-- dump date 20140619_070226 -- class Genbank::misc_feature -- table misc_feature_note -- id note 479437000001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437000002 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 479437000003 ATP binding site [chemical binding]; other site 479437000004 Mg2+ binding site [ion binding]; other site 479437000005 G-X-G motif; other site 479437000006 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 479437000007 putative Zn2+ binding site [ion binding]; other site 479437000008 putative DNA binding site [nucleotide binding]; other site 479437000009 DnaA N-terminal domain; Region: DnaA_N; pfam11638 479437000010 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 479437000011 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 479437000012 Walker A motif; other site 479437000013 ATP binding site [chemical binding]; other site 479437000014 Walker B motif; other site 479437000015 arginine finger; other site 479437000016 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 479437000017 DnaA box-binding interface [nucleotide binding]; other site 479437000018 DNA polymerase III subunit beta; Validated; Region: PRK05643 479437000019 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 479437000020 putative DNA binding surface [nucleotide binding]; other site 479437000021 dimer interface [polypeptide binding]; other site 479437000022 beta-clamp/clamp loader binding surface; other site 479437000023 beta-clamp/translesion DNA polymerase binding surface; other site 479437000024 recombination protein F; Reviewed; Region: recF; PRK00064 479437000025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000026 Walker A/P-loop; other site 479437000027 ATP binding site [chemical binding]; other site 479437000028 Q-loop/lid; other site 479437000029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000030 ABC transporter signature motif; other site 479437000031 Walker B; other site 479437000032 D-loop; other site 479437000033 H-loop/switch region; other site 479437000034 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 479437000035 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 479437000036 Mg2+ binding site [ion binding]; other site 479437000037 G-X-G motif; other site 479437000038 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 479437000039 anchoring element; other site 479437000040 dimer interface [polypeptide binding]; other site 479437000041 ATP binding site [chemical binding]; other site 479437000042 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 479437000043 active site 479437000044 putative metal-binding site [ion binding]; other site 479437000045 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 479437000046 DNA gyrase subunit A; Validated; Region: PRK05560 479437000047 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 479437000048 CAP-like domain; other site 479437000049 active site 479437000050 primary dimer interface [polypeptide binding]; other site 479437000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 479437000057 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437000058 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 479437000059 Bifunctional nuclease; Region: DNase-RNase; pfam02577 479437000060 MULE transposase domain; Region: MULE; pfam10551 479437000061 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 479437000062 HSP70 interaction site [polypeptide binding]; other site 479437000063 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 479437000064 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 479437000065 G1 box; other site 479437000066 putative GEF interaction site [polypeptide binding]; other site 479437000067 GTP/Mg2+ binding site [chemical binding]; other site 479437000068 Switch I region; other site 479437000069 G2 box; other site 479437000070 G3 box; other site 479437000071 Switch II region; other site 479437000072 G4 box; other site 479437000073 G5 box; other site 479437000074 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 479437000075 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 479437000076 SurA N-terminal domain; Region: SurA_N_3; cl07813 479437000077 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 479437000078 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 479437000079 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000080 Walker A/P-loop; other site 479437000081 ATP binding site [chemical binding]; other site 479437000082 Q-loop/lid; other site 479437000083 ABC transporter signature motif; other site 479437000084 Walker B; other site 479437000085 D-loop; other site 479437000086 H-loop/switch region; other site 479437000087 Ricin-type beta-trefoil lectin domain-like; Region: RicinB_lectin_2; pfam14200 479437000088 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 479437000089 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cd00161 479437000090 putative sugar binding sites [chemical binding]; other site 479437000091 Q-X-W motif; other site 479437000092 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 479437000093 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 479437000094 intermolecular salt bridges; other site 479437000095 calcium mediated ligand binding site; other site 479437000096 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 479437000097 MarR family; Region: MarR_2; pfam12802 479437000098 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 479437000099 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 479437000100 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 479437000101 dimer interface [polypeptide binding]; other site 479437000102 ssDNA binding site [nucleotide binding]; other site 479437000103 tetramer (dimer of dimers) interface [polypeptide binding]; other site 479437000104 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 479437000105 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 479437000106 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 479437000107 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 479437000108 replicative DNA helicase; Region: DnaB; TIGR00665 479437000109 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 479437000110 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 479437000111 Walker A motif; other site 479437000112 ATP binding site [chemical binding]; other site 479437000113 Walker B motif; other site 479437000114 DNA binding loops [nucleotide binding] 479437000115 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 479437000116 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 479437000117 active site 479437000118 metal binding site [ion binding]; metal-binding site 479437000119 DNA binding site [nucleotide binding] 479437000120 AAA domain; Region: AAA_23; pfam13476 479437000121 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 479437000122 non-specific DNA binding site [nucleotide binding]; other site 479437000123 salt bridge; other site 479437000124 sequence-specific DNA binding site [nucleotide binding]; other site 479437000125 Helix-turn-helix domain; Region: HTH_18; pfam12833 479437000126 Predicted permeases [General function prediction only]; Region: COG0679 479437000127 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 479437000128 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 479437000129 active site 479437000130 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 479437000131 heterotetramer interface [polypeptide binding]; other site 479437000132 active site pocket [active] 479437000133 Membrane transport protein; Region: Mem_trans; cl09117 479437000134 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 479437000135 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 479437000136 GDP-binding site [chemical binding]; other site 479437000137 ACT binding site; other site 479437000138 IMP binding site; other site 479437000139 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 479437000140 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 479437000141 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 479437000142 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 479437000143 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 479437000144 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 479437000145 FeS/SAM binding site; other site 479437000146 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 479437000147 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 479437000148 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 479437000149 Walker A motif; other site 479437000150 ATP binding site [chemical binding]; other site 479437000151 Walker B motif; other site 479437000152 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 479437000153 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 479437000154 Walker A motif; other site 479437000155 ATP binding site [chemical binding]; other site 479437000156 Walker B motif; other site 479437000157 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 479437000158 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437000159 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437000160 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 479437000161 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 479437000162 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 479437000163 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 479437000164 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 479437000165 membrane-bound complex binding site; other site 479437000166 hinge residues; other site 479437000167 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 479437000168 membrane-bound complex binding site; other site 479437000169 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437000170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437000171 metal binding site [ion binding]; metal-binding site 479437000172 active site 479437000173 I-site; other site 479437000174 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 479437000175 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 479437000176 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 479437000177 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000178 AIR carboxylase; Region: AIRC; pfam00731 479437000179 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437000180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437000181 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 479437000182 DNA binding residues [nucleotide binding] 479437000183 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 479437000184 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 479437000185 dimer interface [polypeptide binding]; other site 479437000186 PYR/PP interface [polypeptide binding]; other site 479437000187 TPP binding site [chemical binding]; other site 479437000188 substrate binding site [chemical binding]; other site 479437000189 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 479437000190 TPP-binding site; other site 479437000191 4Fe-4S binding domain; Region: Fer4; pfam00037 479437000192 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 479437000193 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 479437000194 SnoaL-like domain; Region: SnoaL_3; pfam13474 479437000195 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437000196 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437000197 metal binding site [ion binding]; metal-binding site 479437000198 active site 479437000199 I-site; other site 479437000200 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437000201 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 479437000202 acyl-activating enzyme (AAE) consensus motif; other site 479437000203 AMP binding site [chemical binding]; other site 479437000204 active site 479437000205 CoA binding site [chemical binding]; other site 479437000206 Divergent AAA domain; Region: AAA_4; pfam04326 479437000207 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 479437000208 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 479437000209 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 479437000210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 479437000211 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 479437000212 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 479437000213 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 479437000214 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 479437000215 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 479437000216 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 479437000217 Na binding site [ion binding]; other site 479437000218 Uncharacterized conserved protein [Function unknown]; Region: COG1434 479437000219 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 479437000220 putative active site [active] 479437000221 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 479437000222 L-aspartate oxidase; Provisional; Region: PRK06175 479437000223 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000224 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437000225 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000226 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 479437000227 DNA binding residues [nucleotide binding] 479437000228 dimerization interface [polypeptide binding]; other site 479437000229 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 479437000230 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 479437000231 Predicted transcriptional regulator [Transcription]; Region: COG1959 479437000232 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 479437000233 dimerization interface [polypeptide binding]; other site 479437000234 putative DNA binding site [nucleotide binding]; other site 479437000235 putative Zn2+ binding site [ion binding]; other site 479437000236 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 479437000237 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 479437000238 PRC-barrel domain; Region: PRC; pfam05239 479437000239 MgtE intracellular N domain; Region: MgtE_N; smart00924 479437000240 FOG: CBS domain [General function prediction only]; Region: COG0517 479437000241 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 479437000242 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 479437000243 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 479437000244 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437000245 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437000246 Walker A/P-loop; other site 479437000247 ATP binding site [chemical binding]; other site 479437000248 Q-loop/lid; other site 479437000249 ABC transporter signature motif; other site 479437000250 Walker B; other site 479437000251 D-loop; other site 479437000252 H-loop/switch region; other site 479437000253 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000254 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 479437000255 putative active site [active] 479437000256 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000257 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 479437000258 Walker A/P-loop; other site 479437000259 ATP binding site [chemical binding]; other site 479437000260 Q-loop/lid; other site 479437000261 ABC transporter signature motif; other site 479437000262 Walker B; other site 479437000263 D-loop; other site 479437000264 H-loop/switch region; other site 479437000265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437000266 dimer interface [polypeptide binding]; other site 479437000267 conserved gate region; other site 479437000268 putative PBP binding loops; other site 479437000269 ABC-ATPase subunit interface; other site 479437000270 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 479437000271 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 479437000272 dimer interface [polypeptide binding]; other site 479437000273 Citrate synthase; Region: Citrate_synt; pfam00285 479437000274 active site 479437000275 citrylCoA binding site [chemical binding]; other site 479437000276 oxalacetate/citrate binding site [chemical binding]; other site 479437000277 coenzyme A binding site [chemical binding]; other site 479437000278 catalytic triad [active] 479437000279 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000280 L-aspartate oxidase; Provisional; Region: PRK06175 479437000281 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437000282 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437000283 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437000284 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 479437000285 dimerization interface [polypeptide binding]; other site 479437000286 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 479437000287 nucleoside/Zn binding site; other site 479437000288 dimer interface [polypeptide binding]; other site 479437000289 catalytic motif [active] 479437000290 4-diphosphocytidyl-2C-methyl-D-erythritol 2-phosphate synthase [Lipid metabolism]; Region: IspE; COG1947 479437000291 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 479437000292 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 479437000293 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 479437000294 dimer interface [polypeptide binding]; other site 479437000295 phosphorylation site [posttranslational modification] 479437000296 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 479437000297 ATP binding site [chemical binding]; other site 479437000298 Mg2+ binding site [ion binding]; other site 479437000299 G-X-G motif; other site 479437000300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437000301 active site 479437000302 phosphorylation site [posttranslational modification] 479437000303 intermolecular recognition site; other site 479437000304 dimerization interface [polypeptide binding]; other site 479437000305 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 479437000306 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437000307 MULE transposase domain; Region: MULE; pfam10551 479437000308 EamA-like transporter family; Region: EamA; pfam00892 479437000309 shikimate kinase; Reviewed; Region: aroK; PRK00131 479437000310 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 479437000311 ADP binding site [chemical binding]; other site 479437000312 magnesium binding site [ion binding]; other site 479437000313 putative shikimate binding site; other site 479437000314 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 479437000315 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 479437000316 Walker A motif; other site 479437000317 ATP binding site [chemical binding]; other site 479437000318 Walker B motif; other site 479437000319 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437000320 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437000321 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 479437000322 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; pfam09479 479437000323 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 479437000324 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 479437000325 FMN-binding domain; Region: FMN_bind; pfam04205 479437000326 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000327 L-aspartate oxidase; Provisional; Region: PRK06175 479437000328 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000329 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 479437000330 DNA binding residues [nucleotide binding] 479437000331 dimerization interface [polypeptide binding]; other site 479437000332 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 479437000333 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 479437000334 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 479437000335 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000336 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000337 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000338 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000339 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000340 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 479437000341 MarR family; Region: MarR; pfam01047 479437000342 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437000343 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437000344 molybdopterin cofactor binding site; other site 479437000345 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437000346 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437000347 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437000348 putative molybdopterin cofactor binding site; other site 479437000349 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437000350 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437000351 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437000352 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437000353 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437000354 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437000355 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437000356 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437000357 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437000358 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437000359 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 479437000360 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 479437000361 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 479437000362 active site 479437000363 putative catalytic site [active] 479437000364 DNA binding site [nucleotide binding] 479437000365 putative phosphate binding site [ion binding]; other site 479437000366 metal binding site A [ion binding]; metal-binding site 479437000367 AP binding site [nucleotide binding]; other site 479437000368 metal binding site B [ion binding]; metal-binding site 479437000369 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 479437000370 homodecamer interface [polypeptide binding]; other site 479437000371 GTP cyclohydrolase I; Provisional; Region: PLN03044 479437000372 active site 