binding site [chemical binding]; other site 491952007823 active site 491952007824 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491952007825 Cupin domain; Region: Cupin_2; cl17218 491952007826 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491952007827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952007828 NAD(P) binding site [chemical binding]; other site 491952007829 active site 491952007830 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 491952007831 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 491952007832 enoyl-CoA hydratase; Provisional; Region: PRK05995 491952007833 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 491952007834 substrate binding site [chemical binding]; other site 491952007835 oxyanion hole (OAH) forming residues; other site 491952007836 trimer interface [polypeptide binding]; other site 491952007837 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 491952007838 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491952007839 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 491952007840 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 491952007841 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 491952007842 carboxyltransferase (CT) interaction site; other site 491952007843 biotinylation site [posttranslational modification]; other site 491952007844 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 491952007845 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 491952007846 active site 491952007847 catalytic residues [active] 491952007848 metal binding site [ion binding]; metal-binding site 491952007849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007851 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 491952007852 putative substrate binding pocket [chemical binding]; other site 491952007853 putative dimerization interface [polypeptide binding]; other site 491952007854 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 491952007855 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 491952007856 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 491952007857 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952007858 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 491952007859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 491952007860 putative active site [active] 491952007861 putative metal binding site [ion binding]; other site 491952007862 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 491952007863 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952007864 putative substrate translocation pore; other site 491952007865 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 491952007866 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 491952007867 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 491952007868 iron-sulfur cluster [ion binding]; other site 491952007869 [2Fe-2S] cluster binding site [ion binding]; other site 491952007870 hypothetical protein; Provisional; Region: PRK06847 491952007871 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952007872 Cupin domain; Region: Cupin_2; pfam07883 491952007873 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 491952007874 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 491952007875 Cupin; Region: Cupin_6; pfam12852 491952007876 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952007877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952007878 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 491952007879 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952007880 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 491952007881 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952007882 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 491952007883 Cache domain; Region: Cache_1; pfam02743 491952007884 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952007885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952007886 dimer interface [polypeptide binding]; other site 491952007887 putative CheW interface [polypeptide binding]; other site 491952007888 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952007889 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 491952007890 putative DNA binding site [nucleotide binding]; other site 491952007891 putative Zn2+ binding site [ion binding]; other site 491952007892 AsnC family; Region: AsnC_trans_reg; pfam01037 491952007893 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491952007894 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 491952007895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952007896 catalytic residue [active] 491952007897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007898 Coenzyme A binding pocket [chemical binding]; other site 491952007899 fosfomycin resistance protein FosB; Provisional; Region: PRK04101 491952007900 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 491952007901 active site 491952007902 metal binding site [ion binding]; metal-binding site 491952007903 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 491952007904 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 491952007905 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 491952007906 Na binding site [ion binding]; other site 491952007907 Protein of unknown function (DUF962); Region: DUF962; cl01879 491952007908 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 491952007909 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952007910 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 491952007911 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 491952007912 Na binding site [ion binding]; other site 491952007913 PAS fold; Region: PAS_7; pfam12860 491952007914 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952007915 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 491952007916 dimer interface [polypeptide binding]; other site 491952007917 phosphorylation site [posttranslational modification] 491952007918 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 491952007919 ATP binding site [chemical binding]; other site 491952007920 Mg2+ binding site [ion binding]; other site 491952007921 G-X-G motif; other site 491952007922 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 491952007923 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952007924 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 491952007925 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 491952007926 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 491952007927 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 491952007928 RNA binding surface [nucleotide binding]; other site 491952007929 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 491952007930 active site 491952007931 uracil binding [chemical binding]; other site 491952007932 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 491952007933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952007934 Coenzyme A binding pocket [chemical binding]; other site 491952007935 Uncharacterized conserved protein [Function unknown]; Region: COG1284 491952007936 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 491952007937 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 491952007938 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 491952007939 Catalytic site [active] 491952007940 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 491952007941 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 491952007942 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; pfam02572 491952007943 Predicted membrane protein [Function unknown]; Region: COG2860 491952007944 UPF0126 domain; Region: UPF0126; pfam03458 491952007945 UPF0126 domain; Region: UPF0126; pfam03458 491952007946 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 491952007947 catalytic core [active] 491952007948 cobalamin synthase; Reviewed; Region: cobS; PRK00235 491952007949 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 491952007950 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 491952007951 putative dimer interface [polypeptide binding]; other site 491952007952 active site pocket [active] 491952007953 putative cataytic base [active] 491952007954 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 491952007955 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 491952007956 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 491952007957 ribonuclease R; Region: RNase_R; TIGR02063 491952007958 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 491952007959 RNB domain; Region: RNB; pfam00773 491952007960 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 491952007961 RNA binding site [nucleotide binding]; other site 491952007962 PEP synthetase regulatory protein; Provisional; Region: PRK05339 491952007963 phosphoenolpyruvate synthase; Validated; Region: PRK06464 491952007964 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 491952007965 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 491952007966 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 491952007967 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 491952007968 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 491952007969 substrate binding site [chemical binding]; other site 491952007970 oxyanion hole (OAH) forming residues; other site 491952007971 trimer interface [polypeptide binding]; other site 491952007972 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 491952007973 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 491952007974 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952007975 putative substrate translocation pore; other site 491952007976 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952007977 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952007978 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 491952007979 dimerization interface [polypeptide binding]; other site 491952007980 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 491952007981 hypothetical protein; Provisional; Region: PRK01254 491952007982 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 491952007983 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 491952007984 GTP-binding protein Der; Reviewed; Region: PRK00093 491952007985 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 491952007986 G1 box; other site 491952007987 GTP/Mg2+ binding site [chemical binding]; other site 491952007988 Switch I region; other site 491952007989 G2 box; other site 491952007990 Switch II region; other site 491952007991 G3 box; other site 491952007992 G4 box; other site 491952007993 G5 box; other site 491952007994 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 491952007995 G1 box; other site 491952007996 GTP/Mg2+ binding site [chemical binding]; other site 491952007997 Switch I region; other site 491952007998 G2 box; other site 491952007999 G3 box; other site 491952008000 Switch II region; other site 491952008001 G4 box; other site 491952008002 G5 box; other site 491952008003 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 491952008004 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 491952008005 Trp docking motif [polypeptide binding]; other site 491952008006 active site 491952008007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 491952008008 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 491952008009 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 491952008010 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 491952008011 dimer interface [polypeptide binding]; other site 491952008012 motif 1; other site 491952008013 active site 491952008014 motif 2; other site 491952008015 motif 3; other site 491952008016 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 491952008017 anticodon binding site; other site 491952008018 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 491952008019 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 491952008020 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 491952008021 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 491952008022 Helix-turn-helix domain; Region: HTH_25; pfam13413 491952008023 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 491952008024 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 491952008025 binding surface 491952008026 TPR motif; other site 491952008027 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 491952008028 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 491952008029 FeS/SAM binding site; other site 491952008030 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 491952008031 active site 491952008032 multimer interface [polypeptide binding]; other site 491952008033 cysteine desulfurase; Provisional; Region: PRK14012 491952008034 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 491952008035 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952008036 catalytic residue [active] 491952008037 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 491952008038 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 491952008039 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 491952008040 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491952008041 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 491952008042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952008043 catalytic residue [active] 491952008044 FeS assembly protein SufD; Region: sufD; TIGR01981 491952008045 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 491952008046 FeS assembly ATPase SufC; Region: sufC; TIGR01978 491952008047 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 491952008048 Walker A/P-loop; other site 491952008049 ATP binding site [chemical binding]; other site 491952008050 Q-loop/lid; other site 491952008051 ABC transporter signature motif; other site 491952008052 Walker B; other site 491952008053 D-loop; other site 491952008054 H-loop/switch region; other site 491952008055 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 491952008056 putative ABC transporter; Region: ycf24; CHL00085 491952008057 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 491952008058 Rrf2 family protein; Region: rrf2_super; TIGR00738 491952008059 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 491952008060 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 491952008061 active site 491952008062 FMN binding site [chemical binding]; other site 491952008063 2,4-decadienoyl-CoA binding site; other site 491952008064 catalytic residue [active] 491952008065 4Fe-4S cluster binding site [ion binding]; other site 491952008066 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 491952008067 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952008068 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952008069 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952008070 WHG domain; Region: WHG; pfam13305 491952008071 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 491952008072 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 491952008073 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 491952008074 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 491952008075 putative chaperone; Provisional; Region: PRK11678 491952008076 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 491952008077 nucleotide binding site [chemical binding]; other site 491952008078 putative NEF/HSP70 interaction site [polypeptide binding]; other site 491952008079 SBD interface [polypeptide binding]; other site 491952008080 Cache domain; Region: Cache_1; pfam02743 491952008081 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 491952008082 dimerization interface [polypeptide binding]; other site 491952008083 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952008084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952008085 dimer interface [polypeptide binding]; other site 491952008086 putative CheW interface [polypeptide binding]; other site 491952008087 NnrU protein; Region: NnrU; pfam07298 491952008088 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 491952008089 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 491952008090 dimer interface [polypeptide binding]; other site 491952008091 active site 491952008092 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491952008093 catalytic residues [active] 491952008094 substrate binding site [chemical binding]; other site 491952008095 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 491952008096 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 491952008097 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 491952008098 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 491952008099 phosphate binding site [ion binding]; other site 491952008100 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 491952008101 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491952008102 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491952008103 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491952008104 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 491952008105 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491952008106 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491952008107 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491952008108 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 491952008109 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 491952008110 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 491952008111 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 491952008112 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 491952008113 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 491952008114 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 491952008115 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 491952008116 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 491952008117 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 491952008118 Walker A motif; other site 491952008119 ATP binding site [chemical binding]; other site 491952008120 Walker B motif; other site 491952008121 arginine finger; other site 491952008122 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952008123 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 491952008124 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 491952008125 Walker A motif; other site 491952008126 ATP binding site [chemical binding]; other site 491952008127 Walker B motif; other site 491952008128 arginine finger; other site 491952008129 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 491952008130 Walker A motif; other site 491952008131 ATP binding site [chemical binding]; other site 491952008132 Walker B motif; other site 491952008133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491952008134 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 491952008135 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 491952008136 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 491952008137 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 491952008138 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 491952008139 phosphopeptide binding site; other site 491952008140 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 491952008141 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 491952008142 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 491952008143 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 491952008144 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 491952008145 Protein of unknown function (DUF877); Region: DUF877; pfam05943 491952008146 Protein of unknown function (DUF770); Region: DUF770; pfam05591 491952008147 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008148 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 491952008149 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008150 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 491952008151 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008152 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008153 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008154 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 491952008155 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008156 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008157 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 491952008158 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 491952008159 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 491952008160 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 491952008161 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 491952008162 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 491952008163 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 491952008164 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 491952008165 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 491952008166 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 491952008167 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 491952008168 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491952008169 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 491952008170 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 491952008171 hydroxyglutarate oxidase; Provisional; Region: PRK11728 491952008172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 491952008173 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 491952008174 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 491952008175 homodimer interface [polypeptide binding]; other site 491952008176 NADP binding site [chemical binding]; other site 491952008177 substrate binding site [chemical binding]; other site 491952008178 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 491952008179 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 491952008180 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 491952008181 putative active site [active] 491952008182 putative substrate binding site [chemical binding]; other site 491952008183 putative cosubstrate binding site; other site 491952008184 catalytic site [active] 491952008185 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491952008186 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491952008187 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952008188 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 491952008189 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 491952008190 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 491952008191 active site 491952008192 FMN binding site [chemical binding]; other site 491952008193 substrate binding site [chemical binding]; other site 491952008194 3Fe-4S cluster binding site [ion binding]; other site 491952008195 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 491952008196 domain_subunit interface; other site 491952008197 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 491952008198 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 491952008199 putative active site [active] 491952008200 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 491952008201 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491952008202 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491952008203 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 491952008204 non-specific DNA binding site [nucleotide binding]; other site 491952008205 salt bridge; other site 491952008206 sequence-specific DNA binding site [nucleotide binding]; other site 491952008207 Cupin domain; Region: Cupin_2; pfam07883 491952008208 NMT1/THI5 like; Region: NMT1; pfam09084 491952008209 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 491952008210 substrate binding pocket [chemical binding]; other site 491952008211 membrane-bound complex binding site; other site 491952008212 hinge residues; other site 491952008213 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491952008214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952008215 dimer interface [polypeptide binding]; other site 491952008216 conserved gate region; other site 491952008217 putative PBP binding loops; other site 491952008218 ABC-ATPase subunit interface; other site 491952008219 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 491952008220 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491952008221 Walker A/P-loop; other site 491952008222 ATP binding site [chemical binding]; other site 491952008223 Q-loop/lid; other site 491952008224 ABC transporter signature motif; other site 491952008225 Walker B; other site 491952008226 D-loop; other site 491952008227 H-loop/switch region; other site 491952008228 choline dehydrogenase; Validated; Region: PRK02106 491952008229 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491952008230 acetylornithine deacetylase; Provisional; Region: PRK07522 491952008231 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 491952008232 metal binding site [ion binding]; metal-binding site 491952008233 putative dimer interface [polypeptide binding]; other site 491952008234 hypothetical protein; Provisional; Region: PRK07036 491952008235 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 491952008236 inhibitor-cofactor binding pocket; inhibition site 491952008237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008238 catalytic residue [active] 491952008239 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 491952008240 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 491952008241 NAD(P) binding site [chemical binding]; other site 491952008242 catalytic residues [active] 491952008243 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 491952008244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952008245 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 491952008246 homotrimer interaction site [polypeptide binding]; other site 491952008247 putative active site [active] 491952008248 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 491952008249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952008250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952008251 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 491952008252 putative substrate binding pocket [chemical binding]; other site 491952008253 dimerization interface [polypeptide binding]; other site 491952008254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 491952008255 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952008256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952008257 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 491952008258 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 491952008259 N-terminal plug; other site 491952008260 ligand-binding site [chemical binding]; other site 491952008261 salicylate synthase; Region: salicyl_syn; TIGR03494 491952008262 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 491952008263 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 491952008264 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952008265 Condensation domain; Region: Condensation; pfam00668 491952008266 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 491952008267 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 491952008268 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 491952008269 acyl-activating enzyme (AAE) consensus motif; other site 491952008270 AMP binding site [chemical binding]; other site 491952008271 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 491952008272 Condensation domain; Region: Condensation; pfam00668 491952008273 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 491952008274 MbtH-like protein; Region: MbtH; cl01279 491952008275 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 491952008276 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 491952008277 acyl-activating enzyme (AAE) consensus motif; other site 491952008278 AMP binding site [chemical binding]; other site 491952008279 Phosphopantetheine attachment site; Region: PP-binding; cl09936 491952008280 Condensation domain; Region: Condensation; pfam00668 491952008281 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 491952008282 Nonribosomal peptide synthase; Region: NRPS; pfam08415 491952008283 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 491952008284 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 491952008285 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491952008286 acyl-activating enzyme (AAE) consensus motif; other site 491952008287 AMP binding site [chemical binding]; other site 491952008288 active site 491952008289 CoA binding site [chemical binding]; other site 491952008290 Methyltransferase domain; Region: Methyltransf_23; pfam13489 491952008291 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 491952008292 S-adenosylmethionine binding site [chemical binding]; other site 491952008293 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 491952008294 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 491952008295 putative substrate translocation pore; other site 491952008296 excinuclease ABC subunit B; Provisional; Region: PRK05298 491952008297 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 491952008298 ATP binding site [chemical binding]; other site 491952008299 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 491952008300 nucleotide binding region [chemical binding]; other site 491952008301 ATP-binding site [chemical binding]; other site 491952008302 Ultra-violet resistance protein B; Region: UvrB; pfam12344 491952008303 UvrB/uvrC motif; Region: UVR; pfam02151 491952008304 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 491952008305 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 491952008306 high affinity sulphate transporter 1; Region: sulP; TIGR00815 491952008307 Sulfate transporter family; Region: Sulfate_transp; pfam00916 491952008308 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 491952008309 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 491952008310 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 491952008311 active site 491952008312 dimer interface [polypeptide binding]; other site 491952008313 tetratricopeptide repeat protein; Provisional; Region: PRK11788 491952008314 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 491952008315 binding surface 491952008316 TPR motif; other site 491952008317 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 491952008318 binding surface 491952008319 TPR motif; other site 491952008320 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 491952008321 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 491952008322 IHF dimer interface [polypeptide binding]; other site 491952008323 IHF - DNA interface [nucleotide binding]; other site 491952008324 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 491952008325 dimer interface [polypeptide binding]; other site 491952008326 substrate binding site [chemical binding]; other site 491952008327 metal binding sites [ion binding]; metal-binding site 491952008328 thioredoxin reductase; Provisional; Region: PRK10262 491952008329 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 491952008330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 491952008331 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 491952008332 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 491952008333 ATP binding site [chemical binding]; other site 491952008334 substrate interface [chemical binding]; other site 491952008335 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 491952008336 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952008337 substrate binding site [chemical binding]; other site 491952008338 ATP binding site [chemical binding]; other site 491952008339 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 491952008340 putative CheA interaction surface; other site 491952008341 Tim44-like domain; Region: Tim44; pfam04280 491952008342 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 491952008343 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 491952008344 active site 491952008345 HIGH motif; other site 491952008346 dimer interface [polypeptide binding]; other site 491952008347 KMSKS motif; other site 491952008348 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 491952008349 AAA domain; Region: AAA_30; pfam13604 491952008350 Family description; Region: UvrD_C_2; pfam13538 491952008351 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 491952008352 Family description; Region: UvrD_C_2; pfam13538 491952008353 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 491952008354 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 491952008355 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 491952008356 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 491952008357 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 491952008358 OsmC-like protein; Region: OsmC; cl00767 491952008359 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 491952008360 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 491952008361 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 491952008362 putative active site [active] 491952008363 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 491952008364 putative active site [active] 491952008365 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 491952008366 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 491952008367 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 491952008368 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 491952008369 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 491952008370 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 491952008371 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 491952008372 active site 491952008373 SAM binding site [chemical binding]; other site 491952008374 homodimer interface [polypeptide binding]; other site 491952008375 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 491952008376 active site 491952008377 SAM binding site [chemical binding]; other site 491952008378 homodimer interface [polypeptide binding]; other site 491952008379 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 491952008380 riboflavin synthase subunit beta; Provisional; Region: PRK12419 491952008381 active site 491952008382 homopentamer interface [polypeptide binding]; other site 491952008383 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 491952008384 Protein of unknown function (DUF2496); Region: DUF2496; cl11670 491952008385 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 491952008386 TMAO/DMSO reductase; Reviewed; Region: PRK05363 491952008387 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 491952008388 Moco binding site; other site 491952008389 metal coordination site [ion binding]; other site 491952008390 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 491952008391 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 491952008392 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 491952008393 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 491952008394 inhibitor-cofactor binding pocket; inhibition site 491952008395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008396 catalytic residue [active] 491952008397 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 491952008398 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 491952008399 Cl- selectivity filter; other site 491952008400 Cl- binding residues [ion binding]; other site 491952008401 pore gating glutamate residue; other site 491952008402 dimer interface [polypeptide binding]; other site 491952008403 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 491952008404 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 491952008405 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952008406 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 491952008407 putative DNA binding site [nucleotide binding]; other site 491952008408 putative Zn2+ binding site [ion binding]; other site 491952008409 AsnC family; Region: AsnC_trans_reg; pfam01037 491952008410 putative transporter; Provisional; Region: PRK11021 491952008411 S-ribosylhomocysteinase; Provisional; Region: PRK02260 491952008412 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952008413 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 491952008414 EamA-like transporter family; Region: EamA; pfam00892 491952008415 EamA-like transporter family; Region: EamA; pfam00892 491952008416 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952008417 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 491952008418 putative DNA binding site [nucleotide binding]; other site 491952008419 putative Zn2+ binding site [ion binding]; other site 491952008420 AsnC family; Region: AsnC_trans_reg; pfam01037 491952008421 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 491952008422 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 491952008423 putative valine binding site [chemical binding]; other site 491952008424 dimer interface [polypeptide binding]; other site 491952008425 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 491952008426 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 491952008427 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 491952008428 PYR/PP interface [polypeptide binding]; other site 491952008429 dimer interface [polypeptide binding]; other site 491952008430 TPP binding site [chemical binding]; other site 491952008431 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 491952008432 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 491952008433 TPP-binding site [chemical binding]; other site 491952008434 dimer interface [polypeptide binding]; other site 491952008435 conserved hypothetical protein; Region: TIGR03492 491952008436 epoxyqueuosine reductase; Region: TIGR00276 491952008437 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 491952008438 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 491952008439 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 491952008440 active site 491952008441 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 491952008442 catalytic triad [active] 491952008443 dimer interface [polypeptide binding]; other site 491952008444 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 491952008445 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 491952008446 FeS/SAM binding site; other site 491952008447 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 491952008448 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 491952008449 MPT binding site; other site 491952008450 trimer interface [polypeptide binding]; other site 491952008451 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 491952008452 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 491952008453 dimer interface [polypeptide binding]; other site 491952008454 putative functional site; other site 491952008455 putative MPT binding site; other site 491952008456 Protein of unknown function DUF86; Region: DUF86; cl01031 491952008457 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952008458 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952008459 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 491952008460 substrate binding pocket [chemical binding]; other site 491952008461 dimerization interface [polypeptide binding]; other site 491952008462 phosphoserine phosphatase SerB; Region: serB; TIGR00338 491952008463 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491952008464 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 491952008465 cyclase homology domain; Region: CHD; cd07302 491952008466 nucleotidyl binding site; other site 491952008467 metal binding site [ion binding]; metal-binding site 491952008468 dimer interface [polypeptide binding]; other site 491952008469 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 491952008470 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491952008471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952008472 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491952008473 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 491952008474 DNA binding residues [nucleotide binding] 491952008475 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 491952008476 Peptidase family M23; Region: Peptidase_M23; pfam01551 491952008477 Domain of unknown function (DUF368); Region: DUF368; pfam04018 491952008478 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 491952008479 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 491952008480 S-adenosylmethionine binding site [chemical binding]; other site 491952008481 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 491952008482 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 491952008483 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 491952008484 Permutation of conserved domain; other site 491952008485 active site 491952008486 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 491952008487 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 491952008488 homotrimer interaction site [polypeptide binding]; other site 491952008489 zinc binding site [ion binding]; other site 491952008490 CDP-binding sites; other site 491952008491 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 491952008492 substrate binding site; other site 491952008493 dimer interface; other site 491952008494 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 491952008495 Septum formation initiator; Region: DivIC; cl17659 491952008496 enolase; Provisional; Region: eno; PRK00077 491952008497 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 491952008498 dimer interface [polypeptide binding]; other site 491952008499 metal binding site [ion binding]; metal-binding site 491952008500 substrate binding pocket [chemical binding]; other site 491952008501 CTP synthetase; Validated; Region: pyrG; PRK05380 491952008502 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 491952008503 Catalytic site [active] 491952008504 active site 491952008505 UTP binding site [chemical binding]; other site 491952008506 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 491952008507 active site 491952008508 putative oxyanion hole; other site 491952008509 catalytic triad [active] 491952008510 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 491952008511 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 491952008512 FMN-binding pocket [chemical binding]; other site 491952008513 flavin binding motif; other site 491952008514 phosphate binding motif [ion binding]; other site 491952008515 beta-alpha-beta structure motif; other site 491952008516 NAD binding pocket [chemical binding]; other site 491952008517 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 491952008518 catalytic loop [active] 491952008519 iron binding site [ion binding]; other site 491952008520 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 491952008521 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 491952008522 iron-sulfur cluster [ion binding]; other site 491952008523 [2Fe-2S] cluster binding site [ion binding]; other site 491952008524 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 491952008525 alpha subunit interface [polypeptide binding]; other site 491952008526 active site 491952008527 substrate binding site [chemical binding]; other site 491952008528 Fe binding site [ion binding]; other site 491952008529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952008530 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 491952008531 DNA-binding site [nucleotide binding]; DNA binding site 491952008532 FCD domain; Region: FCD; pfam07729 491952008533 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 491952008534 active site 491952008535 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 491952008536 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 491952008537 Ligand Binding Site [chemical binding]; other site 491952008538 TilS substrate binding domain; Region: TilS; pfam09179 491952008539 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 491952008540 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 491952008541 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 491952008542 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 491952008543 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 491952008544 putative active site [active] 491952008545 putative PHP Thumb interface [polypeptide binding]; other site 491952008546 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 491952008547 generic binding surface II; other site 491952008548 generic binding surface I; other site 491952008549 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 491952008550 RNA/DNA hybrid binding site [nucleotide binding]; other site 491952008551 active site 491952008552 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 491952008553 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 491952008554 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 491952008555 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 491952008556 active site 491952008557 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 491952008558 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 491952008559 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 491952008560 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 491952008561 trimer interface [polypeptide binding]; other site 491952008562 active site 491952008563 UDP-GlcNAc binding site [chemical binding]; other site 491952008564 lipid binding site [chemical binding]; lipid-binding site 491952008565 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 491952008566 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 491952008567 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491952008568 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491952008569 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491952008570 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 491952008571 Surface antigen; Region: Bac_surface_Ag; pfam01103 491952008572 zinc metallopeptidase RseP; Provisional; Region: PRK10779 491952008573 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 491952008574 active site 491952008575 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 491952008576 protein binding site [polypeptide binding]; other site 491952008577 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 491952008578 protein binding site [polypeptide binding]; other site 491952008579 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 491952008580 putative substrate binding region [chemical binding]; other site 491952008581 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 491952008582 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 491952008583 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 491952008584 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 491952008585 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 491952008586 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 491952008587 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 491952008588 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 491952008589 catalytic residue [active] 491952008590 putative FPP diphosphate binding site; other site 491952008591 putative FPP binding hydrophobic cleft; other site 491952008592 dimer interface [polypeptide binding]; other site 491952008593 putative IPP diphosphate binding site; other site 491952008594 ribosome recycling factor; Reviewed; Region: frr; PRK00083 491952008595 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 491952008596 hinge region; other site 491952008597 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 491952008598 putative nucleotide binding site [chemical binding]; other site 491952008599 uridine monophosphate binding site [chemical binding]; other site 491952008600 homohexameric interface [polypeptide binding]; other site 491952008601 elongation factor Ts; Provisional; Region: tsf; PRK09377 491952008602 UBA/TS-N domain; Region: UBA; pfam00627 491952008603 Elongation factor TS; Region: EF_TS; pfam00889 491952008604 Elongation factor TS; Region: EF_TS; pfam00889 491952008605 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 491952008606 rRNA interaction site [nucleotide binding]; other site 491952008607 S8 interaction site; other site 491952008608 putative laminin-1 binding site; other site 491952008609 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 491952008610 active site 491952008611 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 491952008612 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491952008613 metal binding triad; other site 491952008614 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 491952008615 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952008616 Zn2+ binding site [ion binding]; other site 491952008617 Mg2+ binding site [ion binding]; other site 491952008618 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 491952008619 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 491952008620 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 491952008621 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 491952008622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008623 homodimer interface [polypeptide binding]; other site 491952008624 catalytic residue [active] 491952008625 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 491952008626 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 491952008627 putative trimer interface [polypeptide binding]; other site 491952008628 putative CoA binding site [chemical binding]; other site 491952008629 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 491952008630 ArsC family; Region: ArsC; pfam03960 491952008631 putative catalytic residues [active] 491952008632 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 491952008633 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 491952008634 metal binding site [ion binding]; metal-binding site 491952008635 dimer interface [polypeptide binding]; other site 491952008636 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 491952008637 tetramerization interface [polypeptide binding]; other site 491952008638 active site 491952008639 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 491952008640 dimer interface [polypeptide binding]; other site 491952008641 catalytic triad [active] 491952008642 peroxidatic and resolving cysteines [active] 491952008643 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 491952008644 DNA-binding site [nucleotide binding]; DNA binding site 491952008645 RNA-binding motif; other site 491952008646 SlyX; Region: SlyX; pfam04102 491952008647 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 491952008648 Bacitracin resistance protein BacA; Region: BacA; pfam02673 491952008649 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 491952008650 Glycoprotease family; Region: Peptidase_M22; pfam00814 491952008651 adenylate kinase; Reviewed; Region: adk; PRK00279 491952008652 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 491952008653 AMP-binding site [chemical binding]; other site 491952008654 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 491952008655 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 491952008656 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 491952008657 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 491952008658 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 491952008659 homodimer interface [polypeptide binding]; other site 491952008660 metal binding site [ion binding]; metal-binding site 491952008661 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 491952008662 homodimer interface [polypeptide binding]; other site 491952008663 active site 491952008664 putative chemical substrate binding site [chemical binding]; other site 491952008665 metal binding site [ion binding]; metal-binding site 491952008666 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 491952008667 HD domain; Region: HD_4; pfam13328 491952008668 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491952008669 synthetase active site [active] 491952008670 NTP binding site [chemical binding]; other site 491952008671 metal binding site [ion binding]; metal-binding site 491952008672 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 491952008673 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 491952008674 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 491952008675 TRAM domain; Region: TRAM; pfam01938 491952008676 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 491952008677 S-adenosylmethionine binding site [chemical binding]; other site 491952008678 cysteine synthase B; Region: cysM; TIGR01138 491952008679 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 491952008680 dimer interface [polypeptide binding]; other site 491952008681 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008682 catalytic residue [active] 491952008683 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 491952008684 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 491952008685 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 491952008686 dimer interface [polypeptide binding]; other site 491952008687 phosphorylation site [posttranslational modification] 491952008688 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 491952008689 ATP binding site [chemical binding]; other site 491952008690 Mg2+ binding site [ion binding]; other site 491952008691 G-X-G motif; other site 491952008692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952008693 active site 491952008694 phosphorylation site [posttranslational modification] 491952008695 intermolecular recognition site; other site 491952008696 dimerization interface [polypeptide binding]; other site 491952008697 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 491952008698 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 491952008699 Recombination protein O N terminal; Region: RecO_N; pfam11967 491952008700 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 491952008701 Recombination protein O C terminal; Region: RecO_C; pfam02565 491952008702 GTPase Era; Reviewed; Region: era; PRK00089 491952008703 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 491952008704 G1 box; other site 491952008705 GTP/Mg2+ binding site [chemical binding]; other site 491952008706 Switch I region; other site 491952008707 G2 box; other site 491952008708 Switch II region; other site 491952008709 G3 box; other site 491952008710 G4 box; other site 491952008711 G5 box; other site 491952008712 KH domain; Region: KH_2; pfam07650 491952008713 ribonuclease III; Reviewed; Region: rnc; PRK00102 491952008714 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 491952008715 dimerization interface [polypeptide binding]; other site 491952008716 active site 491952008717 metal binding site [ion binding]; metal-binding site 491952008718 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 491952008719 dsRNA binding site [nucleotide binding]; other site 491952008720 signal peptidase I; Provisional; Region: PRK10861 491952008721 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 491952008722 Catalytic site [active] 491952008723 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 491952008724 GTP-binding protein LepA; Provisional; Region: PRK05433 491952008725 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 491952008726 G1 box; other site 491952008727 putative GEF interaction site [polypeptide binding]; other site 491952008728 GTP/Mg2+ binding site [chemical binding]; other site 491952008729 Switch I region; other site 491952008730 G2 box; other site 491952008731 G3 box; other site 491952008732 Switch II region; other site 491952008733 G4 box; other site 491952008734 G5 box; other site 491952008735 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 491952008736 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 491952008737 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 491952008738 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 491952008739 Lumazine binding domain; Region: Lum_binding; pfam00677 491952008740 Lumazine binding domain; Region: Lum_binding; pfam00677 491952008741 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 491952008742 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 491952008743 ligand binding site; other site 491952008744 oligomer interface; other site 491952008745 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 491952008746 dimer interface [polypeptide binding]; other site 491952008747 N-terminal domain interface [polypeptide binding]; other site 491952008748 sulfate 1 binding site; other site 491952008749 glycogen synthase; Provisional; Region: glgA; PRK00654 491952008750 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 491952008751 ADP-binding pocket [chemical binding]; other site 491952008752 homodimer interface [polypeptide binding]; other site 491952008753 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 491952008754 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952008755 substrate binding pocket [chemical binding]; other site 491952008756 membrane-bound complex binding site; other site 491952008757 hinge residues; other site 491952008758 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 491952008759 Transglycosylase; Region: Transgly; pfam00912 491952008760 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 491952008761 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 491952008762 iron-sulfur cluster [ion binding]; other site 491952008763 [2Fe-2S] cluster binding site [ion binding]; other site 491952008764 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 491952008765 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491952008766 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491952008767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952008768 dimer interface [polypeptide binding]; other site 491952008769 conserved gate region; other site 491952008770 putative PBP binding loops; other site 491952008771 ABC-ATPase subunit interface; other site 491952008772 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 491952008773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952008774 Walker A/P-loop; other site 491952008775 ATP binding site [chemical binding]; other site 491952008776 Q-loop/lid; other site 491952008777 ABC transporter signature motif; other site 491952008778 Walker B; other site 491952008779 D-loop; other site 491952008780 H-loop/switch region; other site 491952008781 TOBE domain; Region: TOBE; pfam03459 491952008782 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 491952008783 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 491952008784 MarR family; Region: MarR_2; pfam12802 491952008785 MarR family; Region: MarR_2; cl17246 491952008786 OmpW family; Region: OmpW; cl17427 491952008787 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491952008788 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 491952008789 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952008790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952008791 metal binding site [ion binding]; metal-binding site 491952008792 active site 491952008793 I-site; other site 491952008794 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952008795 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 491952008796 dimer interface [polypeptide binding]; other site 491952008797 phosphorylation site [posttranslational modification] 491952008798 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 491952008799 ATP binding site [chemical binding]; other site 491952008800 Mg2+ binding site [ion binding]; other site 491952008801 G-X-G motif; other site 491952008802 Response regulator receiver domain; Region: Response_reg; pfam00072 491952008803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952008804 active site 491952008805 phosphorylation site [posttranslational modification] 491952008806 intermolecular recognition site; other site 491952008807 dimerization interface [polypeptide binding]; other site 491952008808 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 491952008809 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 491952008810 tetramer interface [polypeptide binding]; other site 491952008811 active site 491952008812 Mg2+/Mn2+ binding site [ion binding]; other site 491952008813 isocitrate lyase; Region: PLN02892 491952008814 malate synthase G; Provisional; Region: PRK02999 491952008815 active site 491952008816 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 491952008817 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 491952008818 non-specific DNA binding site [nucleotide binding]; other site 491952008819 salt bridge; other site 491952008820 sequence-specific DNA binding site [nucleotide binding]; other site 491952008821 Domain of unknown function (DUF955); Region: DUF955; cl01076 491952008822 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 491952008823 ribose-phosphate pyrophosphokinase; Region: PLN02369 491952008824 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 491952008825 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952008826 active site 491952008827 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 491952008828 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 491952008829 aspartate racemase; Region: asp_race; TIGR00035 491952008830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491952008831 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 491952008832 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952008833 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952008834 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_9; cd08479 491952008835 putative effector binding pocket; other site 491952008836 putative dimerization interface [polypeptide binding]; other site 491952008837 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 491952008838 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 491952008839 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 491952008840 