479437000373 putative catalytic site residues [active] 479437000374 zinc binding site [ion binding]; other site 479437000375 GTP-CH-I/GFRP interaction surface; other site 479437000376 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 479437000377 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000378 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 479437000379 DNA binding residues [nucleotide binding] 479437000380 dimerization interface [polypeptide binding]; other site 479437000381 hypothetical protein; Validated; Region: PRK07121 479437000382 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000383 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437000384 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437000385 HipA-like C-terminal domain; Region: HipA_C; pfam07804 479437000386 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 479437000387 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 479437000388 tetramer interface [polypeptide binding]; other site 479437000389 heme binding pocket [chemical binding]; other site 479437000390 NADPH binding site [chemical binding]; other site 479437000391 Serpin (serine protease inhibitor); Region: Serpin; pfam00079 479437000392 reactive center loop; other site 479437000393 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 479437000394 Zn binding site [ion binding]; other site 479437000395 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 479437000396 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 479437000397 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000398 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 479437000399 DNA binding residues [nucleotide binding] 479437000400 dimerization interface [polypeptide binding]; other site 479437000401 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 479437000402 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437000403 active site 479437000404 FMN binding site [chemical binding]; other site 479437000405 substrate binding site [chemical binding]; other site 479437000406 putative catalytic residue [active] 479437000407 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 479437000408 dipeptidase PepV; Reviewed; Region: PRK07318 479437000409 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 479437000410 active site 479437000411 metal binding site [ion binding]; metal-binding site 479437000412 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 479437000413 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 479437000414 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 479437000415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437000416 active site 479437000417 phosphorylation site [posttranslational modification] 479437000418 intermolecular recognition site; other site 479437000419 dimerization interface [polypeptide binding]; other site 479437000420 LytTr DNA-binding domain; Region: LytTR; smart00850 479437000421 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 479437000422 Rubrerythrin [Energy production and conversion]; Region: COG1592 479437000423 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 479437000424 binuclear metal center [ion binding]; other site 479437000425 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 479437000426 iron binding site [ion binding]; other site 479437000427 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 479437000428 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 479437000429 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 479437000430 Acylphosphatase; Region: Acylphosphatase; pfam00708 479437000431 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 479437000432 HypF finger; Region: zf-HYPF; pfam07503 479437000433 HypF finger; Region: zf-HYPF; pfam07503 479437000434 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 479437000435 HupF/HypC family; Region: HupF_HypC; pfam01455 479437000436 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 479437000437 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 479437000438 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 479437000439 Amidinotransferase; Region: Amidinotransf; cl12043 479437000440 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 479437000441 EamA-like transporter family; Region: EamA; pfam00892 479437000442 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 479437000443 metabolite-proton symporter; Region: 2A0106; TIGR00883 479437000444 putative substrate translocation pore; other site 479437000445 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000446 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 479437000447 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 479437000448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437000449 catalytic residue [active] 479437000450 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437000451 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 479437000452 non-specific DNA binding site [nucleotide binding]; other site 479437000453 salt bridge; other site 479437000454 sequence-specific DNA binding site [nucleotide binding]; other site 479437000455 Cna protein B-type domain; Region: Cna_B; pfam05738 479437000456 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 479437000457 domain interaction interfaces [polypeptide binding]; other site 479437000458 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 479437000459 domain interaction interfaces [polypeptide binding]; other site 479437000460 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 479437000461 domain interaction interfaces [polypeptide binding]; other site 479437000462 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 479437000463 domain interaction interfaces [polypeptide binding]; other site 479437000464 Repeat unit of collagen-binding protein domain B; Region: CollagenBindB; cd00222 479437000465 domain interaction interfaces [polypeptide binding]; other site 479437000466 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 479437000467 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 479437000468 potential catalytic triad [active] 479437000469 conserved cys residue [active] 479437000470 Amidinotransferase; Region: Amidinotransf; cl12043 479437000471 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000472 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 479437000473 DNA binding residues [nucleotide binding] 479437000474 dimerization interface [polypeptide binding]; other site 479437000475 transaminase; Validated; Region: PRK07324 479437000476 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 479437000477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437000478 homodimer interface [polypeptide binding]; other site 479437000479 catalytic residue [active] 479437000480 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 479437000481 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000482 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 479437000483 DNA binding residues [nucleotide binding] 479437000484 dimerization interface [polypeptide binding]; other site 479437000485 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437000486 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000487 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 479437000488 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 479437000489 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 479437000490 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 479437000491 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 479437000492 ligand binding site [chemical binding]; other site 479437000493 flexible hinge region; other site 479437000494 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 479437000495 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 479437000496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437000497 putative substrate translocation pore; other site 479437000498 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437000499 molybdopterin cofactor binding site; other site 479437000500 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437000501 molybdopterin cofactor binding site; other site 479437000502 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437000503 4Fe-4S binding domain; Region: Fer4; cl02805 479437000504 FAD binding domain; Region: FAD_binding_2; pfam00890 479437000505 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437000506 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000507 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 479437000508 DNA binding residues [nucleotide binding] 479437000509 dimerization interface [polypeptide binding]; other site 479437000510 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 479437000511 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 479437000512 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 479437000513 ADP-ribose binding site [chemical binding]; other site 479437000514 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 479437000515 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 479437000516 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000517 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 479437000518 DNA binding residues [nucleotide binding] 479437000519 dimerization interface [polypeptide binding]; other site 479437000520 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437000521 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000522 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 479437000523 putative active site [active] 479437000524 hypothetical protein; Provisional; Region: PRK05463 479437000525 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 479437000526 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 479437000527 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 479437000528 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 479437000529 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 479437000530 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 479437000531 carboxyltransferase (CT) interaction site; other site 479437000532 biotinylation site [posttranslational modification]; other site 479437000533 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 479437000534 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 479437000535 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 479437000536 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 479437000537 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 479437000538 Ligand Binding Site [chemical binding]; other site 479437000539 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000540 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 479437000541 DNA binding residues [nucleotide binding] 479437000542 dimerization interface [polypeptide binding]; other site 479437000543 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000544 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 479437000545 DNA binding residues [nucleotide binding] 479437000546 dimerization interface [polypeptide binding]; other site 479437000547 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 479437000548 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437000549 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000550 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437000551 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437000552 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000553 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 479437000554 DNA binding residues [nucleotide binding] 479437000555 dimerization interface [polypeptide binding]; other site 479437000556 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 479437000557 aspartate aminotransferase; Provisional; Region: PRK06836 479437000558 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 479437000559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437000560 homodimer interface [polypeptide binding]; other site 479437000561 catalytic residue [active] 479437000562 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 479437000563 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 479437000564 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 479437000565 substrate binding site [chemical binding]; other site 479437000566 ATP binding site [chemical binding]; other site 479437000567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437000568 metal binding site [ion binding]; metal-binding site 479437000569 active site 479437000570 I-site; other site 479437000571 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 479437000572 PAS domain S-box; Region: sensory_box; TIGR00229 479437000573 PAS domain; Region: PAS_9; pfam13426 479437000574 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 479437000575 putative active site [active] 479437000576 heme pocket [chemical binding]; other site 479437000577 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 479437000578 PAS fold; Region: PAS_3; pfam08447 479437000579 putative active site [active] 479437000580 heme pocket [chemical binding]; other site 479437000581 PAS domain; Region: PAS_9; pfam13426 479437000582 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437000583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437000584 metal binding site [ion binding]; metal-binding site 479437000585 active site 479437000586 I-site; other site 479437000587 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 479437000588 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437000589 putative substrate translocation pore; other site 479437000590 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 479437000591 FOG: CBS domain [General function prediction only]; Region: COG0517 479437000592 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 479437000593 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 479437000594 putative active site [active] 479437000595 heat shock protein 90; Provisional; Region: PRK05218 479437000596 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 479437000597 ATP binding site [chemical binding]; other site 479437000598 Mg2+ binding site [ion binding]; other site 479437000599 G-X-G motif; other site 479437000600 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 479437000601 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 479437000602 active site 479437000603 metal binding site [ion binding]; metal-binding site 479437000604 Protein of unknown function DUF137; Region: DUF137; cl03400 479437000605 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 479437000606 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 479437000607 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 479437000608 DNA binding residues [nucleotide binding] 479437000609 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 479437000610 DNA binding residues [nucleotide binding] 479437000611 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437000612 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437000613 Walker A/P-loop; other site 479437000614 ATP binding site [chemical binding]; other site 479437000615 Q-loop/lid; other site 479437000616 ABC transporter signature motif; other site 479437000617 Walker B; other site 479437000618 D-loop; other site 479437000619 H-loop/switch region; other site 479437000620 ABC-2 type transporter; Region: ABC2_membrane; cl17235 479437000621 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 479437000622 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 479437000623 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 479437000624 trimer interface [polypeptide binding]; other site 479437000625 putative metal binding site [ion binding]; other site 479437000626 glucose-1-dehydrogenase; Provisional; Region: PRK08936 479437000627 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 479437000628 NAD binding site [chemical binding]; other site 479437000629 homodimer interface [polypeptide binding]; other site 479437000630 active site 479437000631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 479437000632 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 479437000633 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 479437000634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 479437000635 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; pfam09989 479437000636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437000637 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 479437000638 LysR substrate binding domain; Region: LysR_substrate; pfam03466 479437000639 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 479437000640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 479437000641 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 479437000642 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 479437000643 Ligand Binding Site [chemical binding]; other site 479437000644 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 479437000645 active site residue [active] 479437000646 L-aspartate oxidase; Provisional; Region: PRK06175 479437000647 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000648 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437000649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000650 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 479437000651 DNA binding residues [nucleotide binding] 479437000652 dimerization interface [polypeptide binding]; other site 479437000653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437000654 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 479437000655 putative substrate translocation pore; other site 479437000656 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 479437000657 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 479437000658 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 479437000659 Isochorismatase family; Region: Isochorismatase; pfam00857 479437000660 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 479437000661 catalytic triad [active] 479437000662 conserved cis-peptide bond; other site 479437000663 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 479437000664 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 479437000665 ligand binding site [chemical binding]; other site 479437000666 flexible hinge region; other site 479437000667 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 479437000668 hybrid cluster protein; Provisional; Region: PRK05290 479437000669 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 479437000670 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 479437000671 metal cluster binding site [ion binding]; other site 479437000672 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 479437000673 diiron binding motif [ion binding]; other site 479437000674 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 479437000675 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 479437000676 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 479437000677 homodimer interface [polypeptide binding]; other site 479437000678 metal binding site [ion binding]; metal-binding site 479437000679 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 479437000680 homodimer interface [polypeptide binding]; other site 479437000681 active site 479437000682 putative chemical substrate binding site [chemical binding]; other site 479437000683 metal binding site [ion binding]; metal-binding site 479437000684 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 479437000685 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 479437000686 synthetase active site [active] 479437000687 NTP binding site [chemical binding]; other site 479437000688 metal binding site [ion binding]; metal-binding site 479437000689 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 479437000690 gating phenylalanine in ion channel; other site 479437000691 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437000692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437000693 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 479437000694 putative dimerization interface [polypeptide binding]; other site 479437000695 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 479437000696 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 479437000697 active site 479437000698 catalytic tetrad [active] 479437000699 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 479437000700 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 479437000701 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 479437000702 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 479437000703 Walker A/P-loop; other site 479437000704 ATP binding site [chemical binding]; other site 479437000705 Q-loop/lid; other site 479437000706 ABC transporter signature motif; other site 479437000707 Walker B; other site 479437000708 D-loop; other site 479437000709 H-loop/switch region; other site 479437000710 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 479437000711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437000712 dimer interface [polypeptide binding]; other site 479437000713 conserved gate region; other site 479437000714 ABC-ATPase subunit interface; other site 479437000715 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 479437000716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437000717 dimer interface [polypeptide binding]; other site 479437000718 conserved gate region; other site 479437000719 ABC-ATPase subunit interface; other site 479437000720 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 479437000721 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 479437000722 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 479437000723 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 479437000724 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 479437000725 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437000726 Walker A/P-loop; other site 479437000727 ATP binding site [chemical binding]; other site 479437000728 Q-loop/lid; other site 479437000729 ABC transporter signature motif; other site 479437000730 