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 491952008841 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952008842 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952008843 metal binding site [ion binding]; metal-binding site 491952008844 active site 491952008845 I-site; other site 491952008846 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 491952008847 aspartate kinase; Validated; Region: PRK09181 491952008848 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 491952008849 putative catalytic residues [active] 491952008850 putative nucleotide binding site [chemical binding]; other site 491952008851 putative aspartate binding site [chemical binding]; other site 491952008852 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 491952008853 allosteric regulatory residue; other site 491952008854 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 491952008855 Ectoine synthase; Region: Ectoine_synth; pfam06339 491952008856 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 491952008857 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 491952008858 inhibitor-cofactor binding pocket; inhibition site 491952008859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008860 catalytic residue [active] 491952008861 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952008862 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491952008863 Coenzyme A binding pocket [chemical binding]; other site 491952008864 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 491952008865 Na2 binding site [ion binding]; other site 491952008866 putative substrate binding site 1 [chemical binding]; other site 491952008867 Na binding site 1 [ion binding]; other site 491952008868 putative substrate binding site 2 [chemical binding]; other site 491952008869 Predicted membrane protein [Function unknown]; Region: COG3205 491952008870 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 491952008871 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 491952008872 DNA binding residues [nucleotide binding] 491952008873 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 491952008874 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952008875 Protein of unknown function (DUF523); Region: DUF523; pfam04463 491952008876 Uncharacterized conserved protein [Function unknown]; Region: COG3272 491952008877 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 491952008878 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 491952008879 DNA photolyase; Region: DNA_photolyase; pfam00875 491952008880 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491952008881 MarR family; Region: MarR_2; pfam12802 491952008882 dihydrodipicolinate reductase; Provisional; Region: PRK00048 491952008883 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 491952008884 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 491952008885 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 491952008886 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 491952008887 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 491952008888 ligand binding site [chemical binding]; other site 491952008889 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 491952008890 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 491952008891 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 491952008892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491952008893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491952008894 substrate binding pocket [chemical binding]; other site 491952008895 chain length determination region; other site 491952008896 substrate-Mg2+ binding site; other site 491952008897 catalytic residues [active] 491952008898 aspartate-rich region 1; other site 491952008899 active site lid residues [active] 491952008900 aspartate-rich region 2; other site 491952008901 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 491952008902 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 491952008903 TPP-binding site; other site 491952008904 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 491952008905 PYR/PP interface [polypeptide binding]; other site 491952008906 dimer interface [polypeptide binding]; other site 491952008907 TPP binding site [chemical binding]; other site 491952008908 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491952008909 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 491952008910 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 491952008911 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 491952008912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952008913 dimer interface [polypeptide binding]; other site 491952008914 conserved gate region; other site 491952008915 putative PBP binding loops; other site 491952008916 ABC-ATPase subunit interface; other site 491952008917 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 491952008918 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 491952008919 Walker A/P-loop; other site 491952008920 ATP binding site [chemical binding]; other site 491952008921 Q-loop/lid; other site 491952008922 ABC transporter signature motif; other site 491952008923 Walker B; other site 491952008924 D-loop; other site 491952008925 H-loop/switch region; other site 491952008926 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 491952008927 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 491952008928 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 491952008929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008930 homodimer interface [polypeptide binding]; other site 491952008931 catalytic residue [active] 491952008932 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 491952008933 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 491952008934 dimer interface [polypeptide binding]; other site 491952008935 putative anticodon binding site; other site 491952008936 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 491952008937 motif 1; other site 491952008938 active site 491952008939 motif 2; other site 491952008940 motif 3; other site 491952008941 peptide chain release factor 2; Validated; Region: prfB; PRK00578 491952008942 This domain is found in peptide chain release factors; Region: PCRF; smart00937 491952008943 RF-1 domain; Region: RF-1; pfam00472 491952008944 Cell division protein ZapA; Region: ZapA; pfam05164 491952008945 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 491952008946 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 491952008947 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 491952008948 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 491952008949 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 491952008950 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 491952008951 Ligand binding site; other site 491952008952 oligomer interface; other site 491952008953 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 491952008954 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 491952008955 active site 491952008956 motif I; other site 491952008957 motif II; other site 491952008958 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 491952008959 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 491952008960 KpsF/GutQ family protein; Region: kpsF; TIGR00393 491952008961 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 491952008962 putative active site [active] 491952008963 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 491952008964 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 491952008965 intersubunit interface [polypeptide binding]; other site 491952008966 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 491952008967 metal binding site [ion binding]; metal-binding site 491952008968 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 491952008969 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 491952008970 putative active site [active] 491952008971 Zn binding site [ion binding]; other site 491952008972 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 491952008973 nudix motif; other site 491952008974 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 491952008975 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 491952008976 substrate binding site [chemical binding]; other site 491952008977 active site 491952008978 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 491952008979 Nitrogen regulatory protein P-II; Region: P-II; smart00938 491952008980 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 491952008981 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 491952008982 conserved cys residue [active] 491952008983 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952008984 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952008985 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 491952008986 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 491952008987 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 491952008988 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 491952008989 inhibitor-cofactor binding pocket; inhibition site 491952008990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952008991 catalytic residue [active] 491952008992 microcin B17 transporter; Reviewed; Region: PRK11098 491952008993 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 491952008994 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491952008995 metal binding triad; other site 491952008996 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 491952008997 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491952008998 metal binding triad; other site 491952008999 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 491952009000 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 491952009001 putative active site [active] 491952009002 putative metal binding residues [ion binding]; other site 491952009003 signature motif; other site 491952009004 putative triphosphate binding site [ion binding]; other site 491952009005 acetylornithine deacetylase; Provisional; Region: PRK05111 491952009006 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 491952009007 metal binding site [ion binding]; metal-binding site 491952009008 putative dimer interface [polypeptide binding]; other site 491952009009 N-acetylglutamate synthase; Validated; Region: PRK05279 491952009010 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 491952009011 putative feedback inhibition sensing region; other site 491952009012 putative nucleotide binding site [chemical binding]; other site 491952009013 putative substrate binding site [chemical binding]; other site 491952009014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952009015 Coenzyme A binding pocket [chemical binding]; other site 491952009016 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 491952009017 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 491952009018 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 491952009019 protein binding site [polypeptide binding]; other site 491952009020 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 491952009021 protein binding site [polypeptide binding]; other site 491952009022 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 491952009023 anti-sigma E factor; Provisional; Region: rseB; PRK09455 491952009024 MucB/RseB family; Region: MucB_RseB; pfam03888 491952009025 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 491952009026 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 491952009027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952009028 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 491952009029 DNA binding residues [nucleotide binding] 491952009030 L-aspartate oxidase; Provisional; Region: PRK09077 491952009031 L-aspartate oxidase; Provisional; Region: PRK06175 491952009032 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 491952009033 Uncharacterized conserved protein [Function unknown]; Region: COG2938 491952009034 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952009035 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952009036 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 491952009037 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952009038 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009039 putative PBP binding loops; other site 491952009040 dimer interface [polypeptide binding]; other site 491952009041 ABC-ATPase subunit interface; other site 491952009042 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952009043 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009044 dimer interface [polypeptide binding]; other site 491952009045 conserved gate region; other site 491952009046 putative PBP binding loops; other site 491952009047 ABC-ATPase subunit interface; other site 491952009048 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952009049 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952009050 Walker A/P-loop; other site 491952009051 ATP binding site [chemical binding]; other site 491952009052 Q-loop/lid; other site 491952009053 ABC transporter signature motif; other site 491952009054 Walker B; other site 491952009055 D-loop; other site 491952009056 H-loop/switch region; other site 491952009057 TOBE domain; Region: TOBE_2; pfam08402 491952009058 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 491952009059 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 491952009060 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 491952009061 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491952009062 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952009063 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952009064 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952009065 putative global regulator; Reviewed; Region: PRK09559 491952009066 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 491952009067 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 491952009068 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 491952009069 ligand binding site [chemical binding]; other site 491952009070 active site 491952009071 UGI interface [polypeptide binding]; other site 491952009072 catalytic site [active] 491952009073 Phosphotransferase enzyme family; Region: APH; pfam01636 491952009074 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 491952009075 active site 491952009076 substrate binding site [chemical binding]; other site 491952009077 ATP binding site [chemical binding]; other site 491952009078 dimer interface [polypeptide binding]; other site 491952009079 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 491952009080 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491952009081 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 491952009082 putative active site [active] 491952009083 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 491952009084 Na binding site [ion binding]; other site 491952009085 phosphogluconate dehydratase; Validated; Region: PRK09054 491952009086 6-phosphogluconate dehydratase; Region: edd; TIGR01196 491952009087 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 491952009088 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 491952009089 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491952009090 pyruvate kinase; Provisional; Region: PRK05826 491952009091 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 491952009092 domain interfaces; other site 491952009093 active site 491952009094 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 491952009095 active site 491952009096 dimer interfaces [polypeptide binding]; other site 491952009097 catalytic residues [active] 491952009098 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 491952009099 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 491952009100 ATP-grasp domain; Region: ATP-grasp; pfam02222 491952009101 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 491952009102 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 491952009103 putative DNA binding site [nucleotide binding]; other site 491952009104 putative Zn2+ binding site [ion binding]; other site 491952009105 AsnC family; Region: AsnC_trans_reg; pfam01037 491952009106 Methyltransferase domain; Region: Methyltransf_32; pfam13679 491952009107 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 491952009108 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 491952009109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952009110 homodimer interface [polypeptide binding]; other site 491952009111 catalytic residue [active] 491952009112 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 491952009113 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 491952009114 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 491952009115 Mg2+ binding site [ion binding]; other site 491952009116 G-X-G motif; other site 491952009117 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 491952009118 anchoring element; other site 491952009119 dimer interface [polypeptide binding]; other site 491952009120 ATP binding site [chemical binding]; other site 491952009121 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 491952009122 active site 491952009123 metal binding site [ion binding]; metal-binding site 491952009124 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 491952009125 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 491952009126 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 491952009127 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 491952009128 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952009129 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 491952009130 putative acyl-acceptor binding pocket; other site 491952009131 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 491952009132 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 491952009133 dimer interface [polypeptide binding]; other site 491952009134 ADP-ribose binding site [chemical binding]; other site 491952009135 active site 491952009136 nudix motif; other site 491952009137 metal binding site [ion binding]; metal-binding site 491952009138 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 491952009139 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 491952009140 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 491952009141 NAD(P) binding site [chemical binding]; other site 491952009142 homodimer interface [polypeptide binding]; other site 491952009143 substrate binding site [chemical binding]; other site 491952009144 active site 491952009145 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 491952009146 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 491952009147 inhibitor-cofactor binding pocket; inhibition site 491952009148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952009149 catalytic residue [active] 491952009150 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 491952009151 ligand binding site; other site 491952009152 tetramer interface; other site 491952009153 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 491952009154 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 491952009155 pseudaminic acid synthase; Region: PseI; TIGR03586 491952009156 NeuB family; Region: NeuB; pfam03102 491952009157 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 491952009158 NeuB binding interface [polypeptide binding]; other site 491952009159 putative substrate binding site [chemical binding]; other site 491952009160 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 491952009161 Flagellar protein FliS; Region: FliS; cl00654 491952009162 flagellar capping protein; Reviewed; Region: fliD; PRK08032 491952009163 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 491952009164 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 491952009165 FlaG protein; Region: FlaG; pfam03646 491952009166 flagellin; Reviewed; Region: PRK08869 491952009167 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491952009168 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491952009169 flagellin; Reviewed; Region: PRK08869 491952009170 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491952009171 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 491952009172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952009173 Zn2+ binding site [ion binding]; other site 491952009174 Mg2+ binding site [ion binding]; other site 491952009175 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 491952009176 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 491952009177 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 491952009178 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491952009179 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 491952009180 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 491952009181 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 491952009182 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 491952009183 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 491952009184 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 491952009185 Flagellar L-ring protein; Region: FlgH; pfam02107 491952009186 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 491952009187 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491952009188 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491952009189 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 491952009190 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491952009191 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 491952009192 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 491952009193 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 491952009194 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 491952009195 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 491952009196 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491952009197 flagellar basal body rod modification protein; Provisional; Region: flgD; PRK12633 491952009198 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 491952009199 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 491952009200 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 491952009201 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 491952009202 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 491952009203 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 491952009204 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 491952009205 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 491952009206 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 491952009207 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 491952009208 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952009209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952009210 active site 491952009211 phosphorylation site [posttranslational modification] 491952009212 intermolecular recognition site; other site 491952009213 dimerization interface [polypeptide binding]; other site 491952009214 SAF-like; Region: SAF_2; pfam13144 491952009215 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 491952009216 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 491952009217 FlgN protein; Region: FlgN; pfam05130 491952009218 OsmC-like protein; Region: OsmC; cl00767 491952009219 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 491952009220 active site 491952009221 ribulose/triose binding site [chemical binding]; other site 491952009222 phosphate binding site [ion binding]; other site 491952009223 substrate (anthranilate) binding pocket [chemical binding]; other site 491952009224 product (indole) binding pocket [chemical binding]; other site 491952009225 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 491952009226 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 491952009227 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 491952009228 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 491952009229 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 491952009230 glutamine binding [chemical binding]; other site 491952009231 catalytic triad [active] 491952009232 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 491952009233 MgtE intracellular N domain; Region: MgtE_N; pfam03448 491952009234 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 491952009235 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491952009236 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491952009237 phosphoglycolate phosphatase; Provisional; Region: PRK13222 491952009238 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 491952009239 motif II; other site 491952009240 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 491952009241 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 491952009242 substrate binding site [chemical binding]; other site 491952009243 hexamer interface [polypeptide binding]; other site 491952009244 metal binding site [ion binding]; metal-binding site 491952009245 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 491952009246 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 491952009247 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 491952009248 putative metal binding site [ion binding]; other site 491952009249 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 491952009250 HSP70 interaction site [polypeptide binding]; other site 491952009251 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 491952009252 Organic solvent tolerance protein; Region: OstA_C; pfam04453 491952009253 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 491952009254 SurA N-terminal domain; Region: SurA_N; pfam09312 491952009255 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 491952009256 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 491952009257 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 491952009258 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 491952009259 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 491952009260 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 491952009261 S-adenosylmethionine binding site [chemical binding]; other site 491952009262 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 491952009263 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 491952009264 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 491952009265 active site 491952009266 metal binding site [ion binding]; metal-binding site 491952009267 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 491952009268 active site residue [active] 491952009269 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 491952009270 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 491952009271 active site 491952009272 NTP binding site [chemical binding]; other site 491952009273 metal binding triad [ion binding]; metal-binding site 491952009274 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 491952009275 Dihydroneopterin aldolase; Region: FolB; pfam02152 491952009276 active site 491952009277 UGMP family protein; Validated; Region: PRK09604 491952009278 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 491952009279 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 491952009280 Yqey-like protein; Region: YqeY; pfam09424 491952009281 DNA primase, catalytic core; Region: dnaG; TIGR01391 491952009282 CHC2 zinc finger; Region: zf-CHC2; pfam01807 491952009283 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 491952009284 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 491952009285 active site 491952009286 metal binding site [ion binding]; metal-binding site 491952009287 interdomain interaction site; other site 491952009288 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 491952009289 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 491952009290 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 491952009291 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491952009292 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 491952009293 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952009294 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 491952009295 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 491952009296 DNA binding residues [nucleotide binding] 491952009297 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 491952009298 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 491952009299 putative active site [active] 491952009300 PhoH-like protein; Region: PhoH; pfam02562 491952009301 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 491952009302 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 491952009303 active site 491952009304 intersubunit interface [polypeptide binding]; other site 491952009305 catalytic residue [active] 491952009306 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 491952009307 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 491952009308 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 491952009309 glucokinase; Provisional; Region: glk; PRK00292 491952009310 glucokinase, proteobacterial type; Region: glk; TIGR00749 491952009311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952009312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952009313 metal binding site [ion binding]; metal-binding site 491952009314 active site 491952009315 I-site; other site 491952009316 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 491952009317 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 491952009318 LPP20 lipoprotein; Region: LPP20; pfam02169 491952009319 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 491952009320 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 491952009321 RNase E interface [polypeptide binding]; other site 491952009322 trimer interface [polypeptide binding]; other site 491952009323 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 491952009324 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 491952009325 RNase E interface [polypeptide binding]; other site 491952009326 trimer interface [polypeptide binding]; other site 491952009327 active site 491952009328 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 491952009329 putative nucleic acid binding region [nucleotide binding]; other site 491952009330 G-X-X-G motif; other site 491952009331 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 491952009332 RNA binding site [nucleotide binding]; other site 491952009333 domain interface; other site 491952009334 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 491952009335 16S/18S rRNA binding site [nucleotide binding]; other site 491952009336 S13e-L30e interaction site [polypeptide binding]; other site 491952009337 25S rRNA binding site [nucleotide binding]; other site 491952009338 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 491952009339 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 491952009340 RNA binding site [nucleotide binding]; other site 491952009341 active site 491952009342 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 491952009343 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 491952009344 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 491952009345 translation initiation factor IF-2; Region: IF-2; TIGR00487 491952009346 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 491952009347 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 491952009348 G1 box; other site 491952009349 putative GEF interaction site [polypeptide binding]; other site 491952009350 GTP/Mg2+ binding site [chemical binding]; other site 491952009351 Switch I region; other site 491952009352 G2 box; other site 491952009353 G3 box; other site 491952009354 Switch II region; other site 491952009355 G4 box; other site 491952009356 G5 box; other site 491952009357 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 491952009358 Translation-initiation factor 2; Region: IF-2; pfam11987 491952009359 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 491952009360 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 491952009361 NusA N-terminal domain; Region: NusA_N; pfam08529 491952009362 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 491952009363 RNA binding site [nucleotide binding]; other site 491952009364 homodimer interface [polypeptide binding]; other site 491952009365 NusA-like KH domain; Region: KH_5; pfam13184 491952009366 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 491952009367 G-X-X-G motif; other site 491952009368 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 491952009369 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 491952009370 ribosome maturation protein RimP; Reviewed; Region: PRK00092 491952009371 Sm and related proteins; Region: Sm_like; cl00259 491952009372 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 491952009373 putative oligomer interface [polypeptide binding]; other site 491952009374 putative RNA binding site [nucleotide binding]; other site 491952009375 triosephosphate isomerase; Provisional; Region: PRK14567 491952009376 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 491952009377 substrate binding site [chemical binding]; other site 491952009378 dimer interface [polypeptide binding]; other site 491952009379 catalytic triad [active] 491952009380 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 491952009381 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 491952009382 active site 491952009383 substrate binding site [chemical binding]; other site 491952009384 metal binding site [ion binding]; metal-binding site 491952009385 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 491952009386 dihydropteroate synthase; Region: DHPS; TIGR01496 491952009387 substrate binding pocket [chemical binding]; other site 491952009388 dimer interface [polypeptide binding]; other site 491952009389 inhibitor binding site; inhibition site 491952009390 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 491952009391 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 491952009392 Walker A motif; other site 491952009393 ATP binding site [chemical binding]; other site 491952009394 Walker B motif; other site 491952009395 arginine finger; other site 491952009396 Peptidase family M41; Region: Peptidase_M41; pfam01434 491952009397 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 491952009398 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 491952009399 S-adenosylmethionine binding site [chemical binding]; other site 491952009400 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 491952009401 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 491952009402 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 491952009403 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 491952009404 G1 box; other site 491952009405 putative GEF interaction site [polypeptide binding]; other site 491952009406 GTP/Mg2+ binding site [chemical binding]; other site 491952009407 Switch I region; other site 491952009408 G2 box; other site 491952009409 G3 box; other site 491952009410 Switch II region; other site 491952009411 G4 box; other site 491952009412 G5 box; other site 491952009413 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 491952009414 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 491952009415 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952009416 Walker A/P-loop; other site 491952009417 ATP binding site [chemical binding]; other site 491952009418 Q-loop/lid; other site 491952009419 ABC transporter signature motif; other site 491952009420 Walker B; other site 491952009421 D-loop; other site 491952009422 H-loop/switch region; other site 491952009423 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 491952009424 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 491952009425 siderophore binding site; other site 491952009426 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491952009427 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 491952009428 ABC-ATPase subunit interface; other site 491952009429 dimer interface [polypeptide binding]; other site 491952009430 putative PBP binding regions; other site 491952009431 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 491952009432 ABC-ATPase subunit interface; other site 491952009433 dimer interface [polypeptide binding]; other site 491952009434 putative PBP binding regions; other site 491952009435 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 491952009436 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 491952009437 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 491952009438 ATP binding site [chemical binding]; other site 491952009439 Mg2+ binding site [ion binding]; other site 491952009440 G-X-G motif; other site 491952009441 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491952009442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952009443 active site 491952009444 phosphorylation site [posttranslational modification] 491952009445 intermolecular recognition site; other site 491952009446 dimerization interface [polypeptide binding]; other site 491952009447 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 491952009448 Walker A motif; other site 491952009449 ATP binding site [chemical binding]; other site 491952009450 Walker B motif; other site 491952009451 arginine finger; other site 491952009452 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952009453 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 491952009454 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 491952009455 substrate binding pocket [chemical binding]; other site 491952009456 membrane-bound complex binding site; other site 491952009457 hinge residues; other site 491952009458 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 491952009459 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 491952009460 Walker A/P-loop; other site 491952009461 ATP binding site [chemical binding]; other site 491952009462 Q-loop/lid; other site 491952009463 ABC transporter signature motif; other site 491952009464 Walker B; other site 491952009465 D-loop; other site 491952009466 H-loop/switch region; other site 491952009467 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 491952009468 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952009469 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 491952009470 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009471 dimer interface [polypeptide binding]; other site 491952009472 conserved gate region; other site 491952009473 ABC-ATPase subunit interface; other site 491952009474 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 491952009475 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 491952009476 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952009477 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952009478 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952009479 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952009480 EamA-like transporter family; Region: EamA; pfam00892 491952009481 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491952009482 EamA-like transporter family; Region: EamA; pfam00892 491952009483 FAD binding domain; Region: FAD_binding_3; pfam01494 491952009484 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952009485 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 491952009486 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 491952009487 ATP binding site [chemical binding]; other site 491952009488 Mg++ binding site [ion binding]; other site 491952009489 motif III; other site 491952009490 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 491952009491 nucleotide binding region [chemical binding]; other site 491952009492 ATP-binding site [chemical binding]; other site 491952009493 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952009494 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 491952009495 Coenzyme A binding pocket [chemical binding]; other site 491952009496 transcriptional regulator, ArgP family; Region: argP; TIGR03298 491952009497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009498 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 491952009499 putative effector binding pocket; other site 491952009500 dimerization interface [polypeptide binding]; other site 491952009501 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 491952009502 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 491952009503 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 491952009504 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 491952009505 glycyl-tRNA synthetase; Provisional; Region: PRK04173 491952009506 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 491952009507 dimer interface [polypeptide binding]; other site 491952009508 motif 1; other site 491952009509 active site 491952009510 motif 2; other site 491952009511 motif 3; other site 491952009512 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 491952009513 anticodon binding site; other site 491952009514 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 491952009515 Protein of unknown function, DUF393; Region: DUF393; pfam04134 491952009516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952009517 C factor cell-cell signaling protein; Provisional; Region: PRK09009 491952009518 NAD(P) binding site [chemical binding]; other site 491952009519 active site 491952009520 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 491952009521 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491952009522 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952009523 DNA-binding site [nucleotide binding]; DNA binding site 491952009524 FCD domain; Region: FCD; pfam07729 491952009525 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 491952009526 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 491952009527 tetramer interface [polypeptide binding]; other site 491952009528 active site 491952009529 Mg2+/Mn2+ binding site [ion binding]; other site 491952009530 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 491952009531 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 491952009532 dimer interface [polypeptide binding]; other site 491952009533 active site 491952009534 citrylCoA binding site [chemical binding]; other site 491952009535 oxalacetate/citrate binding site [chemical binding]; other site 491952009536 coenzyme A binding site [chemical binding]; other site 491952009537 catalytic triad [active] 491952009538 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 491952009539 2-methylcitrate dehydratase; Region: prpD; TIGR02330 491952009540 Cache domain; Region: Cache_2; cl07034 491952009541 HAMP domain; Region: HAMP; pfam00672 491952009542 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952009543 dimer interface [polypeptide binding]; other site 491952009544 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 491952009545 putative CheW interface [polypeptide binding]; other site 491952009546 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 491952009547 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 491952009548 Helicase; Region: Helicase_RecD; pfam05127 491952009549 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 491952009550 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952009551 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 491952009552 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 491952009553 DctM-like transporters; Region: DctM; pfam06808 491952009554 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 491952009555 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 491952009556 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 491952009557 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 491952009558 NADP binding site [chemical binding]; other site 491952009559 homodimer interface [polypeptide binding]; other site 491952009560 active site 491952009561 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952009562 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952009563 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952009564 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952009565 Walker A/P-loop; other site 491952009566 ATP binding site [chemical binding]; other site 491952009567 Q-loop/lid; other site 491952009568 ABC transporter signature motif; other site 491952009569 Walker B; other site 491952009570 D-loop; other site 491952009571 H-loop/switch region; other site 491952009572 TOBE domain; Region: TOBE_2; pfam08402 491952009573 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952009574 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009575 dimer interface [polypeptide binding]; other site 491952009576 conserved gate region; other site 491952009577 putative PBP binding loops; other site 491952009578 ABC-ATPase subunit interface; other site 491952009579 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952009580 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009581 dimer interface [polypeptide binding]; other site 491952009582 conserved gate region; other site 491952009583 putative PBP binding loops; other site 491952009584 ABC-ATPase subunit interface; other site 491952009585 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 491952009586 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 491952009587 dimer interface [polypeptide binding]; other site 491952009588 NADP binding site [chemical binding]; other site 491952009589 catalytic residues [active] 491952009590 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 491952009591 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 491952009592 putative active site [active] 491952009593 catalytic residue [active] 491952009594 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491952009595 extended (e) SDRs; Region: SDR_e; cd08946 491952009596 NAD(P) binding site [chemical binding]; other site 491952009597 active site 491952009598 substrate binding site [chemical binding]; other site 491952009599 DctM-like transporters; Region: DctM; pfam06808 491952009600 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 491952009601 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 491952009602 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952009603 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 491952009604 Transcriptional regulators [Transcription]; Region: FadR; COG2186 491952009605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952009606 DNA-binding site [nucleotide binding]; DNA binding site 491952009607 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 491952009608 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 491952009609 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 491952009610 active site pocket [active] 491952009611 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 491952009612 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 491952009613 active site 491952009614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952009615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952009616 metal binding site [ion binding]; metal-binding site 491952009617 active site 491952009618 I-site; other site 491952009619 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 491952009620 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952009621 active site 491952009622 phosphorylation site [posttranslational modification] 491952009623 intermolecular recognition site; other site 491952009624 dimerization interface [polypeptide binding]; other site 491952009625 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 491952009626 Walker A motif; other site 491952009627 ATP binding site [chemical binding]; other site 491952009628 Walker B motif; other site 491952009629 arginine finger; other site 491952009630 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952009631 PAS domain S-box; Region: sensory_box; TIGR00229 491952009632 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 491952009633 putative active site [active] 491952009634 heme pocket [chemical binding]; other site 491952009635 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 491952009636 dimer interface [polypeptide binding]; other site 491952009637 phosphorylation site [posttranslational modification] 491952009638 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 491952009639 ATP binding site [chemical binding]; other site 491952009640 Mg2+ binding site [ion binding]; other site 491952009641 G-X-G motif; other site 491952009642 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 491952009643 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 491952009644 motif 1; other site 491952009645 dimer interface [polypeptide binding]; other site 491952009646 active site 491952009647 motif 2; other site 491952009648 motif 3; other site 491952009649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952009650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009651 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491952009652 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952009653 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 491952009654 EamA-like transporter family; Region: EamA; pfam00892 491952009655 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 491952009656 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952009657 DNA-binding site [nucleotide binding]; DNA binding site 491952009658 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 491952009659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952009660 homodimer interface [polypeptide binding]; other site 491952009661 catalytic residue [active] 491952009662 Predicted membrane protein [Function unknown]; Region: COG2259 491952009663 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 491952009664 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 491952009665 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952009666 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009667 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 491952009668 dimerization interface [polypeptide binding]; other site 491952009669 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 491952009670 Prostaglandin dehydrogenases; Region: PGDH; cd05288 491952009671 NAD(P) binding site [chemical binding]; other site 491952009672 substrate binding site [chemical binding]; other site 491952009673 dimer interface [polypeptide binding]; other site 491952009674 choline dehydrogenase; Validated; Region: PRK02106 491952009675 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491952009676 elongation factor P; Validated; Region: PRK00529 491952009677 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 491952009678 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 491952009679 RNA binding site [nucleotide binding]; other site 491952009680 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 491952009681 RNA binding site [nucleotide binding]; other site 491952009682 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 491952009683 Radical SAM superfamily; Region: Radical_SAM; pfam04055 491952009684 FeS/SAM binding site; other site 491952009685 conserved hypothetical protein; Region: MG423; TIGR00649 491952009686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 491952009687 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 491952009688 Uncharacterized conserved protein [Function unknown]; Region: COG1432 491952009689 LabA_like proteins; Region: LabA; cd10911 491952009690 putative metal binding site [ion binding]; other site 491952009691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952009692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952009693 metal binding site [ion binding]; metal-binding site 491952009694 active site 491952009695 I-site; other site 491952009696 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 491952009697 Transcriptional activator HlyU; Region: HlyU; pfam10115 491952009698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952009699 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 491952009700 short chain dehydrogenase; Provisional; Region: PRK05993 491952009701 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 491952009702 NADP binding site [chemical binding]; other site 491952009703 active site 491952009704 steroid binding site; other site 491952009705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952009706 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952009707 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 491952009708 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 491952009709 HlyD family secretion protein; Region: HlyD_3; pfam13437 491952009710 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 491952009711 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 491952009712 Walker A/P-loop; other site 491952009713 ATP binding site [chemical binding]; other site 491952009714 Q-loop/lid; other site 491952009715 ABC transporter signature motif; other site 491952009716 Walker B; other site 491952009717 D-loop; other site 491952009718 H-loop/switch region; other site 491952009719 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 491952009720 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 491952009721 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 491952009722 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952009723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952009724 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 491952009725 substrate binding site [chemical binding]; other site 491952009726 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 491952009727 S-formylglutathione hydrolase; Region: PLN02442 491952009728 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 491952009729 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 491952009730 substrate binding site [chemical binding]; other site 491952009731 catalytic Zn binding site [ion binding]; other site 491952009732 NAD binding site [chemical binding]; other site 491952009733 structural Zn binding site [ion binding]; other site 491952009734 dimer interface [polypeptide binding]; other site 491952009735 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952009736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009737 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 491952009738 dimerization interface [polypeptide binding]; other site 491952009739 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 491952009740 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952009741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952009742 Coenzyme A binding pocket [chemical binding]; other site 491952009743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 491952009744 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 491952009745 Coenzyme A binding pocket [chemical binding]; other site 491952009746 fumarate hydratase; Reviewed; Region: fumC; PRK00485 491952009747 Class II fumarases; Region: Fumarase_classII; cd01362 491952009748 active site 491952009749 tetramer interface [polypeptide binding]; other site 491952009750 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 491952009751 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952009752 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 491952009753 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 491952009754 Mechanosensitive ion channel; Region: MS_channel; pfam00924 491952009755 YebG protein; Region: YebG; pfam07130 491952009756 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952009757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009758 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 491952009759 substrate binding pocket [chemical binding]; other site 491952009760 dimerization interface [polypeptide binding]; other site 491952009761 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952009762 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952009763 Walker A/P-loop; other site 491952009764 ATP binding site [chemical binding]; other site 491952009765 Q-loop/lid; other site 491952009766 ABC transporter signature motif; other site 491952009767 Walker B; other site 491952009768 D-loop; other site 491952009769 H-loop/switch region; other site 491952009770 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491952009771 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952009772 dimer interface [polypeptide binding]; other site 491952009773 conserved gate region; other site 491952009774 putative PBP binding loops; other site 491952009775 ABC-ATPase subunit interface; other site 491952009776 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 491952009777 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952009778 substrate binding pocket [chemical binding]; other site 491952009779 membrane-bound complex binding site; other site 491952009780 hinge residues; other site 491952009781 cystathionine gamma-synthase; Provisional; Region: PRK08249 491952009782 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 491952009783 homodimer interface [polypeptide binding]; other site 491952009784 substrate-cofactor binding pocket; other site 491952009785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952009786 catalytic residue [active] 491952009787 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952009788 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491952009789 DNA binding site [nucleotide binding] 491952009790 domain linker motif; other site 491952009791 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 491952009792 putative dimerization interface [polypeptide binding]; other site 491952009793 putative ligand binding site [chemical binding]; other site 491952009794 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952009795 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 491952009796 substrate binding site [chemical binding]; other site 491952009797 ATP binding site [chemical binding]; other site 491952009798 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 491952009799 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 491952009800 dimerization interface [polypeptide binding]; other site 491952009801 ligand binding site [chemical binding]; other site 491952009802 NADP binding site [chemical binding]; other site 491952009803 catalytic site [active] 491952009804 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 491952009805 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952009806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952009807 metal binding site [ion binding]; metal-binding site 491952009808 active site 491952009809 I-site; other site 491952009810 putative arabinose transporter; Provisional; Region: PRK03545 491952009811 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 491952009812 putative substrate translocation pore; other site 491952009813 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952009814 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 491952009815 dimerization interface [polypeptide binding]; other site 491952009816 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952009817 dimer interface [polypeptide binding]; other site 491952009818 putative CheW interface [polypeptide binding]; other site 491952009819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009820 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 491952009821 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 491952009822 putative dimerization interface [polypeptide binding]; other site 491952009823 ketol-acid reductoisomerase; Validated; Region: PRK05225 491952009824 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 491952009825 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 491952009826 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 491952009827 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 491952009828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952009829 ABC transporter signature motif; other site 491952009830 Walker B; other site 491952009831 D-loop; other site 491952009832 H-loop/switch region; other site 491952009833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952009834 Walker A/P-loop; other site 491952009835 ATP binding site [chemical binding]; other site 491952009836 Q-loop/lid; other site 491952009837 ABC transporter signature motif; other site 491952009838 Walker B; other site 491952009839 D-loop; other site 491952009840 H-loop/switch region; other site 491952009841 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 491952009842 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 491952009843 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 491952009844 Ligand Binding Site [chemical binding]; other site 491952009845 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 491952009846 active site residue [active] 491952009847 glutamine synthetase; Provisional; Region: glnA; PRK09469 491952009848 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 491952009849 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 491952009850 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 491952009851 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 491952009852 putative active site [active] 491952009853 heme pocket [chemical binding]; other site 491952009854 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 491952009855 dimer interface [polypeptide binding]; other site 491952009856 phosphorylation site [posttranslational modification] 491952009857 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 491952009858 ATP binding site [chemical binding]; other site 491952009859 Mg2+ binding site [ion binding]; other site 491952009860 G-X-G motif; other site 491952009861 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 491952009862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952009863 active site 491952009864 phosphorylation site [posttranslational modification] 491952009865 intermolecular recognition site; other site 491952009866 dimerization interface [polypeptide binding]; other site 491952009867 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 491952009868 Walker A motif; other site 491952009869 ATP binding site [chemical binding]; other site 491952009870 