Walker B; other site 479437000731 D-loop; other site 479437000732 H-loop/switch region; other site 479437000733 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 479437000734 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 479437000735 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 479437000736 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 479437000737 active site 479437000738 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 479437000739 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437000740 Walker A/P-loop; other site 479437000741 ATP binding site [chemical binding]; other site 479437000742 Q-loop/lid; other site 479437000743 ABC transporter signature motif; other site 479437000744 Walker B; other site 479437000745 D-loop; other site 479437000746 H-loop/switch region; other site 479437000747 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 479437000748 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 479437000749 active site 479437000750 Oxygen evolving enhancer protein 3 (PsbQ); Region: PsbQ; cl05363 479437000751 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 479437000752 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 479437000753 transmembrane helices; other site 479437000754 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 479437000755 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 479437000756 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437000757 substrate binding pocket [chemical binding]; other site 479437000758 membrane-bound complex binding site; other site 479437000759 hinge residues; other site 479437000760 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 479437000761 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437000762 dimer interface [polypeptide binding]; other site 479437000763 conserved gate region; other site 479437000764 putative PBP binding loops; other site 479437000765 ABC-ATPase subunit interface; other site 479437000766 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 479437000767 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 479437000768 Walker A/P-loop; other site 479437000769 ATP binding site [chemical binding]; other site 479437000770 Q-loop/lid; other site 479437000771 ABC transporter signature motif; other site 479437000772 Walker B; other site 479437000773 D-loop; other site 479437000774 H-loop/switch region; other site 479437000775 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 479437000776 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 479437000777 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 479437000778 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 479437000779 Yqey-like protein; Region: YqeY; pfam09424 479437000780 Uncharacterized conserved protein [Function unknown]; Region: COG3402 479437000781 Predicted membrane protein [Function unknown]; Region: COG3428 479437000782 Bacterial PH domain; Region: DUF304; pfam03703 479437000783 Bacterial PH domain; Region: DUF304; pfam03703 479437000784 Bacterial PH domain; Region: DUF304; pfam03703 479437000785 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 479437000786 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 479437000787 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 479437000788 Domain of unknown function DUF21; Region: DUF21; pfam01595 479437000789 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 479437000790 Transporter associated domain; Region: CorC_HlyC; smart01091 479437000791 PspC domain; Region: PspC; pfam04024 479437000792 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 479437000793 TrkA-N domain; Region: TrkA_N; pfam02254 479437000794 TrkA-C domain; Region: TrkA_C; pfam02080 479437000795 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 479437000796 TrkA-N domain; Region: TrkA_N; pfam02254 479437000797 TrkA-C domain; Region: TrkA_C; pfam02080 479437000798 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 479437000799 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 479437000800 L-aspartate oxidase; Provisional; Region: PRK06175 479437000801 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 479437000802 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 479437000803 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 479437000804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000805 MOSC domain; Region: MOSC; pfam03473 479437000806 adenylosuccinate lyase; Provisional; Region: PRK07492 479437000807 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 479437000808 tetramer interface [polypeptide binding]; other site 479437000809 active site 479437000810 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 479437000811 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437000812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437000813 active site 479437000814 phosphorylation site [posttranslational modification] 479437000815 intermolecular recognition site; other site 479437000816 dimerization interface [polypeptide binding]; other site 479437000817 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 479437000818 DNA binding site [nucleotide binding] 479437000819 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437000820 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 479437000821 dimerization interface [polypeptide binding]; other site 479437000822 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 479437000823 dimer interface [polypeptide binding]; other site 479437000824 phosphorylation site [posttranslational modification] 479437000825 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 479437000826 ATP binding site [chemical binding]; other site 479437000827 Mg2+ binding site [ion binding]; other site 479437000828 G-X-G motif; other site 479437000829 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 479437000830 active site 479437000831 ATP binding site [chemical binding]; other site 479437000832 substrate binding site [chemical binding]; other site 479437000833 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 479437000834 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 479437000835 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 479437000836 dimerization interface [polypeptide binding]; other site 479437000837 ATP binding site [chemical binding]; other site 479437000838 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 479437000839 dimerization interface [polypeptide binding]; other site 479437000840 ATP binding site [chemical binding]; other site 479437000841 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 479437000842 putative active site [active] 479437000843 catalytic triad [active] 479437000844 Short C-terminal domain; Region: SHOCT; pfam09851 479437000845 YoaP-like; Region: YoaP; pfam14268 479437000846 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 479437000847 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437000848 putative substrate translocation pore; other site 479437000849 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 479437000850 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000851 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 479437000852 DNA binding residues [nucleotide binding] 479437000853 dimerization interface [polypeptide binding]; other site 479437000854 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000855 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 479437000856 Asp23 family; Region: Asp23; pfam03780 479437000857 Small integral membrane protein (DUF2273); Region: DUF2273; pfam10031 479437000858 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437000859 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437000860 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 479437000861 DNA binding residues [nucleotide binding] 479437000862 diaminopimelate decarboxylase; Region: lysA; TIGR01048 479437000863 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 479437000864 active site 479437000865 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 479437000866 substrate binding site [chemical binding]; other site 479437000867 catalytic residues [active] 479437000868 dimer interface [polypeptide binding]; other site 479437000869 homoserine dehydrogenase; Provisional; Region: PRK06349 479437000870 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 479437000871 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 479437000872 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 479437000873 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 479437000874 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 479437000875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437000876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437000877 metal binding site [ion binding]; metal-binding site 479437000878 active site 479437000879 I-site; other site 479437000880 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 479437000881 TFIIH C1-like domain; Region: C1_4; cl06838 479437000882 MarR family; Region: MarR_2; cl17246 479437000883 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 479437000884 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 479437000885 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 479437000886 HSP70 interaction site [polypeptide binding]; other site 479437000887 Tetratricopeptide repeat; Region: TPR_16; pfam13432 479437000888 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 479437000889 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 479437000890 nucleotide binding site [chemical binding]; other site 479437000891 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437000892 active site 479437000893 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437000894 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437000895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437000896 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 479437000897 DNA binding residues [nucleotide binding] 479437000898 dimerization interface [polypeptide binding]; other site 479437000899 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 479437000900 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 479437000901 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 479437000902 motif II; other site 479437000903 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 479437000904 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 479437000905 Homoserine O-succinyltransferase; Region: HTS; pfam04204 479437000906 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 479437000907 proposed active site lysine [active] 479437000908 conserved cys residue [active] 479437000909 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 479437000910 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 479437000911 homodimer interface [polypeptide binding]; other site 479437000912 substrate-cofactor binding pocket; other site 479437000913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437000914 catalytic residue [active] 479437000915 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 479437000916 metal coordination site [ion binding]; other site 479437000917 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 479437000918 metal coordination site [ion binding]; other site 479437000919 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 479437000920 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 479437000921 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437000922 FeoA domain; Region: FeoA; pfam04023 479437000923 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 479437000924 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 479437000925 G1 box; other site 479437000926 GTP/Mg2+ binding site [chemical binding]; other site 479437000927 Switch I region; other site 479437000928 G2 box; other site 479437000929 G3 box; other site 479437000930 Switch II region; other site 479437000931 G4 box; other site 479437000932 G5 box; other site 479437000933 Nucleoside recognition; Region: Gate; pfam07670 479437000934 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 479437000935 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 479437000936 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437000937 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437000938 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 479437000939 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 479437000940 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 479437000941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 479437000942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437000943 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437000944 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437000945 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437000946 Walker A/P-loop; other site 479437000947 ATP binding site [chemical binding]; other site 479437000948 Q-loop/lid; other site 479437000949 ABC transporter signature motif; other site 479437000950 Walker B; other site 479437000951 D-loop; other site 479437000952 H-loop/switch region; other site 479437000953 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000954 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437000955 Walker A/P-loop; other site 479437000956 ATP binding site [chemical binding]; other site 479437000957 Q-loop/lid; other site 479437000958 ABC transporter signature motif; other site 479437000959 Walker B; other site 479437000960 D-loop; other site 479437000961 H-loop/switch region; other site 479437000962 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437000963 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437000964 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437000965 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437000966 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437000967 Walker A/P-loop; other site 479437000968 ATP binding site [chemical binding]; other site 479437000969 ABC transporter; Region: ABC_tran; pfam00005 479437000970 Q-loop/lid; other site 479437000971 ABC transporter signature motif; other site 479437000972 Walker B; other site 479437000973 D-loop; other site 479437000974 H-loop/switch region; other site 479437000975 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437000976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000977 Walker A/P-loop; other site 479437000978 ATP binding site [chemical binding]; other site 479437000979 Q-loop/lid; other site 479437000980 ABC transporter signature motif; other site 479437000981 Walker B; other site 479437000982 D-loop; other site 479437000983 H-loop/switch region; other site 479437000984 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437000985 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437000986 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000987 Walker A/P-loop; other site 479437000988 ATP binding site [chemical binding]; other site 479437000989 Q-loop/lid; other site 479437000990 ABC transporter signature motif; other site 479437000991 Walker B; other site 479437000992 D-loop; other site 479437000993 H-loop/switch region; other site 479437000994 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437000995 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437000996 Walker A/P-loop; other site 479437000997 ATP binding site [chemical binding]; other site 479437000998 Q-loop/lid; other site 479437000999 ABC transporter signature motif; other site 479437001000 Walker B; other site 479437001001 D-loop; other site 479437001002 H-loop/switch region; other site 479437001003 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 479437001004 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 479437001005 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 479437001006 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 479437001007 active site 479437001008 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 479437001009 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437001010 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 479437001011 Cobalt transport protein; Region: CbiQ; cl00463 479437001012 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437001013 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437001014 Walker A/P-loop; other site 479437001015 ATP binding site [chemical binding]; other site 479437001016 Q-loop/lid; other site 479437001017 ABC transporter signature motif; other site 479437001018 Walker B; other site 479437001019 D-loop; other site 479437001020 H-loop/switch region; other site 479437001021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001022 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437001023 Walker A/P-loop; other site 479437001024 ATP binding site [chemical binding]; other site 479437001025 Q-loop/lid; other site 479437001026 ABC transporter signature motif; other site 479437001027 Walker B; other site 479437001028 D-loop; other site 479437001029 H-loop/switch region; other site 479437001030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 479437001031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437001032 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437001033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437001034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001035 Walker A/P-loop; other site 479437001036 ATP binding site [chemical binding]; other site 479437001037 Q-loop/lid; other site 479437001038 ABC transporter signature motif; other site 479437001039 Walker B; other site 479437001040 D-loop; other site 479437001041 H-loop/switch region; other site 479437001042 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437001043 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001044 Walker A/P-loop; other site 479437001045 ATP binding site [chemical binding]; other site 479437001046 Q-loop/lid; other site 479437001047 ABC transporter signature motif; other site 479437001048 Walker B; other site 479437001049 D-loop; other site 479437001050 H-loop/switch region; other site 479437001051 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 479437001052 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437001053 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 479437001054 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437001055 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437001056 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437001057 Walker A/P-loop; other site 479437001058 ATP binding site [chemical binding]; other site 479437001059 Q-loop/lid; other site 479437001060 ABC transporter signature motif; other site 479437001061 Walker B; other site 479437001062 D-loop; other site 479437001063 H-loop/switch region; other site 479437001064 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437001065 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 479437001066 Walker A/P-loop; other site 479437001067 ATP binding site [chemical binding]; other site 479437001068 Q-loop/lid; other site 479437001069 ABC transporter signature motif; other site 479437001070 Walker B; other site 479437001071 D-loop; other site 479437001072 H-loop/switch region; other site 479437001073 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 479437001074 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437001075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001076 Walker A/P-loop; other site 479437001077 ATP binding site [chemical binding]; other site 479437001078 Q-loop/lid; other site 479437001079 ABC transporter signature motif; other site 479437001080 Walker B; other site 479437001081 D-loop; other site 479437001082 H-loop/switch region; other site 479437001083 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437001084 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437001085 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001086 Walker A/P-loop; other site 479437001087 ATP binding site [chemical binding]; other site 479437001088 Q-loop/lid; other site 479437001089 ABC transporter signature motif; other site 479437001090 Walker B; other site 479437001091 D-loop; other site 479437001092 H-loop/switch region; other site 479437001093 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 479437001094 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437001095 Walker A/P-loop; other site 479437001096 ATP binding site [chemical binding]; other site 479437001097 Q-loop/lid; other site 479437001098 ABC transporter signature motif; other site 479437001099 Walker B; other site 479437001100 D-loop; other site 479437001101 H-loop/switch region; other site 479437001102 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001103 Walker A/P-loop; other site 479437001104 ATP binding site [chemical binding]; other site 479437001105 Q-loop/lid; other site 479437001106 ABC transporter signature motif; other site 479437001107 Walker B; other site 479437001108 D-loop; other site 479437001109 H-loop/switch region; other site 479437001110 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437001111 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437001112 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437001113 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437001114 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437001115 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437001116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001117 Walker A/P-loop; other site 479437001118 ATP binding site [chemical binding]; other site 479437001119 Q-loop/lid; other site 479437001120 ABC transporter signature motif; other site 479437001121 Walker B; other site 479437001122 D-loop; other site 479437001123 H-loop/switch region; other site 479437001124 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437001125 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437001126 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437001127 Walker A/P-loop; other site 479437001128 ATP binding site [chemical binding]; other site 479437001129 Q-loop/lid; other site 479437001130 ABC transporter signature