Walker B motif; other site 491952009871 arginine finger; other site 491952009872 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952009873 Protein of unknown function (DUF3461); Region: DUF3461; pfam11944 491952009874 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 491952009875 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 491952009876 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491952009877 Walker A/P-loop; other site 491952009878 ATP binding site [chemical binding]; other site 491952009879 Q-loop/lid; other site 491952009880 ABC transporter signature motif; other site 491952009881 Walker B; other site 491952009882 D-loop; other site 491952009883 H-loop/switch region; other site 491952009884 Branched-chain amino acid ATP-binding cassette transporter; Region: BCA_ABC_TP_C; pfam12399 491952009885 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 491952009886 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491952009887 Walker A/P-loop; other site 491952009888 ATP binding site [chemical binding]; other site 491952009889 Q-loop/lid; other site 491952009890 ABC transporter signature motif; other site 491952009891 Walker B; other site 491952009892 D-loop; other site 491952009893 H-loop/switch region; other site 491952009894 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 491952009895 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 491952009896 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 491952009897 TM-ABC transporter signature motif; other site 491952009898 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952009899 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 491952009900 TM-ABC transporter signature motif; other site 491952009901 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 491952009902 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 491952009903 dimerization interface [polypeptide binding]; other site 491952009904 ligand binding site [chemical binding]; other site 491952009905 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 491952009906 NodB motif; other site 491952009907 putative active site [active] 491952009908 putative catalytic site [active] 491952009909 Zn binding site [ion binding]; other site 491952009910 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 491952009911 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 491952009912 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 491952009913 protein binding site [polypeptide binding]; other site 491952009914 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 491952009915 Catalytic dyad [active] 491952009916 Haemolysin XhlA; Region: XhlA; pfam10779 491952009917 Peptidase family M23; Region: Peptidase_M23; pfam01551 491952009918 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 491952009919 phosphoglyceromutase; Provisional; Region: PRK05434 491952009920 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 491952009921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009922 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 491952009923 dimerization interface [polypeptide binding]; other site 491952009924 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491952009925 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491952009926 aldehyde dehydrogenase family 7 member; Region: PLN02315 491952009927 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 491952009928 tetrameric interface [polypeptide binding]; other site 491952009929 NAD binding site [chemical binding]; other site 491952009930 catalytic residues [active] 491952009931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952009932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952009933 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 491952009934 dimerization interface [polypeptide binding]; other site 491952009935 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 491952009936 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 491952009937 active site residue [active] 491952009938 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 491952009939 GSH binding site [chemical binding]; other site 491952009940 catalytic residues [active] 491952009941 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 491952009942 SecA binding site; other site 491952009943 Preprotein binding site; other site 491952009944 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 491952009945 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 491952009946 LPP20 lipoprotein; Region: LPP20; pfam02169 491952009947 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 491952009948 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952009949 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 491952009950 Cupin domain; Region: Cupin_2; cl17218 491952009951 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952009952 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 491952009953 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 491952009954 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952009955 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952009956 metal binding site [ion binding]; metal-binding site 491952009957 active site 491952009958 I-site; other site 491952009959 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 491952009960 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 491952009961 putative active site [active] 491952009962 putative metal binding site [ion binding]; other site 491952009963 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 491952009964 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491952009965 active site 491952009966 catalytic site [active] 491952009967 substrate binding site [chemical binding]; other site 491952009968 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 491952009969 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 491952009970 ligand binding site [chemical binding]; other site 491952009971 flexible hinge region; other site 491952009972 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 491952009973 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491952009974 metal binding triad; other site 491952009975 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 491952009976 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 491952009977 siderophore binding site; other site 491952009978 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491952009979 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 491952009980 ABC-ATPase subunit interface; other site 491952009981 dimer interface [polypeptide binding]; other site 491952009982 putative PBP binding regions; other site 491952009983 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491952009984 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 491952009985 ABC-ATPase subunit interface; other site 491952009986 dimer interface [polypeptide binding]; other site 491952009987 putative PBP binding regions; other site 491952009988 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 491952009989 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952009990 Walker A/P-loop; other site 491952009991 ATP binding site [chemical binding]; other site 491952009992 Q-loop/lid; other site 491952009993 ABC transporter signature motif; other site 491952009994 Walker B; other site 491952009995 D-loop; other site 491952009996 H-loop/switch region; other site 491952009997 Isochorismatase family; Region: Isochorismatase; pfam00857 491952009998 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 491952009999 catalytic triad [active] 491952010000 conserved cis-peptide bond; other site 491952010001 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952010002 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491952010003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010004 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952010005 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010006 diaminopimelate epimerase; Provisional; Region: PRK13577 491952010007 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491952010008 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 491952010009 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 491952010010 active site 491952010011 catalytic triad [active] 491952010012 oxyanion hole [active] 491952010013 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 491952010014 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 491952010015 glutamine binding [chemical binding]; other site 491952010016 catalytic triad [active] 491952010017 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 491952010018 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 491952010019 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 491952010020 Trp repressor protein; Region: Trp_repressor; cl17266 491952010021 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 491952010022 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 491952010023 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 491952010024 transcription termination factor Rho; Provisional; Region: rho; PRK09376 491952010025 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 491952010026 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 491952010027 RNA binding site [nucleotide binding]; other site 491952010028 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 491952010029 multimer interface [polypeptide binding]; other site 491952010030 Walker A motif; other site 491952010031 ATP binding site [chemical binding]; other site 491952010032 Walker B motif; other site 491952010033 FMN reductase; Validated; Region: fre; PRK08051 491952010034 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 491952010035 FAD binding pocket [chemical binding]; other site 491952010036 FAD binding motif [chemical binding]; other site 491952010037 phosphate binding motif [ion binding]; other site 491952010038 beta-alpha-beta structure motif; other site 491952010039 NAD binding pocket [chemical binding]; other site 491952010040 malate:quinone oxidoreductase; Validated; Region: PRK05257 491952010041 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 491952010042 FOG: CBS domain [General function prediction only]; Region: COG0517 491952010043 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 491952010044 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 491952010045 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 491952010046 dimerization interface [polypeptide binding]; other site 491952010047 domain crossover interface; other site 491952010048 redox-dependent activation switch; other site 491952010049 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 491952010050 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952010051 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952010052 ABC transporter; Region: ABC_tran_2; pfam12848 491952010053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 491952010054 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 491952010055 dimer interface [polypeptide binding]; other site 491952010056 allosteric magnesium binding site [ion binding]; other site 491952010057 active site 491952010058 aspartate-rich active site metal binding site; other site 491952010059 Schiff base residues; other site 491952010060 polyphosphate kinase; Provisional; Region: PRK05443 491952010061 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 491952010062 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 491952010063 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 491952010064 putative domain interface [polypeptide binding]; other site 491952010065 putative active site [active] 491952010066 catalytic site [active] 491952010067 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 491952010068 putative domain interface [polypeptide binding]; other site 491952010069 putative active site [active] 491952010070 catalytic site [active] 491952010071 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 491952010072 active site 491952010073 catalytic motif [active] 491952010074 Zn binding site [ion binding]; other site 491952010075 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952010076 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 491952010077 TM-ABC transporter signature motif; other site 491952010078 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952010079 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 491952010080 TM-ABC transporter signature motif; other site 491952010081 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 491952010082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952010083 Walker A/P-loop; other site 491952010084 ATP binding site [chemical binding]; other site 491952010085 Q-loop/lid; other site 491952010086 ABC transporter signature motif; other site 491952010087 Walker B; other site 491952010088 D-loop; other site 491952010089 H-loop/switch region; other site 491952010090 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952010091 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 491952010092 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 491952010093 ligand binding site [chemical binding]; other site 491952010094 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 491952010095 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 491952010096 DNA binding site [nucleotide binding] 491952010097 catalytic residue [active] 491952010098 H2TH interface [polypeptide binding]; other site 491952010099 putative catalytic residues [active] 491952010100 turnover-facilitating residue; other site 491952010101 intercalation triad [nucleotide binding]; other site 491952010102 8OG recognition residue [nucleotide binding]; other site 491952010103 putative reading head residues; other site 491952010104 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 491952010105 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491952010106 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 491952010107 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 491952010108 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 491952010109 hypothetical protein; Reviewed; Region: PRK00024 491952010110 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 491952010111 MPN+ (JAMM) motif; other site 491952010112 Zinc-binding site [ion binding]; other site 491952010113 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 491952010114 Flavoprotein; Region: Flavoprotein; pfam02441 491952010115 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 491952010116 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 491952010117 trimer interface [polypeptide binding]; other site 491952010118 active site 491952010119 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 491952010120 feedback inhibition sensing region; other site 491952010121 homohexameric interface [polypeptide binding]; other site 491952010122 nucleotide binding site [chemical binding]; other site 491952010123 N-acetyl-L-glutamate binding site [chemical binding]; other site 491952010124 division inhibitor protein; Provisional; Region: slmA; PRK09480 491952010125 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952010126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952010127 active site 491952010128 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 491952010129 putative active site [active] 491952010130 putative catalytic site [active] 491952010131 putative DNA binding site [nucleotide binding]; other site 491952010132 putative phosphate binding site [ion binding]; other site 491952010133 metal binding site A [ion binding]; metal-binding site 491952010134 putative AP binding site [nucleotide binding]; other site 491952010135 putative metal binding site B [ion binding]; other site 491952010136 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 491952010137 active site 491952010138 phosphate binding residues; other site 491952010139 catalytic residues [active] 491952010140 PAS fold; Region: PAS_4; pfam08448 491952010141 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 491952010142 putative active site [active] 491952010143 heme pocket [chemical binding]; other site 491952010144 Response regulator receiver domain; Region: Response_reg; pfam00072 491952010145 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010146 active site 491952010147 phosphorylation site [posttranslational modification] 491952010148 intermolecular recognition site; other site 491952010149 dimerization interface [polypeptide binding]; other site 491952010150 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 491952010151 CheC-like family; Region: CheC; pfam04509 491952010152 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 491952010153 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 491952010154 phosphate binding site [ion binding]; other site 491952010155 putative substrate binding pocket [chemical binding]; other site 491952010156 dimer interface [polypeptide binding]; other site 491952010157 Transcriptional regulator [Transcription]; Region: IclR; COG1414 491952010158 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 491952010159 Bacterial transcriptional regulator; Region: IclR; pfam01614 491952010160 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 491952010161 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 491952010162 active site 491952010163 motif I; other site 491952010164 motif II; other site 491952010165 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 491952010166 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 491952010167 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 491952010168 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 491952010169 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 491952010170 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 491952010171 putative active site [active] 491952010172 catalytic site [active] 491952010173 putative metal binding site [ion binding]; other site 491952010174 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952010175 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952010176 Walker A/P-loop; other site 491952010177 ATP binding site [chemical binding]; other site 491952010178 Q-loop/lid; other site 491952010179 ABC transporter signature motif; other site 491952010180 Walker B; other site 491952010181 D-loop; other site 491952010182 H-loop/switch region; other site 491952010183 TOBE domain; Region: TOBE_2; pfam08402 491952010184 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952010185 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010186 dimer interface [polypeptide binding]; other site 491952010187 conserved gate region; other site 491952010188 putative PBP binding loops; other site 491952010189 ABC-ATPase subunit interface; other site 491952010190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010191 dimer interface [polypeptide binding]; other site 491952010192 conserved gate region; other site 491952010193 putative PBP binding loops; other site 491952010194 ABC-ATPase subunit interface; other site 491952010195 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952010196 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491952010197 tetratricopeptide repeat protein; Provisional; Region: PRK11788 491952010198 MASE1; Region: MASE1; pfam05231 491952010199 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 491952010200 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952010201 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 491952010202 dimer interface [polypeptide binding]; other site 491952010203 phosphorylation site [posttranslational modification] 491952010204 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 491952010205 ATP binding site [chemical binding]; other site 491952010206 Mg2+ binding site [ion binding]; other site 491952010207 G-X-G motif; other site 491952010208 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952010209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010210 active site 491952010211 phosphorylation site [posttranslational modification] 491952010212 intermolecular recognition site; other site 491952010213 dimerization interface [polypeptide binding]; other site 491952010214 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 491952010215 Ion channel; Region: Ion_trans_2; pfam07885 491952010216 TrkA-N domain; Region: TrkA_N; pfam02254 491952010217 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 491952010218 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 491952010219 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 491952010220 active site 491952010221 (T/H)XGH motif; other site 491952010222 YGGT family; Region: YGGT; pfam02325 491952010223 YGGT family; Region: YGGT; pfam02325 491952010224 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 491952010225 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 491952010226 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 491952010227 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 491952010228 catalytic residue [active] 491952010229 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952010230 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952010231 active site 491952010232 I-site; other site 491952010233 metal binding site [ion binding]; metal-binding site 491952010234 dihydroorotase; Validated; Region: pyrC; PRK09357 491952010235 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 491952010236 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 491952010237 active site 491952010238 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 491952010239 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 491952010240 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 491952010241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 491952010242 active site 491952010243 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 491952010244 hypothetical protein; Validated; Region: PRK00228 491952010245 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 491952010246 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 491952010247 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 491952010248 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 491952010249 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 491952010250 catalytic residues [active] 491952010251 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952010252 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 491952010253 NAD(P) binding site [chemical binding]; other site 491952010254 catalytic residues [active] 491952010255 Activator of aromatic catabolism; Region: XylR_N; pfam06505 491952010256 V4R domain; Region: V4R; pfam02830 491952010257 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 491952010258 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 491952010259 Walker A motif; other site 491952010260 ATP binding site [chemical binding]; other site 491952010261 Walker B motif; other site 491952010262 arginine finger; other site 491952010263 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 491952010264 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 491952010265 NAD(P) binding site [chemical binding]; other site 491952010266 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 491952010267 active site 491952010268 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 491952010269 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 491952010270 ligand binding site [chemical binding]; other site 491952010271 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 491952010272 EamA-like transporter family; Region: EamA; pfam00892 491952010273 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 491952010274 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 491952010275 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 491952010276 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952010277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010278 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 491952010279 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 491952010280 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 491952010281 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 491952010282 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952010283 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 491952010284 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 491952010285 active site 491952010286 catalytic site [active] 491952010287 tetramer interface [polypeptide binding]; other site 491952010288 RNA polymerase sigma factor; Provisional; Region: PRK12528 491952010289 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952010290 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 491952010291 DNA binding residues [nucleotide binding] 491952010292 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 491952010293 FecR protein; Region: FecR; pfam04773 491952010294 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 491952010295 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 491952010296 N-terminal plug; other site 491952010297 ligand-binding site [chemical binding]; other site 491952010298 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 491952010299 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 491952010300 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491952010301 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952010302 Walker A/P-loop; other site 491952010303 ATP binding site [chemical binding]; other site 491952010304 Q-loop/lid; other site 491952010305 ABC transporter signature motif; other site 491952010306 Walker B; other site 491952010307 D-loop; other site 491952010308 H-loop/switch region; other site 491952010309 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 491952010310 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 491952010311 ABC-ATPase subunit interface; other site 491952010312 dimer interface [polypeptide binding]; other site 491952010313 putative PBP binding regions; other site 491952010314 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491952010315 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 491952010316 ABC-ATPase subunit interface; other site 491952010317 dimer interface [polypeptide binding]; other site 491952010318 putative PBP binding regions; other site 491952010319 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 491952010320 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 491952010321 siderophore binding site; other site 491952010322 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952010323 ornithine cyclodeaminase; Validated; Region: PRK06199 491952010324 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 491952010325 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 491952010326 homotrimer interaction site [polypeptide binding]; other site 491952010327 putative active site [active] 491952010328 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 491952010329 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 491952010330 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 491952010331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952010332 putative CheW interface [polypeptide binding]; other site 491952010333 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 491952010334 allantoate amidohydrolase; Reviewed; Region: PRK09290 491952010335 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 491952010336 active site 491952010337 metal binding site [ion binding]; metal-binding site 491952010338 dimer interface [polypeptide binding]; other site 491952010339 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 491952010340 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952010341 catalytic residue [active] 491952010342 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 491952010343 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 491952010344 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 491952010345 Amidase; Region: Amidase; cl11426 491952010346 indole-3-acetamide amidohydrolase; Region: PLN02722 491952010347 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 491952010348 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 491952010349 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 491952010350 putative active site [active] 491952010351 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952010352 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 491952010353 substrate binding pocket [chemical binding]; other site 491952010354 membrane-bound complex binding site; other site 491952010355 hinge residues; other site 491952010356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010357 dimer interface [polypeptide binding]; other site 491952010358 conserved gate region; other site 491952010359 putative PBP binding loops; other site 491952010360 ABC-ATPase subunit interface; other site 491952010361 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 491952010362 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010363 dimer interface [polypeptide binding]; other site 491952010364 conserved gate region; other site 491952010365 putative PBP binding loops; other site 491952010366 ABC-ATPase subunit interface; other site 491952010367 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952010368 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952010369 Walker A/P-loop; other site 491952010370 ATP binding site [chemical binding]; other site 491952010371 Q-loop/lid; other site 491952010372 ABC transporter signature motif; other site 491952010373 Walker B; other site 491952010374 D-loop; other site 491952010375 H-loop/switch region; other site 491952010376 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952010377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952010378 metal binding site [ion binding]; metal-binding site 491952010379 active site 491952010380 I-site; other site 491952010381 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 491952010382 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952010383 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952010384 dimer interface [polypeptide binding]; other site 491952010385 putative CheW interface [polypeptide binding]; other site 491952010386 Protein of unknown function (DUF805); Region: DUF805; pfam05656 491952010387 Helix-turn-helix domain; Region: HTH_18; pfam12833 491952010388 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010389 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 491952010390 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 491952010391 non-specific DNA binding site [nucleotide binding]; other site 491952010392 salt bridge; other site 491952010393 sequence-specific DNA binding site [nucleotide binding]; other site 491952010394 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 491952010395 Transcriptional regulators [Transcription]; Region: MarR; COG1846 491952010396 MarR family; Region: MarR; pfam01047 