motif; other site 479437001131 Walker B; other site 479437001132 D-loop; other site 479437001133 H-loop/switch region; other site 479437001134 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 479437001135 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437001136 putative substrate translocation pore; other site 479437001137 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 479437001138 PAS domain; Region: PAS_9; pfam13426 479437001139 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437001140 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437001141 metal binding site [ion binding]; metal-binding site 479437001142 active site 479437001143 I-site; other site 479437001144 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001145 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 479437001146 DNA binding residues [nucleotide binding] 479437001147 dimerization interface [polypeptide binding]; other site 479437001148 FAD binding domain; Region: FAD_binding_2; pfam00890 479437001149 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001150 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 479437001151 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 479437001152 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 479437001153 23S rRNA interface [nucleotide binding]; other site 479437001154 L3 interface [polypeptide binding]; other site 479437001155 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 479437001156 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437001157 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 479437001158 Coenzyme A binding pocket [chemical binding]; other site 479437001159 Predicted transcriptional regulators [Transcription]; Region: COG1733 479437001160 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 479437001161 EthD domain; Region: EthD; cl17553 479437001162 EthD domain; Region: EthD; cl17553 479437001163 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 479437001164 metabolite-proton symporter; Region: 2A0106; TIGR00883 479437001165 putative substrate translocation pore; other site 479437001166 EthD domain; Region: EthD; cl17553 479437001167 EthD domain; Region: EthD; cl17553 479437001168 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 479437001169 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437001170 active site 479437001171 FMN binding site [chemical binding]; other site 479437001172 substrate binding site [chemical binding]; other site 479437001173 putative catalytic residue [active] 479437001174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 479437001175 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 479437001176 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 479437001177 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437001178 active site 479437001179 FMN binding site [chemical binding]; other site 479437001180 substrate binding site [chemical binding]; other site 479437001181 putative catalytic residue [active] 479437001182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437001183 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 479437001184 putative substrate translocation pore; other site 479437001185 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 479437001186 EthD domain; Region: EthD; cl17553 479437001187 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 479437001188 classical (c) SDRs; Region: SDR_c; cd05233 479437001189 NAD(P) binding site [chemical binding]; other site 479437001190 active site 479437001191 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 479437001192 classical (c) SDRs; Region: SDR_c; cd05233 479437001193 NAD(P) binding site [chemical binding]; other site 479437001194 active site 479437001195 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 479437001196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 479437001197 NAD(P) binding site [chemical binding]; other site 479437001198 active site 479437001199 SnoaL-like domain; Region: SnoaL_4; pfam13577 479437001200 EthD domain; Region: EthD; cl17553 479437001201 EthD domain; Region: EthD; pfam07110 479437001202 FAD binding domain; Region: FAD_binding_2; pfam00890 479437001203 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001204 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 479437001205 DNA binding residues [nucleotide binding] 479437001206 dimerization interface [polypeptide binding]; other site 479437001207 RelB antitoxin; Region: RelB; cl01171 479437001208 PIN domain; Region: PIN_3; pfam13470 479437001209 hypothetical protein; Validated; Region: PRK07121 479437001210 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001211 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001212 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 479437001213 DNA binding residues [nucleotide binding] 479437001214 dimerization interface [polypeptide binding]; other site 479437001215 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 479437001216 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 479437001217 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 479437001218 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 479437001219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437001220 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 479437001221 putative substrate translocation pore; other site 479437001222 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437001223 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 479437001224 dimer interface [polypeptide binding]; other site 479437001225 phosphorylation site [posttranslational modification] 479437001226 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 479437001227 ATP binding site [chemical binding]; other site 479437001228 Mg2+ binding site [ion binding]; other site 479437001229 G-X-G motif; other site 479437001230 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437001231 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437001232 active site 479437001233 phosphorylation site [posttranslational modification] 479437001234 intermolecular recognition site; other site 479437001235 dimerization interface [polypeptide binding]; other site 479437001236 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 479437001237 DNA binding site [nucleotide binding] 479437001238 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 479437001239 putative metal binding residues [ion binding]; other site 479437001240 signature motif; other site 479437001241 dimer interface [polypeptide binding]; other site 479437001242 active site 479437001243 polyP binding site; other site 479437001244 substrate binding site [chemical binding]; other site 479437001245 acceptor-phosphate pocket; other site 479437001246 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 479437001247 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 479437001248 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 479437001249 homodimer interface [polypeptide binding]; other site 479437001250 substrate-cofactor binding pocket; other site 479437001251 catalytic residue [active] 479437001252 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 479437001253 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 479437001254 active site 479437001255 catalytic residues [active] 479437001256 metal binding site [ion binding]; metal-binding site 479437001257 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 479437001258 Trp repressor protein; Region: Trp_repressor; cl17266 479437001259 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437001260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437001261 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437001262 NlpC/P60 family; Region: NLPC_P60; pfam00877 479437001263 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 479437001264 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437001265 Zn2+ binding site [ion binding]; other site 479437001266 Mg2+ binding site [ion binding]; other site 479437001267 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437001268 Zn2+ binding site [ion binding]; other site 479437001269 Mg2+ binding site [ion binding]; other site 479437001270 Isochorismatase family; Region: Isochorismatase; pfam00857 479437001271 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 479437001272 catalytic triad [active] 479437001273 conserved cis-peptide bond; other site 479437001274 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 479437001275 dimer interface [polypeptide binding]; other site 479437001276 active site 479437001277 ADP-ribose binding site [chemical binding]; other site 479437001278 nudix motif; other site 479437001279 metal binding site [ion binding]; metal-binding site 479437001280 NAD-dependent deacetylase; Provisional; Region: PRK00481 479437001281 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 479437001282 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 479437001283 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 479437001284 putative dimer interface [polypeptide binding]; other site 479437001285 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 479437001286 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001287 DNA binding residues [nucleotide binding] 479437001288 dimerization interface [polypeptide binding]; other site 479437001289 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 479437001290 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 479437001291 metal coordination site [ion binding]; other site 479437001292 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 479437001293 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 479437001294 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 479437001295 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 479437001296 active site 479437001297 metal binding site [ion binding]; metal-binding site 479437001298 homotetramer interface [polypeptide binding]; other site 479437001299 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_cladeD; cd03379 479437001300 active site clefts [active] 479437001301 zinc binding site [ion binding]; other site 479437001302 dimer interface [polypeptide binding]; other site 479437001303 Rubrerythrin [Energy production and conversion]; Region: COG1592 479437001304 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 479437001305 binuclear metal center [ion binding]; other site 479437001306 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 479437001307 iron binding site [ion binding]; other site 479437001308 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437001309 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437001310 Walker A/P-loop; other site 479437001311 ATP binding site [chemical binding]; other site 479437001312 Q-loop/lid; other site 479437001313 ABC transporter signature motif; other site 479437001314 Walker B; other site 479437001315 D-loop; other site 479437001316 H-loop/switch region; other site 479437001317 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 479437001318 FtsX-like permease family; Region: FtsX; pfam02687 479437001319 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 479437001320 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 479437001321 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 479437001322 metal binding site [ion binding]; metal-binding site 479437001323 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 479437001324 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 479437001325 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 479437001326 Walker A/P-loop; other site 479437001327 ATP binding site [chemical binding]; other site 479437001328 Q-loop/lid; other site 479437001329 ABC transporter signature motif; other site 479437001330 Walker B; other site 479437001331 D-loop; other site 479437001332 H-loop/switch region; other site 479437001333 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 479437001334 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 479437001335 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 479437001336 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 479437001337 Na2 binding site [ion binding]; other site 479437001338 putative substrate binding site 1 [chemical binding]; other site 479437001339 Na binding site 1 [ion binding]; other site 479437001340 putative substrate binding site 2 [chemical binding]; other site 479437001341 FMN-binding domain; Region: FMN_bind; cl01081 479437001342 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001343 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437001344 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001345 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001346 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001347 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 479437001348 DNA binding residues [nucleotide binding] 479437001349 dimerization interface [polypeptide binding]; other site 479437001350 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07107 479437001351 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 479437001352 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_2; cd04602 479437001353 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 479437001354 active site 479437001355 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437001356 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437001357 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 479437001358 dimerization interface [polypeptide binding]; other site 479437001359 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 479437001360 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437001361 acyl-activating enzyme (AAE) consensus motif; other site 479437001362 AMP binding site [chemical binding]; other site 479437001363 active site 479437001364 CoA binding site [chemical binding]; other site 479437001365 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 479437001366 dimerization interface [polypeptide binding]; other site 479437001367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437001368 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437001369 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 479437001370 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 479437001371 ornithine carbamoyltransferase; Validated; Region: PRK02102 479437001372 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437001373 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437001374 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437001375 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 479437001376 putative substrate translocation pore; other site 479437001377 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 479437001378 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 479437001379 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 479437001380 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 479437001381 pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK08367 479437001382 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 479437001383 dimer interface [polypeptide binding]; other site 479437001384 PYR/PP interface [polypeptide binding]; other site 479437001385 TPP binding site [chemical binding]; other site 479437001386 substrate binding site [chemical binding]; other site 479437001387 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 479437001388 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 479437001389 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 479437001390 TPP-binding site [chemical binding]; other site 479437001391 putative dimer interface [polypeptide binding]; other site 479437001392 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 479437001393 non-specific DNA binding site [nucleotide binding]; other site 479437001394 salt bridge; other site 479437001395 sequence-specific DNA binding site [nucleotide binding]; other site 479437001396 Zeta toxin; Region: Zeta_toxin; pfam06414 479437001397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 479437001398 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 479437001399 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001400 DNA binding residues [nucleotide binding] 479437001401 dimerization interface [polypeptide binding]; other site 479437001402 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437001403 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 479437001404 putative [Fe4-S4] binding site [ion binding]; other site 479437001405 putative molybdopterin cofactor binding site [chemical binding]; other site 479437001406 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 479437001407 putative molybdopterin cofactor binding site; other site 479437001408 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001409 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001410 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001411 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437001412 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001413 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 479437001414 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437001415 active site 479437001416 phosphorylation site [posttranslational modification] 479437001417 intermolecular recognition site; other site 479437001418 dimerization interface [polypeptide binding]; other site 479437001419 LytTr DNA-binding domain; Region: LytTR; pfam04397 479437001420 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437001421 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 479437001422 ATP binding site [chemical binding]; other site 479437001423 Mg2+ binding site [ion binding]; other site 479437001424 G-X-G motif; other site 479437001425 Protein of unknown function (DUF328); Region: DUF328; pfam03883 479437001426 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 479437001427 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 479437001428 HIGH motif; other site 479437001429 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 479437001430 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 479437001431 active site 479437001432 KMSKS motif; other site 479437001433 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 479437001434 tRNA binding surface [nucleotide binding]; other site 479437001435 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 479437001436 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 479437001437 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437001438 active site 479437001439 FMN binding site [chemical binding]; other site 479437001440 substrate binding site [chemical binding]; other site 479437001441 putative catalytic residue [active] 479437001442 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001443 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 479437001444 DNA binding residues [nucleotide binding] 479437001445 dimerization interface [polypeptide binding]; other site 479437001446 hypothetical protein; Validated; Region: PRK07121 479437001447 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001448 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 479437001449 putative active site [active] 479437001450 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 479437001451 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001452 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 479437001453 DNA binding residues [nucleotide binding] 479437001454 dimerization interface [polypeptide binding]; other site 479437001455 thiosulfate reductase PhsA; Provisional; Region: PRK15488 479437001456 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 479437001457 putative [Fe4-S4] binding site [ion binding]; other site 479437001458 putative molybdopterin cofactor binding site [chemical binding]; other site 479437001459 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 479437001460 putative molybdopterin cofactor binding site; other site 479437001461 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437001462 4Fe-4S binding domain; Region: Fer4; cl02805 479437001463 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 479437001464 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437001465 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001466 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 479437001467 DNA binding residues [nucleotide binding] 479437001468 dimerization interface [polypeptide binding]; other site 479437001469 thiosulfate reductase PhsA; Provisional; Region: PRK15488 479437001470 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 479437001471 putative [Fe4-S4] binding site [ion binding]; other site 479437001472 putative molybdopterin cofactor binding site [chemical binding]; other site 479437001473 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 479437001474 putative molybdopterin cofactor binding site; other site 479437001475 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437001476 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001477 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437001478 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001479 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001480 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 479437001481 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001482 molybdopterin cofactor binding site; other site 479437001483 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001484 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437001485 molybdopterin cofactor binding site; other site 479437001486 dihydrodipicolinate reductase; Provisional; Region: PRK00048 479437001487 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 479437001488 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 479437001489 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001490 Clostridial hydrophobic W; Region: ChW; pfam07538 479437001491 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001492 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 479437001493 DNA binding