491952010397 Uncharacterized conserved protein [Function unknown]; Region: COG1359 491952010398 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 491952010399 conserved cys residue [active] 491952010400 Phage Tail Collar Domain; Region: Collar; pfam07484 491952010401 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 491952010402 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952010403 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 491952010404 DNA binding residues [nucleotide binding] 491952010405 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 491952010406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952010407 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 491952010408 dimerization interface [polypeptide binding]; other site 491952010409 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 491952010410 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 491952010411 putative C-terminal domain interface [polypeptide binding]; other site 491952010412 putative GSH binding site (G-site) [chemical binding]; other site 491952010413 putative dimer interface [polypeptide binding]; other site 491952010414 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 491952010415 N-terminal domain interface [polypeptide binding]; other site 491952010416 dimer interface [polypeptide binding]; other site 491952010417 substrate binding pocket (H-site) [chemical binding]; other site 491952010418 HAMP domain; Region: HAMP; pfam00672 491952010419 dimerization interface [polypeptide binding]; other site 491952010420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952010421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952010422 dimer interface [polypeptide binding]; other site 491952010423 putative CheW interface [polypeptide binding]; other site 491952010424 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 491952010425 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 491952010426 Walker A/P-loop; other site 491952010427 ATP binding site [chemical binding]; other site 491952010428 Q-loop/lid; other site 491952010429 ABC transporter signature motif; other site 491952010430 Walker B; other site 491952010431 D-loop; other site 491952010432 H-loop/switch region; other site 491952010433 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 491952010434 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 491952010435 putative ligand binding residues [chemical binding]; other site 491952010436 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 491952010437 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 491952010438 dimer interface [polypeptide binding]; other site 491952010439 putative PBP binding regions; other site 491952010440 ABC-ATPase subunit interface; other site 491952010441 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 491952010442 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 491952010443 FeS/SAM binding site; other site 491952010444 Response regulator receiver domain; Region: Response_reg; pfam00072 491952010445 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010446 active site 491952010447 phosphorylation site [posttranslational modification] 491952010448 intermolecular recognition site; other site 491952010449 dimerization interface [polypeptide binding]; other site 491952010450 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 491952010451 DNA binding residues [nucleotide binding] 491952010452 dimerization interface [polypeptide binding]; other site 491952010453 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 491952010454 Na binding site [ion binding]; other site 491952010455 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952010456 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 491952010457 dimer interface [polypeptide binding]; other site 491952010458 phosphorylation site [posttranslational modification] 491952010459 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 491952010460 ATP binding site [chemical binding]; other site 491952010461 Mg2+ binding site [ion binding]; other site 491952010462 G-X-G motif; other site 491952010463 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 491952010464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010465 active site 491952010466 phosphorylation site [posttranslational modification] 491952010467 intermolecular recognition site; other site 491952010468 dimerization interface [polypeptide binding]; other site 491952010469 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 491952010470 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 491952010471 G1 box; other site 491952010472 GTP/Mg2+ binding site [chemical binding]; other site 491952010473 G2 box; other site 491952010474 Switch I region; other site 491952010475 G3 box; other site 491952010476 Switch II region; other site 491952010477 G4 box; other site 491952010478 G5 box; other site 491952010479 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 491952010480 UreF; Region: UreF; pfam01730 491952010481 urease accessory protein UreE; Provisional; Region: PRK14113 491952010482 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 491952010483 dimer interface [polypeptide binding]; other site 491952010484 catalytic residues [active] 491952010485 urease subunit alpha; Reviewed; Region: ureC; PRK13207 491952010486 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 491952010487 subunit interactions [polypeptide binding]; other site 491952010488 active site 491952010489 flap region; other site 491952010490 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 491952010491 gamma-beta subunit interface [polypeptide binding]; other site 491952010492 alpha-beta subunit interface [polypeptide binding]; other site 491952010493 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 491952010494 alpha-gamma subunit interface [polypeptide binding]; other site 491952010495 beta-gamma subunit interface [polypeptide binding]; other site 491952010496 UreD urease accessory protein; Region: UreD; pfam01774 491952010497 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 491952010498 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 491952010499 Walker A/P-loop; other site 491952010500 ATP binding site [chemical binding]; other site 491952010501 Q-loop/lid; other site 491952010502 ABC transporter signature motif; other site 491952010503 Walker B; other site 491952010504 D-loop; other site 491952010505 H-loop/switch region; other site 491952010506 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 491952010507 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 491952010508 Walker A/P-loop; other site 491952010509 ATP binding site [chemical binding]; other site 491952010510 Q-loop/lid; other site 491952010511 ABC transporter signature motif; other site 491952010512 Walker B; other site 491952010513 D-loop; other site 491952010514 H-loop/switch region; other site 491952010515 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 491952010516 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 491952010517 TM-ABC transporter signature motif; other site 491952010518 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 491952010519 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952010520 TM-ABC transporter signature motif; other site 491952010521 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 491952010522 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 491952010523 putative ligand binding site [chemical binding]; other site 491952010524 Cupin domain; Region: Cupin_2; cl17218 491952010525 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952010526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010527 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952010528 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 491952010529 MOSC domain; Region: MOSC; pfam03473 491952010530 3-alpha domain; Region: 3-alpha; pfam03475 491952010531 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952010532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952010533 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 491952010534 putative effector binding pocket; other site 491952010535 dimerization interface [polypeptide binding]; other site 491952010536 EamA-like transporter family; Region: EamA; pfam00892 491952010537 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 491952010538 EamA-like transporter family; Region: EamA; pfam00892 491952010539 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 491952010540 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952010541 NAD(P) binding site [chemical binding]; other site 491952010542 active site 491952010543 Phosphotransferase enzyme family; Region: APH; pfam01636 491952010544 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 491952010545 active site 491952010546 ATP binding site [chemical binding]; other site 491952010547 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 491952010548 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 491952010549 inhibitor-cofactor binding pocket; inhibition site 491952010550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952010551 catalytic residue [active] 491952010552 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 491952010553 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952010554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010555 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 491952010556 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 491952010557 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 491952010558 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 491952010559 S-adenosylmethionine binding site [chemical binding]; other site 491952010560 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 491952010561 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 491952010562 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952010563 short chain dehydrogenase; Provisional; Region: PRK06101 491952010564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952010565 NAD(P) binding site [chemical binding]; other site 491952010566 active site 491952010567 SnoaL-like domain; Region: SnoaL_2; pfam12680 491952010568 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 491952010569 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952010570 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 491952010571 DNA binding residues [nucleotide binding] 491952010572 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 491952010573 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 491952010574 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 491952010575 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952010576 putative acyl-acceptor binding pocket; other site 491952010577 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 491952010578 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 491952010579 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 491952010580 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 491952010581 tetrameric interface [polypeptide binding]; other site 491952010582 NAD binding site [chemical binding]; other site 491952010583 catalytic residues [active] 491952010584 choline dehydrogenase; Validated; Region: PRK02106 491952010585 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 491952010586 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 491952010587 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 491952010588 active site 491952010589 metal binding site [ion binding]; metal-binding site 491952010590 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491952010591 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 491952010592 S-adenosylmethionine binding site [chemical binding]; other site 491952010593 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 491952010594 DNA-J related protein; Region: DNAJ_related; pfam12339 491952010595 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 491952010596 HSP70 interaction site [polypeptide binding]; other site 491952010597 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 491952010598 MltA specific insert domain; Region: MltA; smart00925 491952010599 3D domain; Region: 3D; pfam06725 491952010600 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 491952010601 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 491952010602 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 491952010603 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 491952010604 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 491952010605 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952010606 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952010607 Walker A/P-loop; other site 491952010608 ATP binding site [chemical binding]; other site 491952010609 Q-loop/lid; other site 491952010610 ABC transporter signature motif; other site 491952010611 Walker B; other site 491952010612 D-loop; other site 491952010613 H-loop/switch region; other site 491952010614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010615 dimer interface [polypeptide binding]; other site 491952010616 conserved gate region; other site 491952010617 putative PBP binding loops; other site 491952010618 ABC-ATPase subunit interface; other site 491952010619 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 491952010620 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952010621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010622 dimer interface [polypeptide binding]; other site 491952010623 conserved gate region; other site 491952010624 putative PBP binding loops; other site 491952010625 ABC-ATPase subunit interface; other site 491952010626 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491952010627 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 491952010628 substrate binding pocket [chemical binding]; other site 491952010629 membrane-bound complex binding site; other site 491952010630 hinge residues; other site 491952010631 Transcriptional regulators [Transcription]; Region: GntR; COG1802 491952010632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952010633 DNA-binding site [nucleotide binding]; DNA binding site 491952010634 FCD domain; Region: FCD; pfam07729 491952010635 isoaspartyl dipeptidase; Provisional; Region: PRK10657 491952010636 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 491952010637 active site 491952010638 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952010639 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 491952010640 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 491952010641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010642 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952010643 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 491952010644 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 491952010645 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 491952010646 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952010647 putative substrate translocation pore; other site 491952010648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952010649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952010650 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 491952010651 dimerization interface [polypeptide binding]; other site 491952010652 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 491952010653 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 491952010654 dimer interface [polypeptide binding]; other site 491952010655 NADP binding site [chemical binding]; other site 491952010656 catalytic residues [active] 491952010657 dihydroxy-acid dehydratase; Validated; Region: PRK06131 491952010658 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 491952010659 classical (c) SDRs; Region: SDR_c; cd05233 491952010660 NAD(P) binding site [chemical binding]; other site 491952010661 active site 491952010662 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 491952010663 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 491952010664 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952010665 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 491952010666 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 491952010667 TM-ABC transporter signature motif; other site 491952010668 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 491952010669 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 491952010670 Walker A/P-loop; other site 491952010671 ATP binding site [chemical binding]; other site 491952010672 Q-loop/lid; other site 491952010673 ABC transporter signature motif; other site 491952010674 Walker B; other site 491952010675 D-loop; other site 491952010676 H-loop/switch region; other site 491952010677 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 491952010678 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 491952010679 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 491952010680 putative ligand binding site [chemical binding]; other site 491952010681 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 491952010682 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 491952010683 TrkA-N domain; Region: TrkA_N; pfam02254 491952010684 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 491952010685 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 491952010686 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 491952010687 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 491952010688 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 491952010689 active site 491952010690 dimer interface [polypeptide binding]; other site 491952010691 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 491952010692 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 491952010693 active site 491952010694 FMN binding site [chemical binding]; other site 491952010695 substrate binding site [chemical binding]; other site 491952010696 3Fe-4S cluster binding site [ion binding]; other site 491952010697 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 491952010698 domain interface; other site 491952010699 AAA ATPase domain; Region: AAA_16; pfam13191 491952010700 AAA domain; Region: AAA_22; pfam13401 491952010701 cell division protein DamX; Validated; Region: PRK10905 491952010702 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 491952010703 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 491952010704 active site 491952010705 dimer interface [polypeptide binding]; other site 491952010706 metal binding site [ion binding]; metal-binding site 491952010707 shikimate kinase; Reviewed; Region: aroK; PRK00131 491952010708 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 491952010709 ADP binding site [chemical binding]; other site 491952010710 magnesium binding site [ion binding]; other site 491952010711 putative shikimate binding site; other site 491952010712 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 491952010713 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 491952010714 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 491952010715 FRG domain; Region: FRG; cl07460 491952010716 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 491952010717 Transglycosylase; Region: Transgly; pfam00912 491952010718 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 491952010719 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 491952010720 Malic enzyme, N-terminal domain; Region: malic; pfam00390 491952010721 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 491952010722 putative NAD(P) binding site [chemical binding]; other site 491952010723 Staphylococcal nuclease homologues; Region: SNc; smart00318 491952010724 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 491952010725 Catalytic site; other site 491952010726 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 491952010727 primosome assembly protein PriA; Validated; Region: PRK05580 491952010728 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 491952010729 ATP binding site [chemical binding]; other site 491952010730 putative Mg++ binding site [ion binding]; other site 491952010731 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 491952010732 nucleotide binding region [chemical binding]; other site 491952010733 ATP-binding site [chemical binding]; other site 491952010734 Sporulation related domain; Region: SPOR; pfam05036 491952010735 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 491952010736 active site 491952010737 HslU subunit interaction site [polypeptide binding]; other site 491952010738 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 491952010739 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 491952010740 Walker A motif; other site 491952010741 ATP binding site [chemical binding]; other site 491952010742 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 491952010743 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 491952010744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 491952010745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 491952010746 SCP-2 sterol transfer family; Region: SCP2; pfam02036 491952010747 EamA-like transporter family; Region: EamA; pfam00892 491952010748 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 491952010749 active site 491952010750 homodimer interface [polypeptide binding]; other site 491952010751 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 491952010752 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 491952010753 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 491952010754 active site 491952010755 HIGH motif; other site 491952010756 KMSK motif region; other site 491952010757 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 491952010758 tRNA binding surface [nucleotide binding]; other site 491952010759 anticodon binding site; other site 491952010760 threonine dehydratase; Reviewed; Region: PRK09224 491952010761 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 491952010762 tetramer interface [polypeptide binding]; other site 491952010763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952010764 catalytic residue [active] 491952010765 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 491952010766 putative Ile/Val binding site [chemical binding]; other site 491952010767 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 491952010768 putative Ile/Val binding site [chemical binding]; other site 491952010769 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 491952010770 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491952010771 active site 491952010772 dimer interface [polypeptide binding]; other site 491952010773 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 491952010774 AMP binding site [chemical binding]; other site 491952010775 metal binding site [ion binding]; metal-binding site 491952010776 active site 491952010777 Predicted permease; Region: DUF318; cl17795 491952010778 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 491952010779 dimerization interface [polypeptide binding]; other site 491952010780 putative DNA binding site [nucleotide binding]; other site 491952010781 putative Zn2+ binding site [ion binding]; other site 491952010782 hypothetical protein; Provisional; Region: PRK07338 491952010783 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 491952010784 metal binding site [ion binding]; metal-binding site 491952010785 dimer interface [polypeptide binding]; other site 491952010786 hypothetical protein; Provisional; Region: PRK07079 491952010787 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 491952010788 metal binding site [ion binding]; metal-binding site 491952010789 putative dimer interface [polypeptide binding]; other site 491952010790 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491952010791 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952010792 Walker A/P-loop; other site 491952010793 ATP binding site [chemical binding]; other site 491952010794 Q-loop/lid; other site 491952010795 ABC transporter signature motif; other site 491952010796 Walker B; other site 491952010797 D-loop; other site 491952010798 H-loop/switch region; other site 491952010799 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 491952010800 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 491952010801 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952010802 Walker A/P-loop; other site 491952010803 ATP binding site [chemical binding]; other site 491952010804 Q-loop/lid; other site 491952010805 ABC transporter signature motif; other site 491952010806 Walker B; other site 491952010807 D-loop; other site 491952010808 H-loop/switch region; other site 491952010809 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491952010810 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 491952010811 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491952010812 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010813 dimer interface [polypeptide binding]; other site 491952010814 conserved gate region; other site 491952010815 putative PBP binding loops; other site 491952010816 ABC-ATPase subunit interface; other site 491952010817 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952010818 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010819 dimer interface [polypeptide binding]; other site 491952010820 conserved gate region; other site 491952010821 putative PBP binding loops; other site 491952010822 ABC-ATPase subunit interface; other site 491952010823 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491952010824 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 491952010825 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952010826 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952010827 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 491952010828 dimerization interface [polypeptide binding]; other site 491952010829 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 491952010830 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 491952010831 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 491952010832 substrate binding pocket [chemical binding]; other site 491952010833 membrane-bound complex binding site; other site 491952010834 hinge residues; other site 491952010835 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 491952010836 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 491952010837 H-NS histone family; Region: Histone_HNS; pfam00816 491952010838 GMP synthase; Reviewed; Region: guaA; PRK00074 491952010839 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 491952010840 AMP/PPi binding site [chemical binding]; other site 491952010841 candidate oxyanion hole; other site 491952010842 catalytic triad [active] 491952010843 potential glutamine specificity residues [chemical binding]; other site 491952010844 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 491952010845 ATP Binding subdomain [chemical binding]; other site 491952010846 Ligand Binding sites [chemical binding]; other site 491952010847 Dimerization subdomain; other site 491952010848 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 491952010849 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 491952010850 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 491952010851 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 491952010852 active site 491952010853 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 491952010854 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 491952010855 generic binding surface II; other site 491952010856 generic binding surface I; other site 491952010857 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 491952010858 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 491952010859 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952010860 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952010861 LysR substrate binding domain; Region: LysR_substrate; pfam03466 491952010862 dimerization interface [polypeptide binding]; other site 491952010863 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 491952010864 HAMP domain; Region: HAMP; pfam00672 491952010865 dimerization interface [polypeptide binding]; other site 491952010866 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952010867 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952010868 dimer interface [polypeptide binding]; other site 491952010869 putative CheW interface [polypeptide binding]; other site 491952010870 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 491952010871 EamA-like transporter family; Region: EamA; pfam00892 491952010872 Ion transport protein; Region: Ion_trans; pfam00520 491952010873 Predicted permeases [General function prediction only]; Region: COG0679 491952010874 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952010875 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 491952010876 putative ligand binding site [chemical binding]; other site 491952010877 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 491952010878 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952010879 Walker A/P-loop; other site 491952010880 ATP binding site [chemical binding]; other site 491952010881 Q-loop/lid; other site 491952010882 ABC transporter signature motif; other site 491952010883 Walker B; other site 491952010884 D-loop; other site 491952010885 H-loop/switch region; other site 491952010886 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 491952010887 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 491952010888 TM-ABC transporter signature motif; other site 491952010889 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 491952010890 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 491952010891 ligand binding site [chemical binding]; other site 491952010892 PAS fold; Region: PAS_7; pfam12860 491952010893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952010894 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 491952010895 dimer interface [polypeptide binding]; other site 491952010896 phosphorylation site [posttranslational modification] 491952010897 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 491952010898 ATP binding site [chemical binding]; other site 491952010899 G-X-G motif; other site 491952010900 Response regulator receiver domain; Region: Response_reg; pfam00072 491952010901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010902 active site 491952010903 phosphorylation site [posttranslational modification] 491952010904 intermolecular recognition site; other site 491952010905 dimerization interface [polypeptide binding]; other site 491952010906 osmolarity response regulator; Provisional; Region: ompR; PRK09468 491952010907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952010908 active site 491952010909 phosphorylation site [posttranslational modification] 491952010910 intermolecular recognition site; other site 491952010911 dimerization interface [polypeptide binding]; other site 491952010912 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 491952010913 DNA binding site [nucleotide binding] 491952010914 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 491952010915 catalytic loop [active] 491952010916 iron binding site [ion binding]; other site 491952010917 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 491952010918 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010919 dimer interface [polypeptide binding]; other site 491952010920 conserved gate region; other site 491952010921 putative PBP binding loops; other site 491952010922 ABC-ATPase subunit interface; other site 491952010923 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952010924 dimer interface [polypeptide binding]; other site 491952010925 conserved gate region; other site 491952010926 putative PBP binding loops; other site 491952010927 ABC-ATPase subunit interface; other site 491952010928 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952010929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952010930 Walker A/P-loop; other site 491952010931 ATP binding site [chemical binding]; other site 491952010932 Q-loop/lid; other site 491952010933 ABC transporter signature motif; other site 491952010934 Walker B; other site 491952010935 D-loop; other site 491952010936 H-loop/switch region; other site 491952010937 TOBE domain; Region: TOBE_2; pfam08402 491952010938 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952010939 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 491952010940 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 491952010941 active site 491952010942 dimerization interface [polypeptide binding]; other site 491952010943 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 491952010944 active site 491952010945 catalytic residues [active] 491952010946 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491952010947 DNA binding site [nucleotide binding] 491952010948 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952010949 domain linker motif; other site 491952010950 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 491952010951 putative ligand binding site [chemical binding]; other site 491952010952 putative dimerization interface [polypeptide binding]; other site 491952010953 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 491952010954 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 491952010955 ATP binding site [chemical binding]; other site 491952010956 putative Mg++ binding site [ion binding]; other site 491952010957 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 491952010958 nucleotide binding region [chemical binding]; other site 491952010959 ATP-binding site [chemical binding]; other site 491952010960 Helicase associated domain (HA2); Region: HA2; pfam04408 491952010961 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 491952010962 Ecdysteroid kinase; Region: EcKinase; cl17738 491952010963 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 491952010964 Amidinotransferase; Region: Amidinotransf; pfam02274 491952010965 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 491952010966 Chorismate mutase type II; Region: CM_2; cl00693 491952010967 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 491952010968 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 491952010969 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 491952010970 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 491952010971 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 491952010972 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 491952010973 lipoprotein signal peptidase; Provisional; Region: PRK14787 491952010974 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 491952010975 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 491952010976 active site 491952010977 HIGH motif; other site 491952010978 nucleotide binding site [chemical binding]; other site 491952010979 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 491952010980 active site 491952010981 KMSKS motif; other site 491952010982 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 491952010983 tRNA binding surface [nucleotide binding]; other site 491952010984 anticodon binding site; other site 491952010985 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 491952010986 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 491952010987 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 491952010988 active site 491952010989 Riboflavin kinase; Region: Flavokinase; pfam01687 491952010990 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 491952010991 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 491952010992 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 491952010993 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 491952010994 gamma-glutamyl kinase; Provisional; Region: PRK05429 491952010995 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 491952010996 nucleotide binding site [chemical binding]; other site 491952010997 homotetrameric interface [polypeptide binding]; other site 491952010998 putative phosphate binding site [ion binding]; other site 491952010999 putative allosteric binding site; other site 491952011000 PUA domain; Region: PUA; pfam01472 491952011001 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 491952011002 GTP1/OBG; Region: GTP1_OBG; pfam01018 491952011003 Obg GTPase; Region: Obg; cd01898 491952011004 G1 box; other site 491952011005 GTP/Mg2+ binding site [chemical binding]; other site 491952011006 Switch I region; other site 491952011007 G2 box; other site 491952011008 G3 box; other site 491952011009 Switch II region; other site 491952011010 G4 box; other site 491952011011 G5 box; other site 491952011012 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 491952011013 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 491952011014 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 491952011015 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 491952011016 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 491952011017 substrate binding pocket [chemical binding]; other site 491952011018 chain length determination region; other site 491952011019 substrate-Mg2+ binding site; other site 491952011020 catalytic residues [active] 491952011021 aspartate-rich region 1; other site 491952011022 active site lid residues [active] 491952011023 aspartate-rich region 2; other site 491952011024 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 491952011025 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 491952011026 active site 1 [active] 491952011027 dimer interface [polypeptide binding]; other site 491952011028 active site 2 [active] 491952011029 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 491952011030 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 491952011031 dimer interface [polypeptide binding]; other site 491952011032 active site 491952011033 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952011034 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 491952011035 putative acyl-acceptor binding pocket; other site 491952011036 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 491952011037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 491952011038 putative acyl-acceptor binding pocket; other site 491952011039 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 491952011040 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 491952011041 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491952011042 Peptidase M16C associated; Region: M16C_assoc; pfam08367 491952011043 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 491952011044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 491952011045 Smr domain; Region: Smr; pfam01713 491952011046 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 491952011047 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 491952011048 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 491952011049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011050 dimer interface [polypeptide binding]; other site 491952011051 conserved gate region; other site 491952011052 putative PBP binding loops; other site 491952011053 ABC-ATPase subunit interface; other site 491952011054 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 491952011055 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 491952011056 Walker A/P-loop; other site 491952011057 ATP binding site [chemical binding]; other site 491952011058 Q-loop/lid; other site 491952011059 ABC transporter signature motif; other site 491952011060 Walker B; other site 491952011061 D-loop; other site 491952011062 H-loop/switch region; other site 491952011063 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 491952011064 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 491952011065 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 491952011066 urea carboxylase; Region: urea_carbox; TIGR02712 491952011067 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 491952011068 ATP-grasp domain; Region: ATP-grasp_4; cl17255 491952011069 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 491952011070 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 491952011071 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 491952011072 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 491952011073 carboxyltransferase (CT) interaction site; other site 491952011074 biotinylation site [posttranslational modification]; other site 491952011075 allophanate hydrolase; Provisional; Region: PRK08186 491952011076 Amidase; Region: Amidase; cl11426 491952011077 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 491952011078 hypothetical protein; Provisional; Region: PRK06847 491952011079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952011080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952011081 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 491952011082 dimerization interface [polypeptide binding]; other site 491952011083 Predicted transcriptional regulator [Transcription]; Region: COG2944 491952011084 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 491952011085 non-specific DNA binding site [nucleotide binding]; other site 491952011086 salt bridge; other site 491952011087 sequence-specific DNA binding site [nucleotide binding]; other site 491952011088 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 491952011089 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 491952011090 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 491952011091 dimer interface [polypeptide binding]; other site 491952011092 ssDNA binding site [nucleotide binding]; other site 491952011093 tetramer (dimer of dimers) interface [polypeptide binding]; other site 491952011094 Major Facilitator Superfamily; Region: MFS_1; pfam07690 491952011095 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 491952011096 putative substrate translocation pore; other site 491952011097 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 491952011098 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491952011099 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 491952011100 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 491952011101 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 491952011102 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 491952011103 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 491952011104 alphaNTD homodimer interface [polypeptide binding]; other site 491952011105 alphaNTD - beta interaction site [polypeptide binding]; other site 491952011106 alphaNTD - beta' interaction site [polypeptide binding]; other site 491952011107 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 491952011108 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 491952011109 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 491952011110 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 491952011111 RNA binding surface [nucleotide binding]; other site 491952011112 30S ribosomal protein S11; Validated; Region: PRK05309 491952011113 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 491952011114 30S ribosomal protein S13; Region: bact_S13; TIGR03631 491952011115 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 491952011116 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 491952011117 SecY translocase; Region: SecY; pfam00344 491952011118 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 491952011119 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 491952011120 23S rRNA binding site [nucleotide binding]; other site 491952011121 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 491952011122 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 491952011123 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 491952011124 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 491952011125 5S rRNA interface [nucleotide binding]; other site 491952011126 23S rRNA interface [nucleotide binding]; other site 491952011127 L5 interface [polypeptide binding]; other site 491952011128 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 491952011129 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491952011130 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 491952011131 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 491952011132 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 491952011133 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 491952011134 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 491952011135 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 491952011136 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 491952011137 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 491952011138 RNA binding site [nucleotide binding]; other site 491952011139 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 491952011140 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 491952011141 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 491952011142 23S rRNA interface [nucleotide binding]; other site 491952011143 putative translocon interaction site; other site 491952011144 signal recognition particle (SRP54) interaction site; other site 491952011145 L23 interface [polypeptide binding]; other site 491952011146 trigger factor interaction site; other site 491952011147 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 491952011148 23S rRNA interface [nucleotide binding]; other site 491952011149 5S rRNA interface [nucleotide binding]; other site 491952011150 putative antibiotic binding site [chemical binding]; other site 491952011151 L25 interface [polypeptide binding]; other site 491952011152 L27 interface [polypeptide binding]; other site 491952011153 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 491952011154 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 491952011155 G-X-X-G motif; other site 491952011156 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 491952011157 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 491952011158 putative translocon binding site; other site 491952011159 protein-rRNA interface [nucleotide binding]; other site 491952011160 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 491952011161 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 491952011162 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 491952011163 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 491952011164 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 491952011165 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 491952011166 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 491952011167 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 491952011168 elongation factor Tu; Reviewed; Region: PRK00049 491952011169 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 491952011170 G1 box; other site 491952011171 GEF interaction site [polypeptide binding]; other site 491952011172 GTP/Mg2+ binding site [chemical binding]; other site 491952011173 Switch I region; other site 491952011174 G2 box; other site 491952011175 G3 box; other site 491952011176 Switch II region; other site 491952011177 G4 box; other site 491952011178 G5 box; other site 491952011179 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 491952011180 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 491952011181 Antibiotic Binding Site [chemical binding]; other site 491952011182 elongation factor G; Reviewed; Region: PRK00007 491952011183 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 491952011184 G1 box; other site 491952011185 putative GEF interaction site [polypeptide binding]; other site 491952011186 GTP/Mg2+ binding site [chemical binding]; other site 491952011187 Switch I region; other site 491952011188 G2 box; other site 491952011189 G3 box; other site 491952011190 Switch II region; other site 491952011191 G4 box; other site 491952011192 G5 box; other site 491952011193 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 491952011194 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 491952011195 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 491952011196 30S ribosomal protein S7; Validated; Region: PRK05302 491952011197 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 491952011198 S17 interaction site [polypeptide binding]; other site 491952011199 S8 interaction site; other site 491952011200 16S rRNA interaction site [nucleotide binding]; other site 491952011201 streptomycin interaction site [chemical binding]; other site 491952011202 23S rRNA interaction site [nucleotide binding]; other site 491952011203 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 491952011204 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 491952011205 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 491952011206 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 491952011207 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 491952011208 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 491952011209 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 491952011210 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 491952011211 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 491952011212 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 491952011213 DNA binding site [nucleotide binding] 491952011214 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 491952011215 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 491952011216 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 491952011217 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 491952011218 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 491952011219 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 491952011220 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 491952011221 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 491952011222 RPB1 interaction site [polypeptide binding]; other site 491952011223 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 491952011224 core dimer interface [polypeptide binding]; other site 491952011225 peripheral dimer interface [polypeptide binding]; other site 491952011226 L10 interface [polypeptide binding]; other site 491952011227 L11 interface [polypeptide binding]; other site 491952011228 putative EF-Tu interaction site [polypeptide binding]; other site 491952011229 putative EF-G interaction site [polypeptide binding]; other site 491952011230 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 491952011231 23S rRNA interface [nucleotide binding]; other site 491952011232 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 491952011233 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 491952011234 mRNA/rRNA interface [nucleotide binding]; other site 491952011235 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 491952011236 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 491952011237 23S rRNA interface [nucleotide binding]; other site 491952011238 L7/L12 interface [polypeptide binding]; other site 491952011239 putative thiostrepton binding site; other site 491952011240 L25 interface [polypeptide binding]; other site 491952011241 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 491952011242 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 491952011243 putative homodimer interface [polypeptide binding]; other site 491952011244 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 491952011245 heterodimer interface [polypeptide binding]; other site 491952011246 homodimer interface [polypeptide binding]; other site 491952011247 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 491952011248 Sporulation related domain; Region: SPOR; cl10051 491952011249 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 491952011250 amidase; Provisional; Region: PRK07042 491952011251 Amidase; Region: Amidase; cl11426 491952011252 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952011253 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491952011254 Walker A/P-loop; other site 491952011255 ATP binding site [chemical binding]; other site 491952011256 Q-loop/lid; other site 491952011257 ABC transporter signature motif; other site 491952011258 Walker B; other site 491952011259 D-loop; other site 491952011260 H-loop/switch region; other site 491952011261 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491952011262 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 491952011263 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952011264 Walker A/P-loop; other site 491952011265 ATP binding site [chemical binding]; other site 491952011266 Q-loop/lid; other site 491952011267 ABC transporter signature motif; other site 491952011268 Walker B; other site 491952011269 D-loop; other site 491952011270 H-loop/switch region; other site 491952011271 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491952011272 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 491952011273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011274 dimer interface [polypeptide binding]; other site 491952011275 conserved gate region; other site 491952011276 putative PBP binding loops; other site 491952011277 ABC-ATPase subunit interface; other site 491952011278 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 491952011279 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011280 dimer interface [polypeptide binding]; other site 491952011281 conserved gate region; other site 491952011282 putative PBP binding loops; other site 491952011283 ABC-ATPase subunit interface; other site 491952011284 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 491952011285 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_6; cd08494 491952011286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952011287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952011288 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 491952011289 dimerization interface [polypeptide binding]; other site 491952011290 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 491952011291 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 491952011292 Biotin operon repressor [Transcription]; Region: BirA; COG1654 491952011293 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 491952011294 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 491952011295 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 491952011296 Esterase/lipase [General function prediction only]; Region: COG1647 491952011297 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 491952011298 Coenzyme A binding pocket [chemical binding]; other site 491952011299 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 491952011300 beta-galactosidase; Region: BGL; TIGR03356 491952011301 PAS fold; Region: PAS_4; pfam08448 491952011302 PAS domain; Region: PAS; smart00091 491952011303 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 491952011304 PAS fold; Region: PAS_3; pfam08447 491952011305 putative active site [active] 491952011306 heme pocket [chemical binding]; other site 491952011307 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 491952011308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 491952011309 metal binding site [ion binding]; metal-binding site 491952011310 active site 491952011311 I-site; other site 491952011312 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 491952011313 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952011314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011315 dimer interface [polypeptide binding]; other site 491952011316 conserved gate region; other site 491952011317 putative PBP binding loops; other site 491952011318 ABC-ATPase subunit interface; other site 491952011319 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952011320 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011321 dimer interface [polypeptide binding]; other site 491952011322 conserved gate region; other site 491952011323 putative PBP binding loops; other site 491952011324 ABC-ATPase subunit interface; other site 491952011325 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 491952011326 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952011327 Walker A/P-loop; other site 491952011328 ATP binding site [chemical binding]; other site 491952011329 Q-loop/lid; other site 491952011330 ABC transporter signature motif; other site 491952011331 Walker B; other site 491952011332 D-loop; other site 491952011333 H-loop/switch region; other site 491952011334 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 491952011335 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 491952011336 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 491952011337 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952011338 dimer interface [polypeptide binding]; other site 491952011339 putative CheW interface [polypeptide binding]; other site 491952011340 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 491952011341 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 491952011342 ligand binding site [chemical binding]; other site 491952011343 NAD binding site [chemical binding]; other site 491952011344 tetramer interface [polypeptide binding]; other site 491952011345 catalytic site [active] 491952011346 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 491952011347 L-serine binding site [chemical binding]; other site 491952011348 ACT domain interface; other site 491952011349 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 491952011350 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 491952011351 S-adenosylmethionine binding site [chemical binding]; other site 491952011352 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 491952011353 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 491952011354 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 491952011355 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 491952011356 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 491952011357 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 491952011358 intersubunit interface [polypeptide binding]; other site 491952011359 active site 491952011360 zinc binding site [ion binding]; other site 491952011361 Na+ binding site [ion binding]; other site 491952011362 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 491952011363 Phosphoglycerate kinase; Region: PGK; pfam00162 491952011364 substrate binding site [chemical binding]; other site 491952011365 hinge regions; other site 491952011366 ADP binding site [chemical binding]; other site 491952011367 catalytic site [active] 491952011368 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 491952011369 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 491952011370 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 491952011371 transketolase; Reviewed; Region: PRK12753 491952011372 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 491952011373 TPP-binding site [chemical binding]; other site 491952011374 dimer interface [polypeptide binding]; other site 491952011375 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 491952011376 PYR/PP interface [polypeptide binding]; other site 491952011377 dimer interface [polypeptide binding]; other site 491952011378 TPP binding site [chemical binding]; other site 491952011379 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 491952011380 S-adenosylmethionine synthetase; Validated; Region: PRK05250 491952011381 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 491952011382 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 491952011383 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 491952011384 RNA methyltransferase, RsmE family; Region: TIGR00046 491952011385 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 491952011386 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 491952011387 glutathione synthetase; Provisional; Region: PRK05246 491952011388 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 491952011389 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 491952011390 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 491952011391 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 491952011392 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 491952011393 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 491952011394 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 491952011395 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 491952011396 DNA binding residues [nucleotide binding] 491952011397 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 491952011398 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 491952011399 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 491952011400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 491952011401 Walker A/P-loop; other site 491952011402 ATP binding site [chemical binding]; other site 491952011403 Q-loop/lid; other site 491952011404 ABC transporter signature motif; other site 491952011405 Walker B; other site 491952011406 D-loop; other site 491952011407 H-loop/switch region; other site 491952011408 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 491952011409 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 491952011410 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 491952011411 P loop; other site 491952011412 GTP binding site [chemical binding]; other site 491952011413 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 491952011414 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 491952011415 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 491952011416 S-adenosylmethionine binding site [chemical binding]; other site 491952011417 HAMP domain; Region: HAMP; pfam00672 491952011418 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 491952011419 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 491952011420 dimer interface [polypeptide binding]; other site 491952011421 putative CheW interface [polypeptide binding]; other site 491952011422 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 491952011423 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 491952011424 