residues [nucleotide binding] 479437001494 dimerization interface [polypeptide binding]; other site 479437001495 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437001496 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001497 molybdopterin cofactor binding site; other site 479437001498 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437001499 molybdopterin cofactor binding site; other site 479437001500 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001501 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001502 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001503 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 479437001504 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437001505 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001506 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437001507 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437001508 metal binding site [ion binding]; metal-binding site 479437001509 active site 479437001510 I-site; other site 479437001511 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 479437001512 PAS fold; Region: PAS_3; pfam08447 479437001513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437001514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437001515 metal binding site [ion binding]; metal-binding site 479437001516 active site 479437001517 I-site; other site 479437001518 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 479437001519 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001520 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001521 molybdopterin cofactor binding site; other site 479437001522 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001523 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001524 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001525 putative molybdopterin cofactor binding site; other site 479437001526 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001527 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 479437001528 DNA binding residues [nucleotide binding] 479437001529 dimerization interface [polypeptide binding]; other site 479437001530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437001531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437001532 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 479437001533 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 479437001534 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437001535 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 479437001536 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 479437001537 Transposase; Region: DEDD_Tnp_IS110; pfam01548 479437001538 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 479437001539 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 479437001540 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 479437001541 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 479437001542 Ferredoxin [Energy production and conversion]; Region: COG1146 479437001543 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437001544 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 479437001545 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001546 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 479437001547 DNA binding residues [nucleotide binding] 479437001548 dimerization interface [polypeptide binding]; other site 479437001549 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001550 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001551 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 479437001552 FMN-binding domain; Region: FMN_bind; cl01081 479437001553 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001554 L-aspartate oxidase; Provisional; Region: PRK06175 479437001555 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 479437001556 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001557 DNA binding residues [nucleotide binding] 479437001558 dimerization interface [polypeptide binding]; other site 479437001559 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 479437001560 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001561 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 479437001562 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437001563 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437001564 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 479437001565 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001566 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437001567 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437001568 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001569 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 479437001570 DNA binding residues [nucleotide binding] 479437001571 dimerization interface [polypeptide binding]; other site 479437001572 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 479437001573 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001574 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001575 molybdopterin cofactor binding site; other site 479437001576 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001577 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001578 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001579 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001580 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001581 putative molybdopterin cofactor binding site; other site 479437001582 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001583 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 479437001584 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001585 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001586 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 479437001587 DNA binding residues [nucleotide binding] 479437001588 dimerization interface [polypeptide binding]; other site 479437001589 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001590 molybdopterin cofactor binding site; other site 479437001591 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001592 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001593 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001594 putative molybdopterin cofactor binding site; other site 479437001595 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001596 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001597 HipA-like C-terminal domain; Region: HipA_C; pfam07804 479437001598 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001599 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 479437001600 DNA binding residues [nucleotide binding] 479437001601 dimerization interface [polypeptide binding]; other site 479437001602 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001603 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001604 molybdopterin cofactor binding site; other site 479437001605 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001606 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001607 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001608 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001609 putative molybdopterin cofactor binding site; other site 479437001610 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001611 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001612 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437001613 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437001614 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 479437001615 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001616 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001617 molybdopterin cofactor binding site; other site 479437001618 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001619 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001620 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001621 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001622 putative molybdopterin cofactor binding site; other site 479437001623 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001624 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001625 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 479437001626 DNA binding residues [nucleotide binding] 479437001627 dimerization interface [polypeptide binding]; other site 479437001628 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001629 molybdopterin cofactor binding site; other site 479437001630 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001631 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437001632 putative molybdopterin cofactor binding site; other site 479437001633 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001634 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001635 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 479437001636 DNA binding residues [nucleotide binding] 479437001637 dimerization interface [polypeptide binding]; other site 479437001638 hypothetical protein; Validated; Region: PRK07121 479437001639 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001640 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001641 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 479437001642 DNA binding residues [nucleotide binding] 479437001643 dimerization interface [polypeptide binding]; other site 479437001644 HemN family oxidoreductase; Provisional; Region: PRK05660 479437001645 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 479437001646 FeS/SAM binding site; other site 479437001647 HemN C-terminal domain; Region: HemN_C; pfam06969 479437001648 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001649 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001650 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 479437001651 DNA binding residues [nucleotide binding] 479437001652 dimerization interface [polypeptide binding]; other site 479437001653 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 479437001654 Flavodoxin domain; Region: Flavodoxin_5; cl17428 479437001655 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437001656 hypothetical protein; Validated; Region: PRK07121 479437001657 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437001658 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001659 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 479437001660 DNA binding residues [nucleotide binding] 479437001661 dimerization interface [polypeptide binding]; other site 479437001662 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 479437001663 active site 479437001664 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001665 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 479437001666 DNA binding residues [nucleotide binding] 479437001667 dimerization interface [polypeptide binding]; other site 479437001668 hypothetical protein; Validated; Region: PRK07121 479437001669 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437001670 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 479437001671 endonuclease III; Region: ENDO3c; smart00478 479437001672 minor groove reading motif; other site 479437001673 helix-hairpin-helix signature motif; other site 479437001674 substrate binding pocket [chemical binding]; other site 479437001675 active site 479437001676 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 479437001677 AAA domain; Region: AAA_31; pfam13614 479437001678 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 479437001679 P-loop; other site 479437001680 Magnesium ion binding site [ion binding]; other site 479437001681 Type II/IV secretion system protein; Region: T2SE; pfam00437 479437001682 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 479437001683 ATP binding site [chemical binding]; other site 479437001684 Walker A motif; other site 479437001685 hexamer interface [polypeptide binding]; other site 479437001686 Walker B motif; other site 479437001687 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 479437001688 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437001689 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 479437001690 Helicase associated domain; Region: HA; pfam03457 479437001691 TadE-like protein; Region: TadE; pfam07811 479437001692 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 479437001693 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 479437001694 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 479437001695 ATP binding site [chemical binding]; other site 479437001696 Walker A motif; other site 479437001697 hexamer interface [polypeptide binding]; other site 479437001698 Walker B motif; other site 479437001699 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 479437001700 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437001701 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 479437001702 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437001703 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 479437001704 Listeria-Bacteroides repeat domain (List_Bact_rpt); Region: Flg_new; cl09714 479437001705 YcfA-like protein; Region: YcfA; cl00752 479437001706 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 479437001707 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437001708 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 479437001709 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 479437001710 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 479437001711 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437001712 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437001713 Walker A/P-loop; other site 479437001714 ATP binding site [chemical binding]; other site 479437001715 Q-loop/lid; other site 479437001716 ABC transporter signature motif; other site 479437001717 Walker B; other site 479437001718 D-loop; other site 479437001719 H-loop/switch region; other site 479437001720 Histidine kinase; Region: HisKA_3; pfam07730 479437001721 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 479437001722 ATP binding site [chemical binding]; other site 479437001723 Mg2+ binding site [ion binding]; other site 479437001724 G-X-G motif; other site 479437001725 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437001727 active site 479437001728 phosphorylation site [posttranslational modification] 479437001729 intermolecular recognition site; other site 479437001730 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 479437001731 DNA binding residues [nucleotide binding] 479437001732 dimerization interface [polypeptide binding]; other site 479437001733 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 479437001734 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437001735 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 479437001736 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 479437001737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437001738 catalytic residue [active] 479437001739 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 479437001740 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437001741 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 479437001742 motif II; other site 479437001743 FeoA domain; Region: FeoA; pfam04023 479437001744 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 479437001745 Ferrous iron transport protein B; Region: FeoB_N; pfam02421 479437001746 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 479437001747 G1 box; other site 479437001748 GTP/Mg2+ binding site [chemical binding]; other site 479437001749 Switch I region; other site 479437001750 G2 box; other site 479437001751 G3 box; other site 479437001752 Switch II region; other site 479437001753 G4 box; other site 479437001754 G5 box; other site 479437001755 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 479437001756 Nucleoside recognition; Region: Gate; pfam07670 479437001757 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 479437001758 Nucleoside recognition; Region: Gate; pfam07670 479437001759 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 479437001760 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 479437001761 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 479437001762 Septum formation initiator; Region: DivIC; pfam04977 479437001763 exopolyphosphatase; Region: exo_poly_only; TIGR03706 479437001764 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 479437001765 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 479437001766 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 479437001767 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 479437001768 substrate binding pocket [chemical binding]; other site 479437001769 chain length determination region; other site 479437001770 substrate-Mg2+ binding site; other site 479437001771 catalytic residues [active] 479437001772 aspartate-rich region 1; other site 479437001773 active site lid residues [active] 479437001774 aspartate-rich region 2; other site 479437001775 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001776 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 479437001777 DNA binding residues [nucleotide binding] 479437001778 dimerization interface [polypeptide binding]; other site 479437001779 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001780 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437001781 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 479437001782 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 479437001783 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 479437001784 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 479437001785 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 479437001786 substrate binding site [chemical binding]; other site 479437001787 ligand binding site [chemical binding]; other site 479437001788 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 479437001789 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 479437001790 substrate binding site [chemical binding]; other site 479437001791 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 479437001792 tartrate dehydrogenase; Region: TTC; TIGR02089 479437001793 Transglycosylase; Region: Transgly; pfam00912 479437001794 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 479437001795 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 479437001796 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437001797 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 479437001798 Peptidase family U32; Region: Peptidase_U32; pfam01136 479437001799 Collagenase; Region: DUF3656; pfam12392 479437001800 Peptidase family U32; Region: Peptidase_U32; cl03113 479437001801 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 479437001802 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 479437001803 active site 479437001804 HIGH motif; other site 479437001805 dimer interface [polypeptide binding]; other site 479437001806 KMSKS motif; other site 479437001807 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437001808 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 479437001809 DNA binding residues [nucleotide binding] 479437001810 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437001811 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437001812 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 479437001813 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 479437001814 TPR motif; other site 479437001815 Tetratricopeptide repeat; Region: TPR_12; pfam13424 479437001816 binding surface 479437001817 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 479437001818 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 479437001819 dimer interface [polypeptide binding]; other site 479437001820 motif 1; other site 479437001821 active site 479437001822 motif 2; other site 479437001823 motif 3; other site 479437001824 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 479437001825 anticodon binding site; other site 479437001826 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 479437001827 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437001828 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 479437001829 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001830 DNA binding residues [nucleotide binding] 479437001831 dimerization interface [polypeptide binding]; other site 479437001832 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 479437001833 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 479437001834 homotetrameric interface [polypeptide binding]; other site 479437001835 putative active site [active] 479437001836 metal binding site [ion binding]; metal-binding site 479437001837 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 479437001838 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 479437001839 dimer interface [polypeptide binding]; other site 479437001840 anticodon binding site; other site 479437001841 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 479437001842 homodimer interface [polypeptide binding]; other site 479437001843 motif 1; other site 479437001844 active site 479437001845 motif 2; other site 479437001846 GAD domain; Region: GAD; pfam02938 479437001847 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 479437001848 active site 479437001849 motif 3; other site 479437001850 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 479437001851 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 479437001852 FeS/SAM binding site; other site 479437001853 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 479437001854 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 479437001855 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 479437001856 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 479437001857 Walker A motif; other site 479437001858 ATP binding site [chemical binding]; other site 479437001859 Walker B motif; other site 479437001860 arginine finger; other site 479437001861 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 479437001862 hypothetical protein; Validated; Region: PRK00153 479437001863 recombination protein RecR; Reviewed; Region: recR; PRK00076 479437001864 RecR protein; Region: RecR; pfam02132 479437001865 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 479437001866 putative active site [active] 479437001867 putative metal-binding site [ion binding]; other site 479437001868 tetramer interface [polypeptide binding]; other site 479437001869 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 479437001870 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001871 DNA binding residues [nucleotide binding] 479437001872 dimerization interface [polypeptide binding]; other site 479437001873 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001874 DMSO reductase family type II enzyme, molybdopterin subunit; Region: DMSO_red_II_alp; TIGR03479 479437001875 molybdopterin cofactor binding site; other site 479437001876 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001877 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001878 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001879 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437001880 molybdopterin cofactor binding site; other site 479437001881 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001882 4Fe-4S binding domain; Region: Fer4; cl02805 479437001883 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437001884 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437001885 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437001886 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437001887 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437001888 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437001889 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437001890 MULE transposase domain; Region: MULE; pfam10551 479437001891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001892 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 479437001893 DNA binding residues [nucleotide binding] 479437001894 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 479437001895 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001896 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 479437001897 DNA binding residues [nucleotide binding] 479437001898 dimerization interface [polypeptide binding]; other site 479437001899 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 479437001900 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 479437001901 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437001902 catalytic residue [active] 479437001903 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437001904 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437001905 molybdopterin cofactor binding site; other site 479437001906 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437001907 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437001908 4Fe-4S binding domain; Region: Fer4; pfam00037 479437001909 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 479437001910 Walker A motif; other site 479437001911 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 479437001912 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 479437001913 GTP binding site; other site 479437001914 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437001915 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437001916 MULE transposase domain; Region: MULE; pfam10551 479437001917 Predicted transcriptional regulator [Transcription]; Region: COG1959 479437001918 Transcriptional regulator; Region: Rrf2; pfam02082 479437001919 Transcriptional regulator; Region: Rrf2; cl17282 479437001920 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 479437001921 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 479437001922 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 479437001923 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 479437001924 catalytic residues [active] 479437001925 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001926 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001927 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437001928 tetracycline repressor protein TetR; Provisional; Region: PRK13756 479437001929 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437001930 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 479437001931 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437001932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437001933 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 479437001934 DNA binding residues [nucleotide binding] 479437001935 dimerization interface [polypeptide binding]; other site 479437001936 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437001937 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 479437001938 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 479437001939 putative ADP-binding pocket [chemical binding]; other site 479437001940 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 479437001941 active site 479437001942 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 479437001943 O-Antigen ligase; Region: Wzy_C; pfam04932 479437001944 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 479437001945 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 479437001946 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 479437001947 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 479437001948 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 479437001949 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 479437001950 active site 479437001951 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 479437001952 homodimer interface [polypeptide binding]; other site 479437001953 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 479437001954 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 479437001955 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 479437001956 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 479437001957 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 479437001958 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 479437001959 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 479437001960 WbqC-like protein family; Region: WbqC; pfam08889 479437001961 putative trimer interface [polypeptide binding]; other site 479437001962 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 479437001963 putative CoA binding site [chemical binding]; other site 479437001964 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 479437001965 putative trimer interface [polypeptide binding]; other site 479437001966 putative active site [active] 479437001967 putative substrate binding site [chemical binding]; other site 479437001968 putative CoA binding site [chemical binding]; other site 479437001969 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 479437001970 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 479437001971 inhibitor-cofactor binding pocket; inhibition site 479437001972 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437001973 catalytic residue [active] 479437001974 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 479437001975 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 479437001976 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 479437001977 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 479437001978 Ligand Binding Site [chemical binding]; other site 479437001979 Molecular Tunnel; other site 479437001980 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 479437001981 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 479437001982 trimer interface [polypeptide binding]; other site 479437001983 CoA binding site [chemical binding]; other site 479437001984 active site 479437001985 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 479437001986 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 479437001987 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437001988 MULE transposase domain; Region: MULE; pfam10551 479437001989 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 479437001990 Na binding site [ion binding]; other site 479437001991 Uncharacterized conserved protein [Function unknown]; Region: COG3535 479437001992 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 479437001993 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 479437001994 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 479437001995 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437001996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437001997 DNA-binding site [nucleotide binding]; DNA binding site 479437001998 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437001999 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 479437002000 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 479437002001 metal coordination site [ion binding]; other site 479437002002 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 479437002003 Moco binding site; other site 479437002004 metal coordination site [ion binding]; other site 479437002005 Mo-co oxidoreductase dimerisation domain; Region: Mo-co_dimer; pfam03404 479437002006 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437002007 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437002008 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 479437002009 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 479437002010 active site 479437002011 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 479437002012 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 479437002013 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437002014 substrate binding pocket [chemical binding]; other site 479437002015 membrane-bound complex binding site; other site 479437002016 hinge residues; other site 479437002017 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 479437002018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437002019 dimer interface [polypeptide binding]; other site 479437002020 conserved gate region; other site 479437002021 putative PBP binding loops; other site 479437002022 ABC-ATPase subunit interface; other site 479437002023 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 479437002024 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 479437002025 Walker A/P-loop; other site 479437002026 ATP binding site [chemical binding]; other site 479437002027 Q-loop/lid; other site 479437002028 ABC transporter signature motif; other site 479437002029 Walker B; other site 479437002030 D-loop; other site 479437002031 H-loop/switch region; other site 479437002032 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 479437002033 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 479437002034 putative deacylase active site [active] 479437002035 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 479437002036 catalytic core [active] 479437002037 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 479437002038 classical (c) SDRs; Region: SDR_c; cd05233 479437002039 NAD(P) binding site [chemical binding]; other site 479437002040 active site 479437002041 H+ Antiporter protein; Region: 2A0121; TIGR00900 479437002042 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 479437002043 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 479437002044 DNA binding residues [nucleotide binding] 479437002045 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 479437002046 putrescine carbamoyltransferase; Provisional; Region: PRK02255 479437002047 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437002048 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437002049 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 479437002050 agmatine deiminase; Provisional; Region: PRK13551 479437002051 agmatine deiminase; Region: agmatine_aguA; TIGR03380 479437002052 carbamate kinase; Reviewed; Region: PRK12686 479437002053 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 479437002054 putative substrate binding site [chemical binding]; other site 479437002055 nucleotide binding site [chemical binding]; other site 479437002056 nucleotide binding site [chemical binding]; other site 479437002057 homodimer interface [polypeptide binding]; other site 479437002058 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437002059 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 479437002060 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002061 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 479437002062 DNA binding residues [nucleotide binding] 479437002063 dimerization interface [polypeptide binding]; other site 479437002064 putrescine carbamoyltransferase; Provisional; Region: PRK02255 479437002065 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437002066 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437002067 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 479437002068 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 479437002069 agmatine deiminase; Region: agmatine_aguA; TIGR03380 479437002070 carbamate kinase; Reviewed; Region: PRK12686 479437002071 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 479437002072 putative substrate binding site [chemical binding]; other site 479437002073 nucleotide binding site [chemical binding]; other site 479437002074 nucleotide binding site [chemical binding]; other site 479437002075 homodimer interface [polypeptide binding]; other site 479437002076 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 479437002077 putative active site [active] 479437002078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437002079 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437002080 active site 479437002081 phosphorylation site [posttranslational modification] 479437002082 intermolecular recognition site; other site 479437002083 dimerization interface [polypeptide binding]; other site 479437002084 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 479437002085 DNA binding site [nucleotide binding] 479437002086 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437002087 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 479437002088 Walker A/P-loop; other site 479437002089 ATP binding site [chemical binding]; other site 479437002090 Q-loop/lid; other site 479437002091 ABC transporter signature motif; other site 479437002092 Walker B; other site 479437002093 D-loop; other site 479437002094 H-loop/switch region; other site 479437002095 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 479437002096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437002097 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 479437002098 dimer interface [polypeptide binding]; other site 479437002099 phosphorylation site [posttranslational modification] 479437002100 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 479437002101 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437002102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437002103 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cd01594 479437002104 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 479437002105 dimerization interface [polypeptide binding]; other site 479437002106 hypothetical protein; Validated; Region: PRK07121 479437002107 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437002108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 479437002109 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 479437002110 NAD(P) binding site [chemical binding]; other site 479437002111 active site 479437002112 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 479437002113 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 479437002114 ApbE family; Region: ApbE; pfam02424 479437002115 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 479437002116 Putative Fe-S cluster; Region: FeS; cl17515 479437002117 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437002118 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437002119 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437002120 4Fe-4S binding domain; Region: Fer4; pfam00037 479437002121 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 479437002122 electron transport complex RsxE subunit; Provisional; Region: PRK12405 479437002123 FMN-binding domain; Region: FMN_bind; pfam04205 479437002124 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 479437002125 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 479437002126 SLBB domain; Region: SLBB; pfam10531 479437002127 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 479437002128 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 479437002129 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 479437002130 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 479437002131 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 479437002132 LytTr DNA-binding domain; Region: LytTR; pfam04397 479437002133 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 479437002134 Helix-Turn-Helix DNA binding domain of the BltR transcription regulator; Region: HTH_BltR; cd04782 479437002135 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437002136 DNA binding residues [nucleotide binding] 479437002137 dimer interface [polypeptide binding]; other site 479437002138 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 479437002139 acetyl-CoA synthetase; Provisional; Region: PRK00174 479437002140 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 479437002141 active site 479437002142 CoA binding site [chemical binding]; other site 479437002143 acyl-activating enzyme (AAE) consensus motif; other site 479437002144 AMP binding site [chemical binding]; other site 479437002145 acetate binding site [chemical binding]; other site 479437002146 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 479437002147 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 479437002148 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 479437002149 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 479437002150 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 479437002151 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 479437002152 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 479437002153 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 479437002154 RPB1 interaction site [polypeptide binding]; other site 479437002155 RPB10 interaction site [polypeptide binding]; other site 479437002156 RPB11 interaction site [polypeptide binding]; other site 479437002157 RPB3 interaction site [polypeptide binding]; other site 479437002158 RPB12 interaction site [polypeptide binding]; other site 479437002159 DNA-directed RNA polymerase subunit beta'/alpha domain fusion protein; Provisional; Region: PRK14906 479437002160 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 479437002161 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 479437002162 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 479437002163 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 479437002164 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 479437002165 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 479437002166 G-loop; other site 479437002167 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 479437002168 DNA binding site [nucleotide binding] 479437002169 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 479437002170 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 479437002171 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 479437002172 metal binding site [ion binding]; metal-binding site 479437002173 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 479437002174 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 479437002175 active site 479437002176 substrate binding site [chemical binding]; other site 479437002177 metal binding site [ion binding]; metal-binding site 479437002178 polyphosphate kinase; Provisional; Region: PRK05443 479437002179 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 479437002180 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 479437002181 Catalytic C-terminal domain, first repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C1_unchar; cd09166 479437002182 putative domain interface [polypeptide binding]; other site 479437002183 putative active site [active] 479437002184 catalytic site [active] 479437002185 Catalytic C-terminal domain, second repeat, of uncharacterized prokaryotic polyphosphate kinases; Region: PLDc_PPK1_C2_unchar; cd09169 479437002186 putative domain interface [polypeptide binding]; other site 479437002187 putative active site [active] 479437002188 catalytic site [active] 479437002189 exopolyphosphatase; Region: exo_poly_only; TIGR03706 479437002190 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 479437002191 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 479437002192 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 479437002193 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 479437002194 active site 479437002195 catalytic site [active] 479437002196 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 479437002197 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 479437002198 active site 479437002199 tetramer interface [polypeptide binding]; other site 479437002200 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437002201 active site 479437002202 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 479437002203 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 479437002204 dimerization interface [polypeptide binding]; other site 479437002205 putative ATP binding site [chemical binding]; other site 479437002206 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 479437002207 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 479437002208 active site 479437002209 substrate binding site [chemical binding]; other site 479437002210 cosubstrate binding site; other site 479437002211 catalytic site [active] 479437002212 XdhC Rossmann domain; Region: XdhC_C; pfam13478 479437002213 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 479437002214 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 479437002215 purine monophosphate binding site [chemical binding]; other site 479437002216 dimer interface [polypeptide binding]; other site 