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 491952011425 S-adenosylmethionine binding site [chemical binding]; other site 491952011426 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 491952011427 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 491952011428 active site 491952011429 dimerization interface [polypeptide binding]; other site 491952011430 HemN family oxidoreductase; Provisional; Region: PRK05660 491952011431 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 491952011432 FeS/SAM binding site; other site 491952011433 HemN C-terminal domain; Region: HemN_C; pfam06969 491952011434 BCCT family transporter; Region: BCCT; pfam02028 491952011435 Predicted membrane protein [Function unknown]; Region: COG2119 491952011436 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 491952011437 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 491952011438 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 491952011439 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 491952011440 ligand binding site [chemical binding]; other site 491952011441 flexible hinge region; other site 491952011442 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 491952011443 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 491952011444 metal binding triad; other site 491952011445 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 491952011446 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 491952011447 active site 491952011448 catalytic site [active] 491952011449 substrate binding site [chemical binding]; other site 491952011450 Transcriptional regulators [Transcription]; Region: PurR; COG1609 491952011451 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 491952011452 DNA binding site [nucleotide binding] 491952011453 domain linker motif; other site 491952011454 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 491952011455 putative dimerization interface [polypeptide binding]; other site 491952011456 putative ligand binding site [chemical binding]; other site 491952011457 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 491952011458 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 491952011459 active site 491952011460 catalytic site [active] 491952011461 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952011462 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952011463 Walker A/P-loop; other site 491952011464 ATP binding site [chemical binding]; other site 491952011465 Q-loop/lid; other site 491952011466 ABC transporter signature motif; other site 491952011467 Walker B; other site 491952011468 D-loop; other site 491952011469 H-loop/switch region; other site 491952011470 TOBE domain; Region: TOBE; cl01440 491952011471 TOBE domain; Region: TOBE_2; pfam08402 491952011472 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952011473 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011474 dimer interface [polypeptide binding]; other site 491952011475 conserved gate region; other site 491952011476 putative PBP binding loops; other site 491952011477 ABC-ATPase subunit interface; other site 491952011478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011479 conserved gate region; other site 491952011480 putative PBP binding loops; other site 491952011481 ABC-ATPase subunit interface; other site 491952011482 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952011483 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 491952011484 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 491952011485 putative substrate binding site [chemical binding]; other site 491952011486 putative ATP binding site [chemical binding]; other site 491952011487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952011488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952011489 active site 491952011490 phosphorylation site [posttranslational modification] 491952011491 intermolecular recognition site; other site 491952011492 dimerization interface [polypeptide binding]; other site 491952011493 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 491952011494 DNA binding site [nucleotide binding] 491952011495 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 491952011496 dimerization interface [polypeptide binding]; other site 491952011497 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 491952011498 dimer interface [polypeptide binding]; other site 491952011499 phosphorylation site [posttranslational modification] 491952011500 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 491952011501 ATP binding site [chemical binding]; other site 491952011502 Mg2+ binding site [ion binding]; other site 491952011503 G-X-G motif; other site 491952011504 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 491952011505 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 491952011506 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 491952011507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 491952011508 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011509 putative PBP binding loops; other site 491952011510 dimer interface [polypeptide binding]; other site 491952011511 ABC-ATPase subunit interface; other site 491952011512 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 491952011513 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011514 dimer interface [polypeptide binding]; other site 491952011515 conserved gate region; other site 491952011516 putative PBP binding loops; other site 491952011517 ABC-ATPase subunit interface; other site 491952011518 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 491952011519 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 491952011520 Walker A/P-loop; other site 491952011521 ATP binding site [chemical binding]; other site 491952011522 Q-loop/lid; other site 491952011523 ABC transporter signature motif; other site 491952011524 Walker B; other site 491952011525 D-loop; other site 491952011526 H-loop/switch region; other site 491952011527 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 491952011528 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 491952011529 active site 491952011530 metal binding site [ion binding]; metal-binding site 491952011531 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 491952011532 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 491952011533 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 491952011534 ribonuclease PH; Reviewed; Region: rph; PRK00173 491952011535 Ribonuclease PH; Region: RNase_PH_bact; cd11362 491952011536 hexamer interface [polypeptide binding]; other site 491952011537 active site 491952011538 hypothetical protein; Provisional; Region: PRK11820 491952011539 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 491952011540 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 491952011541 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 491952011542 sensor protein QseC; Provisional; Region: PRK10337 491952011543 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 491952011544 dimer interface [polypeptide binding]; other site 491952011545 phosphorylation site [posttranslational modification] 491952011546 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 491952011547 ATP binding site [chemical binding]; other site 491952011548 Mg2+ binding site [ion binding]; other site 491952011549 G-X-G motif; other site 491952011550 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 491952011551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952011552 active site 491952011553 phosphorylation site [posttranslational modification] 491952011554 intermolecular recognition site; other site 491952011555 dimerization interface [polypeptide binding]; other site 491952011556 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 491952011557 DNA binding site [nucleotide binding] 491952011558 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 491952011559 TPR motif; other site 491952011560 TPR repeat; Region: TPR_11; pfam13414 491952011561 binding surface 491952011562 short chain dehydrogenase; Provisional; Region: PRK09072 491952011563 classical (c) SDRs; Region: SDR_c; cd05233 491952011564 NAD(P) binding site [chemical binding]; other site 491952011565 active site 491952011566 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 491952011567 heme binding pocket [chemical binding]; other site 491952011568 heme ligand [chemical binding]; other site 491952011569 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 491952011570 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 491952011571 acyl-activating enzyme (AAE) consensus motif; other site 491952011572 AMP binding site [chemical binding]; other site 491952011573 active site 491952011574 CoA binding site [chemical binding]; other site 491952011575 Thermostable hemolysin; Region: T_hemolysin; pfam12261 491952011576 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; cd07040 491952011577 catalytic core [active] 491952011578 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 491952011579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952011580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952011581 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 491952011582 dimerization interface [polypeptide binding]; other site 491952011583 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 491952011584 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 491952011585 metal binding site [ion binding]; metal-binding site 491952011586 putative dimer interface [polypeptide binding]; other site 491952011587 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 491952011588 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491952011589 NAD(P) binding site [chemical binding]; other site 491952011590 catalytic residues [active] 491952011591 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 491952011592 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 491952011593 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 491952011594 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 491952011595 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 491952011596 Predicted transcriptional regulators [Transcription]; Region: COG1733 491952011597 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 491952011598 Transcriptional regulator [Transcription]; Region: LysR; COG0583 491952011599 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952011600 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 491952011601 dimerization interface [polypeptide binding]; other site 491952011602 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 491952011603 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 491952011604 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 491952011605 putative substrate translocation pore; other site 491952011606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952011607 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 491952011608 dimer interface [polypeptide binding]; other site 491952011609 phosphorylation site [posttranslational modification] 491952011610 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 491952011611 ATP binding site [chemical binding]; other site 491952011612 Mg2+ binding site [ion binding]; other site 491952011613 G-X-G motif; other site 491952011614 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 491952011615 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 491952011616 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 491952011617 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 491952011618 catalytic site [active] 491952011619 G-X2-G-X-G-K; other site 491952011620 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 491952011621 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 491952011622 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 491952011623 Zn2+ binding site [ion binding]; other site 491952011624 Mg2+ binding site [ion binding]; other site 491952011625 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 491952011626 synthetase active site [active] 491952011627 NTP binding site [chemical binding]; other site 491952011628 metal binding site [ion binding]; metal-binding site 491952011629 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 491952011630 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 491952011631 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 491952011632 homotrimer interaction site [polypeptide binding]; other site 491952011633 putative active site [active] 491952011634 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 491952011635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 491952011636 NAD(P) binding site [chemical binding]; other site 491952011637 active site 491952011638 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 491952011639 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 491952011640 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 491952011641 dimerization interface [polypeptide binding]; other site 491952011642 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 491952011643 Y-family of DNA polymerases; Region: PolY; cl12025 491952011644 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 491952011645 generic binding surface II; other site 491952011646 ssDNA binding site; other site 491952011647 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 491952011648 ATP binding site [chemical binding]; other site 491952011649 putative Mg++ binding site [ion binding]; other site 491952011650 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 491952011651 nucleotide binding region [chemical binding]; other site 491952011652 ATP-binding site [chemical binding]; other site 491952011653 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 491952011654 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 491952011655 putative DNA binding site [nucleotide binding]; other site 491952011656 putative Zn2+ binding site [ion binding]; other site 491952011657 AsnC family; Region: AsnC_trans_reg; pfam01037 491952011658 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 491952011659 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 491952011660 substrate binding pocket [chemical binding]; other site 491952011661 membrane-bound complex binding site; other site 491952011662 hinge residues; other site 491952011663 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 491952011664 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011665 conserved gate region; other site 491952011666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011667 dimer interface [polypeptide binding]; other site 491952011668 conserved gate region; other site 491952011669 putative PBP binding loops; other site 491952011670 ABC-ATPase subunit interface; other site 491952011671 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011672 dimer interface [polypeptide binding]; other site 491952011673 conserved gate region; other site 491952011674 putative PBP binding loops; other site 491952011675 ABC-ATPase subunit interface; other site 491952011676 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 491952011677 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 491952011678 Walker A/P-loop; other site 491952011679 ATP binding site [chemical binding]; other site 491952011680 Q-loop/lid; other site 491952011681 ABC transporter signature motif; other site 491952011682 Walker B; other site 491952011683 D-loop; other site 491952011684 H-loop/switch region; other site 491952011685 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 491952011686 Chorismate lyase; Region: Chor_lyase; cl01230 491952011687 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 491952011688 UbiA prenyltransferase family; Region: UbiA; pfam01040 491952011689 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 491952011690 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952011691 active site 491952011692 phosphorylation site [posttranslational modification] 491952011693 intermolecular recognition site; other site 491952011694 dimerization interface [polypeptide binding]; other site 491952011695 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 491952011696 DNA binding site [nucleotide binding] 491952011697 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 491952011698 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 491952011699 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 491952011700 dimer interface [polypeptide binding]; other site 491952011701 phosphorylation site [posttranslational modification] 491952011702 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 491952011703 ATP binding site [chemical binding]; other site 491952011704 Mg2+ binding site [ion binding]; other site 491952011705 G-X-G motif; other site 491952011706 Response regulator receiver domain; Region: Response_reg; pfam00072 491952011707 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952011708 active site 491952011709 phosphorylation site [posttranslational modification] 491952011710 intermolecular recognition site; other site 491952011711 dimerization interface [polypeptide binding]; other site 491952011712 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 491952011713 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 491952011714 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 491952011715 peptide binding site [polypeptide binding]; other site 491952011716 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 491952011717 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011718 dimer interface [polypeptide binding]; other site 491952011719 conserved gate region; other site 491952011720 putative PBP binding loops; other site 491952011721 ABC-ATPase subunit interface; other site 491952011722 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 491952011723 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 491952011724 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011725 dimer interface [polypeptide binding]; other site 491952011726 conserved gate region; other site 491952011727 putative PBP binding loops; other site 491952011728 ABC-ATPase subunit interface; other site 491952011729 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 491952011730 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952011731 Walker A/P-loop; other site 491952011732 ATP binding site [chemical binding]; other site 491952011733 Q-loop/lid; other site 491952011734 ABC transporter signature motif; other site 491952011735 Walker B; other site 491952011736 D-loop; other site 491952011737 H-loop/switch region; other site 491952011738 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 491952011739 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 491952011740 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 491952011741 Walker A/P-loop; other site 491952011742 ATP binding site [chemical binding]; other site 491952011743 Q-loop/lid; other site 491952011744 ABC transporter signature motif; other site 491952011745 Walker B; other site 491952011746 D-loop; other site 491952011747 H-loop/switch region; other site 491952011748 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 491952011749 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 491952011750 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952011751 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 491952011752 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 491952011753 ATP binding site [chemical binding]; other site 491952011754 Mg2+ binding site [ion binding]; other site 491952011755 G-X-G motif; other site 491952011756 Hpt domain; Region: Hpt; pfam01627 491952011757 putative binding surface; other site 491952011758 active site 491952011759 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 491952011760 GAF domain; Region: GAF_2; pfam13185 491952011761 transcriptional regulator PhoU; Provisional; Region: PRK11115 491952011762 PhoU domain; Region: PhoU; pfam01895 491952011763 PhoU domain; Region: PhoU; pfam01895 491952011764 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 491952011765 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 491952011766 Walker A/P-loop; other site 491952011767 ATP binding site [chemical binding]; other site 491952011768 Q-loop/lid; other site 491952011769 ABC transporter signature motif; other site 491952011770 Walker B; other site 491952011771 D-loop; other site 491952011772 H-loop/switch region; other site 491952011773 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 491952011774 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 491952011775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011776 dimer interface [polypeptide binding]; other site 491952011777 conserved gate region; other site 491952011778 putative PBP binding loops; other site 491952011779 ABC-ATPase subunit interface; other site 491952011780 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 491952011781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 491952011782 dimer interface [polypeptide binding]; other site 491952011783 conserved gate region; other site 491952011784 putative PBP binding loops; other site 491952011785 ABC-ATPase subunit interface; other site 491952011786 PBP superfamily domain; Region: PBP_like_2; cl17296 491952011787 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 491952011788 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 491952011789 DctM-like transporters; Region: DctM; pfam06808 491952011790 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 491952011791 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 491952011792 NAD(P) binding site [chemical binding]; other site 491952011793 Cupin domain; Region: Cupin_2; cl17218 491952011794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952011795 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 491952011796 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 491952011797 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 491952011798 Proline dehydrogenase; Region: Pro_dh; pfam01619 491952011799 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 491952011800 Glutamate binding site [chemical binding]; other site 491952011801 NAD binding site [chemical binding]; other site 491952011802 catalytic residues [active] 491952011803 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491952011804 NAD(P) binding site [chemical binding]; other site 491952011805 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 491952011806 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 491952011807 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 491952011808 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 491952011809 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 491952011810 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 491952011811 dimer interface [polypeptide binding]; other site 491952011812 phosphorylation site [posttranslational modification] 491952011813 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 491952011814 ATP binding site [chemical binding]; other site 491952011815 Mg2+ binding site [ion binding]; other site 491952011816 G-X-G motif; other site 491952011817 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 491952011818 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 491952011819 active site 491952011820 phosphorylation site [posttranslational modification] 491952011821 intermolecular recognition site; other site 491952011822 dimerization interface [polypeptide binding]; other site 491952011823 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 491952011824 DNA binding site [nucleotide binding] 491952011825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 491952011826 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 491952011827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 491952011828 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952011829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952011830 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 491952011831 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952011832 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 491952011833 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 491952011834 putative oxidoreductase; Provisional; Region: PRK11579 491952011835 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 491952011836 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 491952011837 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 491952011838 non-specific DNA binding site [nucleotide binding]; other site 491952011839 salt bridge; other site 491952011840 sequence-specific DNA binding site [nucleotide binding]; other site 491952011841 2TM domain; Region: 2TM; pfam13239 491952011842 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 491952011843 Part of AAA domain; Region: AAA_19; pfam13245 491952011844 Family description; Region: UvrD_C_2; pfam13538 491952011845 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 491952011846 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 491952011847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 491952011848 homodimer interface [polypeptide binding]; other site 491952011849 catalytic residue [active] 491952011850 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 491952011851 catalytic residues [active] 491952011852 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 491952011853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 491952011854 DNA-binding site [nucleotide binding]; DNA binding site 491952011855 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 491952011856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952011857 catalytic residue [active] 491952011858 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 491952011859 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 491952011860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 491952011861 catalytic residue [active] 491952011862 Fe-S metabolism associated domain; Region: SufE; cl00951 491952011863 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 491952011864 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 491952011865 putative ATP binding site [chemical binding]; other site 491952011866 putative substrate interface [chemical binding]; other site 491952011867 Predicted transcriptional regulators [Transcription]; Region: COG1378 491952011868 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 491952011869 dimerization interface [polypeptide binding]; other site 491952011870 putative Zn2+ binding site [ion binding]; other site 491952011871 putative DNA binding site [nucleotide binding]; other site 491952011872 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 491952011873 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 491952011874 gamma subunit interface [polypeptide binding]; other site 491952011875 epsilon subunit interface [polypeptide binding]; other site 491952011876 LBP interface [polypeptide binding]; other site 491952011877 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 491952011878 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491952011879 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 491952011880 alpha subunit interaction interface [polypeptide binding]; other site 491952011881 Walker A motif; other site 491952011882 ATP binding site [chemical binding]; other site 491952011883 Walker B motif; other site 491952011884 inhibitor binding site; inhibition site 491952011885 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491952011886 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 491952011887 core domain interface [polypeptide binding]; other site 491952011888 delta subunit interface [polypeptide binding]; other site 491952011889 epsilon subunit interface [polypeptide binding]; other site 491952011890 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 491952011891 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 491952011892 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 491952011893 beta subunit interaction interface [polypeptide binding]; other site 491952011894 Walker A motif; other site 491952011895 ATP binding site [chemical binding]; other site 491952011896 Walker B motif; other site 491952011897 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 491952011898 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 491952011899 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 491952011900 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 491952011901 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 491952011902 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 491952011903 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 491952011904 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 491952011905 ATP synthase I chain; Region: ATP_synt_I; cl09170 491952011906 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 491952011907 ParB-like nuclease domain; Region: ParBc; pfam02195 491952011908 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 491952011909 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 491952011910 P-loop; other site 491952011911 Magnesium ion binding site [ion binding]; other site 491952011912 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 491952011913 Magnesium ion binding site [ion binding]; other site 491952011914 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 491952011915 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 491952011916 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 491952011917 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 491952011918 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 491952011919 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 491952011920 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 491952011921 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 491952011922 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 491952011923 NADP binding site [chemical binding]; other site 491952011924 dimer interface [polypeptide binding]; other site 491952011925 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 491952011926 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 491952011927 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 491952011928 trmE is a tRNA modification GTPase; Region: trmE; cd04164 491952011929 G1 box; other site 491952011930 GTP/Mg2+ binding site [chemical binding]; other site 491952011931 Switch I region; other site 491952011932 G2 box; other site 491952011933 Switch II region; other site 491952011934 G3 box; other site 491952011935 G4 box; other site 491952011936 G5 box; other site 491952011937 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 491952011938 membrane protein insertase; Provisional; Region: PRK01318 491952011939 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 491952011940 Ribonuclease P; Region: Ribonuclease_P; cl00457 491952011941 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399