479437002217 putative catalytic residues [active] 479437002218 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 479437002219 Homeodomain-like domain; Region: HTH_23; pfam13384 479437002220 HTH-like domain; Region: HTH_21; pfam13276 479437002221 Integrase core domain; Region: rve; pfam00665 479437002222 Integrase core domain; Region: rve_2; pfam13333 479437002223 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 479437002224 HSP70 interaction site [polypeptide binding]; other site 479437002225 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 479437002226 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 479437002227 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 479437002228 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 479437002229 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437002230 metal binding site [ion binding]; metal-binding site 479437002231 active site 479437002232 I-site; other site 479437002233 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 479437002234 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 479437002235 CoenzymeA binding site [chemical binding]; other site 479437002236 subunit interaction site [polypeptide binding]; other site 479437002237 PHB binding site; other site 479437002238 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 479437002239 dimer interface [polypeptide binding]; other site 479437002240 phosphorylation site [posttranslational modification] 479437002241 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 479437002242 ATP binding site [chemical binding]; other site 479437002243 Mg2+ binding site [ion binding]; other site 479437002244 G-X-G motif; other site 479437002245 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437002246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437002247 active site 479437002248 phosphorylation site [posttranslational modification] 479437002249 intermolecular recognition site; other site 479437002250 dimerization interface [polypeptide binding]; other site 479437002251 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 479437002252 DNA binding site [nucleotide binding] 479437002253 HlyD family secretion protein; Region: HlyD_3; pfam13437 479437002254 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437002255 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437002256 Walker A/P-loop; other site 479437002257 ATP binding site [chemical binding]; other site 479437002258 Q-loop/lid; other site 479437002259 ABC transporter signature motif; other site 479437002260 Walker B; other site 479437002261 D-loop; other site 479437002262 H-loop/switch region; other site 479437002263 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 479437002264 FtsX-like permease family; Region: FtsX; pfam02687 479437002265 MarR family; Region: MarR_2; pfam12802 479437002266 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 479437002267 Walker A motif; other site 479437002268 ATP binding site [chemical binding]; other site 479437002269 Walker B motif; other site 479437002270 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 479437002271 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 479437002272 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 479437002273 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 479437002274 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437002275 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 479437002276 non-specific DNA binding site [nucleotide binding]; other site 479437002277 salt bridge; other site 479437002278 sequence-specific DNA binding site [nucleotide binding]; other site 479437002279 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 479437002280 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 479437002281 Walker A motif; other site 479437002282 ATP binding site [chemical binding]; other site 479437002283 Walker B motif; other site 479437002284 arginine finger; other site 479437002285 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 479437002286 active site 479437002287 catalytic triad [active] 479437002288 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 479437002289 TIR domain; Region: TIR_2; pfam13676 479437002290 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437002291 MULE transposase domain; Region: MULE; pfam10551 479437002292 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 479437002293 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 479437002294 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 479437002295 active site 479437002296 catalytic residues [active] 479437002297 metal binding site [ion binding]; metal-binding site 479437002298 Fic family protein [Function unknown]; Region: COG3177 479437002299 Fic/DOC family; Region: Fic; pfam02661 479437002300 amidophosphoribosyltransferase; Provisional; Region: PRK05793 479437002301 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 479437002302 active site 479437002303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437002304 active site 479437002305 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 479437002306 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 479437002307 active site 479437002308 homodimer interface [polypeptide binding]; other site 479437002309 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 479437002310 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 479437002311 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; cl00234 479437002312 active site 479437002313 catalytic residues [active] 479437002314 metal binding site [ion binding]; metal-binding site 479437002315 Amidase; Region: Amidase; cl11426 479437002316 Amidase; Region: Amidase; cl11426 479437002317 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 479437002318 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 479437002319 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 479437002320 HsdM N-terminal domain; Region: HsdM_N; pfam12161 479437002321 Methyltransferase domain; Region: Methyltransf_26; pfam13659 479437002322 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 479437002323 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 479437002324 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 479437002325 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 479437002326 catalytic residues [active] 479437002327 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437002328 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437002329 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437002330 4Fe-4S binding domain; Region: Fer4; cl02805 479437002331 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437002332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437002333 active site 479437002334 phosphorylation site [posttranslational modification] 479437002335 intermolecular recognition site; other site 479437002336 dimerization interface [polypeptide binding]; other site 479437002337 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 479437002338 DNA binding site [nucleotide binding] 479437002339 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437002340 HAMP domain; Region: HAMP; pfam00672 479437002341 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 479437002342 dimer interface [polypeptide binding]; other site 479437002343 phosphorylation site [posttranslational modification] 479437002344 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 479437002345 ATP binding site [chemical binding]; other site 479437002346 Mg2+ binding site [ion binding]; other site 479437002347 G-X-G motif; other site 479437002348 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 479437002349 Helix-turn-helix domain; Region: HTH_17; cl17695 479437002350 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437002351 Helix-turn-helix domain; Region: HTH_36; pfam13730 479437002352 hypothetical protein; Validated; Region: PRK08116 479437002353 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 479437002354 Walker A motif; other site 479437002355 ATP binding site [chemical binding]; other site 479437002356 Walker B motif; other site 479437002357 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 479437002358 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 479437002359 PrgI family protein; Region: PrgI; pfam12666 479437002360 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 479437002361 AAA-like domain; Region: AAA_10; pfam12846 479437002362 Domain of unknown function DUF87; Region: DUF87; pfam01935 479437002363 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 479437002364 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437002365 NlpC/P60 family; Region: NLPC_P60; pfam00877 479437002366 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002367 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002368 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002369 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002370 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 479437002371 active site 479437002372 catalytic site [active] 479437002373 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_c; cd10311 479437002374 putative active site [active] 479437002375 catalytic site [active] 479437002376 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 479437002377 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 479437002378 ATP binding site [chemical binding]; other site 479437002379 putative Mg++ binding site [ion binding]; other site 479437002380 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 479437002381 nucleotide binding region [chemical binding]; other site 479437002382 ATP-binding site [chemical binding]; other site 479437002383 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 479437002384 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437002385 AAA domain; Region: AAA_21; pfam13304 479437002386 Walker A/P-loop; other site 479437002387 ATP binding site [chemical binding]; other site 479437002388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 479437002389 Walker B; other site 479437002390 D-loop; other site 479437002391 H-loop/switch region; other site 479437002392 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 479437002393 putative active site [active] 479437002394 putative metal-binding site [ion binding]; other site 479437002395 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 479437002396 DNA methylase; Region: N6_N4_Mtase; cl17433 479437002397 DNA methylase; Region: N6_N4_Mtase; cl17433 479437002398 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 479437002399 generic binding surface I; other site 479437002400 generic binding surface II; other site 479437002401 Helix-turn-helix domain; Region: HTH_36; pfam13730 479437002402 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 479437002403 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 479437002404 Walker A motif; other site 479437002405 ATP binding site [chemical binding]; other site 479437002406 Walker B motif; other site 479437002407 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 479437002408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 479437002409 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 479437002410 PIF1-like helicase; Region: PIF1; pfam05970 479437002411 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 479437002412 Walker A motif; other site 479437002413 ATP binding site [chemical binding]; other site 479437002414 Walker B motif; other site 479437002415 Family description; Region: UvrD_C_2; pfam13538 479437002416 Domain of unknown function (DUF3893); Region: DUF3893; pfam13032 479437002417 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 479437002418 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 479437002419 DNA binding site [nucleotide binding] 479437002420 active site 479437002421 Int/Topo IB signature motif; other site 479437002422 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 479437002423 non-specific DNA binding site [nucleotide binding]; other site 479437002424 salt bridge; other site 479437002425 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 479437002426 sequence-specific DNA binding site [nucleotide binding]; other site 479437002427 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 479437002428 sequence-specific DNA binding site [nucleotide binding]; other site 479437002429 salt bridge; other site 479437002430 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 479437002431 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 479437002432 dimer interface [polypeptide binding]; other site 479437002433 ssDNA binding site [nucleotide binding]; other site 479437002434 tetramer (dimer of dimers) interface [polypeptide binding]; other site 479437002435 ParA-like protein; Provisional; Region: PHA02518 479437002436 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 479437002437 P-loop; other site 479437002438 Magnesium ion binding site [ion binding]; other site 479437002439 chromosome segregation protein; Provisional; Region: PRK02224 479437002440 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 479437002441 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 479437002442 Ligand binding site; other site 479437002443 Putative Catalytic site; other site 479437002444 DXD motif; other site 479437002445 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 479437002446 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 479437002447 active site 479437002448 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 479437002449 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 479437002450 active site 479437002451 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 479437002452 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 479437002453 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 479437002454 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 479437002455 S-adenosylmethionine binding site [chemical binding]; other site 479437002456 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 479437002457 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 479437002458 DEAD-like helicases superfamily; Region: DEXDc; smart00487 479437002459 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 479437002460 MYM-type Zinc finger with FCS sequence motif; Region: zf-FCS; pfam06467 479437002461 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437002462 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 479437002463 sequence-specific DNA binding site [nucleotide binding]; other site 479437002464 salt bridge; other site 479437002465 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 479437002466 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 479437002467 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 479437002468 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437002469 Type II/IV secretion system protein; Region: T2SE; pfam00437 479437002470 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 479437002471 ATP binding site [chemical binding]; other site 479437002472 Walker A motif; other site 479437002473 hexamer interface [polypeptide binding]; other site 479437002474 Walker B motif; other site 479437002475 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 479437002476 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 479437002477 TadE-like protein; Region: TadE; pfam07811 479437002478 sequence-specific DNA binding site [nucleotide binding]; other site 479437002479 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 479437002480 salt bridge; other site 479437002481 DNA packaging tegument protein UL25; Provisional; Region: PHA03248 479437002482 Antirestriction protein (ArdA); Region: ArdA; cl01953 479437002483 peptide chain release factor 1, archaeal and eukaryotic forms; Region: aRF1/eRF1; TIGR03676 479437002484 C-terminal putative kinase domain of FAM20 (family with sequence similarity 20), Drosophila Four-jointed (Fj), and related proteins; Region: FAM20_C_like; cl05973 479437002485 putative catalytic residues [active] 479437002486 putative catalytic loop [active] 479437002487 putative metal binding site [ion binding]; other site 479437002488 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 479437002489 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 479437002490 active site 479437002491 catalytic site [active] 479437002492 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002493 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002494 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002495 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002496 Cna protein B-type domain; Region: Cna_B; pfam05738 479437002497 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437002498 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 479437002499 non-specific DNA binding site [nucleotide binding]; other site 479437002500 salt bridge; other site 479437002501 sequence-specific DNA binding site [nucleotide binding]; other site 479437002502 DNA topoisomerase III; Provisional; Region: PRK07726 479437002503 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 479437002504 active site 479437002505 putative interdomain interaction site [polypeptide binding]; other site 479437002506 putative metal-binding site [ion binding]; other site 479437002507 putative nucleotide binding site [chemical binding]; other site 479437002508 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 479437002509 domain I; other site 479437002510 DNA binding groove [nucleotide binding] 479437002511 phosphate binding site [ion binding]; other site 479437002512 domain II; other site 479437002513 domain III; other site 479437002514 nucleotide binding site [chemical binding]; other site 479437002515 catalytic site [active] 479437002516 domain IV; other site 479437002517 Bacteriophage peptidoglycan hydrolase; Region: Amidase_5; pfam05382 479437002518 AAA-like domain; Region: AAA_10; pfam12846 479437002519 Domain of unknown function DUF87; Region: DUF87; pfam01935 479437002520 PrgI family protein; Region: PrgI; pfam12666 479437002521 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 479437002522 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 479437002523 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 479437002524 DNA binding residues [nucleotide binding] 479437002525 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 479437002526 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 479437002527 active site 479437002528 DNA binding site [nucleotide binding] 479437002529 Int/Topo IB signature motif; other site 479437002530 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 479437002531 Restriction endonuclease [Defense mechanisms]; Region: COG3587 479437002532 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 479437002533 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 479437002534 ParB-like nuclease domain; Region: ParBc; pfam02195 479437002535 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 479437002536 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 479437002537 P-loop; other site 479437002538 Magnesium ion binding site [ion binding]; other site 479437002539 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 479437002540 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 479437002541 integrase; Provisional; Region: int; PHA02601 479437002542 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 479437002543 Int/Topo IB signature motif; other site 479437002544 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437002545 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 479437002546 non-specific DNA binding site [nucleotide binding]; other site 479437002547 salt bridge; other site 479437002548 sequence-specific DNA binding site [nucleotide binding]; other site 479437002549 GMP synthase; Reviewed; Region: guaA; PRK00074 479437002550 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 479437002551 AMP/PPi binding site [chemical binding]; other site 479437002552 candidate oxyanion hole; other site 479437002553 catalytic triad [active] 479437002554 potential glutamine specificity residues [chemical binding]; other site 479437002555 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 479437002556 ATP Binding subdomain [chemical binding]; other site 479437002557 Ligand Binding sites [chemical binding]; other site 479437002558 Dimerization subdomain; other site 479437002559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437002560 AAA domain; Region: AAA_21; pfam13304 479437002561 Walker A/P-loop; other site 479437002562 ATP binding site [chemical binding]; other site 479437002563 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 479437002564 Predicted permeases [General function prediction only]; Region: COG0679 479437002565 Chorismate mutase type II; Region: CM_2; pfam01817 479437002566 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 479437002567 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 479437002568 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 479437002569 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 479437002570 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 479437002571 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 479437002572 Part of AAA domain; Region: AAA_19; pfam13245 479437002573 Family description; Region: UvrD_C_2; pfam13538 479437002574 EDD domain protein, DegV family; Region: DegV; TIGR00762 479437002575 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 479437002576 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 479437002577 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 479437002578 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 479437002579 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 479437002580 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 479437002581 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 479437002582 FOG: CBS domain [General function prediction only]; Region: COG0517 479437002583 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 479437002584 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 479437002585 DHH family; Region: DHH; pfam01368 479437002586 DHHA2 domain; Region: DHHA2; pfam02833 479437002587 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437002588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437002589 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 479437002590 dimerization interface [polypeptide binding]; other site 479437002591 Nitroreductase family; Region: Nitroreductase; pfam00881 479437002592 FMN binding site [chemical binding]; other site 479437002593 dimer interface [polypeptide binding]; other site 479437002594 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 479437002595 peptidase T-like protein; Region: PepT-like; TIGR01883 479437002596 metal binding site [ion binding]; metal-binding site 479437002597 putative dimer interface [polypeptide binding]; other site 479437002598 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 479437002599 S17 interaction site [polypeptide binding]; other site 479437002600 S8 interaction site; other site 479437002601 16S rRNA interaction site [nucleotide binding]; other site 479437002602 streptomycin interaction site [chemical binding]; other site 479437002603 23S rRNA interaction site [nucleotide binding]; other site 479437002604 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 479437002605 30S ribosomal protein S7; Validated; Region: PRK05302 479437002606 elongation factor G; Reviewed; Region: PRK00007 479437002607 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 479437002608 G1 box; other site 479437002609 putative GEF interaction site [polypeptide binding]; other site 479437002610 GTP/Mg2+ binding site [chemical binding]; other site 479437002611 Switch I region; other site 479437002612 G2 box; other site 479437002613 G3 box; other site 479437002614 Switch II region; other site 479437002615 G4 box; other site 479437002616 G5 box; other site 479437002617 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 479437002618 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 479437002619 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 479437002620 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 479437002621 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 479437002622 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 479437002623 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 479437002624 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 479437002625 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 479437002626 putative ligand binding site [chemical binding]; other site 479437002627 putative NAD binding site [chemical binding]; other site 479437002628 putative catalytic site [active] 479437002629 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 479437002630 L-serine binding site [chemical binding]; other site 479437002631 ACT domain interface; other site 479437002632 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 479437002633 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 479437002634 heme binding site [chemical binding]; other site 479437002635 ferroxidase pore; other site 479437002636 ferroxidase diiron center [ion binding]; other site 479437002637 hypothetical protein; Validated; Region: PRK00110 479437002638 hypothetical protein; Validated; Region: PRK07121 479437002639 3-ketosteroid-delta-1-dehydrogenase; Provisional; Region: PRK12837 479437002640 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437002641 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437002642 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 479437002643 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 479437002644 active site 479437002645 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002646 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 479437002647 DNA binding residues [nucleotide binding] 479437002648 dimerization interface [polypeptide binding]; other site 479437002649 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 479437002650 active site 479437002651 putative DNA-binding cleft [nucleotide binding]; other site 479437002652 dimer interface [polypeptide binding]; other site 479437002653 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 479437002654 RuvA N terminal domain; Region: RuvA_N; pfam01330 479437002655 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 479437002656 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 479437002657 Walker A motif; other site 479437002658 ATP binding site [chemical binding]; other site 479437002659 Walker B motif; other site 479437002660 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 479437002661 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002662 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 479437002663 DNA binding residues [nucleotide binding] 479437002664 dimerization interface [polypeptide binding]; other site 479437002665 FAD binding domain; Region: FAD_binding_2; pfam00890 479437002666 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 479437002667 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 479437002668 DNA-binding site [nucleotide binding]; DNA binding site 479437002669 RNA-binding motif; other site 479437002670 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 479437002671 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 479437002672 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 479437002673 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 479437002674 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 479437002675 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 479437002676 protein-export membrane protein SecD; Region: secD; TIGR01129 479437002677 Protein export membrane protein; Region: SecD_SecF; cl14618 479437002678 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 479437002679 Protein export membrane protein; Region: SecD_SecF; pfam02355 479437002680 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 479437002681 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002682 DNA binding residues [nucleotide binding] 479437002683 dimerization interface [polypeptide binding]; other site 479437002684 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437002685 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437002686 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437002687 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437002688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002689 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 479437002690 DNA binding residues [nucleotide binding] 479437002691 dimerization interface [polypeptide binding]; other site 479437002692 Predicted membrane protein [Function unknown]; Region: COG1288 479437002693 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 479437002694 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 479437002695 metal binding site [ion binding]; metal-binding site 479437002696 dimer interface [polypeptide binding]; other site 479437002697 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 479437002698 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002699 DNA binding residues [nucleotide binding] 479437002700 dimerization interface [polypeptide binding]; other site 479437002701 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437002702 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 479437002703 non-specific DNA binding site [nucleotide binding]; other site 479437002704 salt bridge; other site 479437002705 sequence-specific DNA binding site [nucleotide binding]; other site 479437002706 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 479437002707 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437002708 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 479437002709 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437002710 Walker A/P-loop; other site 479437002711 ATP binding site [chemical binding]; other site 479437002712 Q-loop/lid; other site 479437002713 ABC transporter signature motif; other site 479437002714 Walker B; other site 479437002715 D-loop; other site 479437002716 H-loop/switch region; other site 479437002717 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 479437002718 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437002719 Walker A/P-loop; other site 479437002720 ATP binding site [chemical binding]; other site 479437002721 Q-loop/lid; other site 479437002722 ABC transporter signature motif; other site 479437002723 Walker B; other site 479437002724 D-loop; other site 479437002725 H-loop/switch region; other site 479437002726 Predicted membrane protein [Function unknown]; Region: COG3601 479437002727 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 479437002728 L-2-amino-thiazoline-4-carboxylic acid hydrolase; Region: ATC_hydrolase; pfam14196 479437002729 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 479437002730 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 479437002731 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437002732 MULE transposase domain; Region: MULE; pfam10551 479437002733 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 479437002734 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437002735 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437002736 molybdopterin cofactor binding site; other site 479437002737 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437002738 molybdopterin cofactor binding site; other site 479437002739 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437002740 4Fe-4S binding domain; Region: Fer4; pfam00037 479437002741 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002742 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 479437002743 DNA binding residues [nucleotide binding] 479437002744 dimerization interface [polypeptide binding]; other site 479437002745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437002746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437002747 active site 479437002748 phosphorylation site [posttranslational modification] 479437002749 intermolecular recognition site; other site 479437002750 dimerization interface [polypeptide binding]; other site 479437002751 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 479437002752 DNA binding site [nucleotide binding] 479437002753 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 479437002754 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 479437002755 dimerization interface [polypeptide binding]; other site 479437002756 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 479437002757 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 479437002758 dimer interface [polypeptide binding]; other site 479437002759 phosphorylation site [posttranslational modification] 479437002760 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 479437002761 ATP binding site [chemical binding]; other site 479437002762 Mg2+ binding site [ion binding]; other site 479437002763 G-X-G motif; other site 479437002764 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437002765 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437002766 molybdopterin cofactor binding site; other site 479437002767 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437002768 molybdopterin cofactor binding site; other site 479437002769 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437002770 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 479437002771 Moco binding site; other site 479437002772 metal coordination site [ion binding]; other site 479437002773 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 479437002774 Moco binding site; other site 479437002775 metal coordination site [ion binding]; other site 479437002776 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437002777 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 479437002778 DNA binding residues [nucleotide binding] 479437002779 dimerization interface [polypeptide binding]; other site 479437002780 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 479437002781 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 479437002782 flavoprotein, HI0933 family; Region: TIGR00275 479437002783 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 479437002784 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437002785 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 479437002786 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 479437002787 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 479437002788 DNA binding site [nucleotide binding] 479437002789 active site 479437002790 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 479437002791 HlyD family secretion protein; Region: HlyD_3; pfam13437 479437002792 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437002793 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437002794 Walker A/P-loop; other site 479437002795 ATP binding site [chemical binding]; other site 479437002796 Q-loop/lid; other site 479437002797 ABC transporter signature motif; other site 479437002798 Walker B; other site 479437002799 D-loop; other site 479437002800 H-loop/switch region; other site 479437002801 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 479437002802 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 479437002803 FtsX-like permease family; Region: FtsX; pfam02687 479437002804 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 479437002805 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 479437002806 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437002807 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437002808 Walker A/P-loop; other site 479437002809 ATP binding site [chemical binding]; other site 479437002810 Q-loop/lid; other site 479437002811 ABC transporter signature motif; other site 479437002812 Walker B; other site 479437002813 D-loop; other site 479437002814 H-loop/switch region; other site 479437002815 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437002816 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437002817 Walker A/P-loop; other site 479437002818 ATP binding site [chemical binding]; other site 479437002819 Q-loop/lid; other site 479437002820 ABC transporter signature motif; other site 479437002821 Walker B; other site 479437002822 D-loop; other site 479437002823 H-loop/switch region; other site 479437002824 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 479437002825 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 479437002826 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 479437002827 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 479437002828 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 479437002829 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 479437002830 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 479437002831 dimer interface [polypeptide binding]; other site 479437002832 active site 479437002833 glycine-pyridoxal phosphate binding site [chemical binding]; other site 479437002834 folate binding site [chemical binding]; other site 479437002835 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437002836 active site 479437002837 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 479437002838 catalytic motif [active] 479437002839 Zn binding site [ion binding]; other site 479437002840 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 479437002841 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 479437002842 ATP synthase subunit C; Region: ATP-synt_C; cl00466 479437002843 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 479437002844 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 479437002845 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; COG0712 479437002846 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 479437002847 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 479437002848 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 479437002849 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 479437002850 beta subunit interaction interface [polypeptide binding]; other site 479437002851 Walker A motif; other site 479437002852 ATP binding site [chemical binding]; other site 479437002853 Walker B motif; other site 479437002854 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 479437002855 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 479437002856 core domain interface [polypeptide binding]; other site 479437002857 delta subunit interface [polypeptide binding]; other site 479437002858 epsilon subunit interface [polypeptide binding]; other site 479437002859 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 479437002860 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 479437002861 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 479437002862 alpha subunit interaction interface [polypeptide binding]; other site 479437002863 Walker A motif; other site 479437002864 ATP binding site [chemical binding]; other site 479437002865 Walker B motif; other site 479437002866 inhibitor binding site; inhibition site 479437002867 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 479437002868 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 479437002869 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 479437002870 gamma subunit interface [polypeptide binding]; other site 479437002871 epsilon subunit interface [polypeptide binding]; other site 479437002872 LBP interface [polypeptide binding]; other site 479437002873 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437002874 metal binding site [ion binding]; metal-binding site 479437002875 active site 479437002876 I-site; other site 479437002877 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 479437002878 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 479437002879 PAS fold; Region: PAS_3; pfam08447 479437002880 putative active site [active] 479437002881 heme pocket [chemical binding]; other site 479437002882 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 479437002883 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 479437002884 active site 479437002885 PHP Thumb interface [polypeptide binding]; other site 479437002886 metal binding site [ion binding]; metal-binding site 479437002887 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 479437002888 generic binding surface II; other site 479437002889 generic binding surface I; other site 479437002890 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 479437002891 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 479437002892 dimerization interface 3.5A [polypeptide binding]; other site 479437002893 active site 479437002894 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 479437002895 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 479437002896 active site 479437002897 dimer interface [polypeptide binding]; other site 479437002898 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 479437002899 Ligand Binding Site [chemical binding]; other site 479437002900 Molecular Tunnel; other site 479437002901 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 479437002902 Na2 binding site [ion binding]; other site 479437002903 putative substrate binding site 1 [chemical binding]; other site 479437002904 Na binding site 1 [ion binding]; other site 479437002905 putative substrate binding site 2 [chemical binding]; other site 479437002906 GTP-binding protein YchF; Reviewed; Region: PRK09601 479437002907 YchF GTPase; Region: YchF; cd01900 479437002908 G1 box; other site 479437002909 GTP/Mg2+ binding site [chemical binding]; other site 479437002910 Switch I region; other site 479437002911 G2 box; other site 479437002912 Switch II region; other site 479437002913 G3 box; other site 479437002914 G4 box; other site 479437002915 G5 box; other site 479437002916 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 479437002917 myosin-cross-reactive antigen; Provisional; Region: PRK13977 479437002918 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 479437002919 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 479437002920 active site 479437002921 catalytic tetrad [active] 479437002922 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 479437002923 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 479437002924 Ligand Binding Site [chemical binding]; other site 479437002925 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 479437002926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 479437002927 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 479437002928 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 479437002929 Metallo-dependent hydrolases, subgroup A 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_A; cd01299 479437002930 active site 479437002931 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 479437002932 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 479437002933 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 479437002934 non-specific DNA binding site [nucleotide binding]; other site 479437002935 salt bridge; other site 479437002936 sequence-specific DNA binding site [nucleotide binding]; other site 479437002937 von Willebrand factor; Region: vWF_A; pfam12450 479437002938 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 479437002939 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 479437002940 metal ion-dependent adhesion site (MIDAS); other site 479437002941 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 479437002942 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437002943 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437002944 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 479437002945 DNA binding residues [nucleotide binding] 479437002946 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 479437002947 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 479437002948 ATP binding site [chemical binding]; other site 479437002949 putative Mg++ binding site [ion binding]; other site 479437002950 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 479437002951 nucleotide binding region [chemical binding]; other site 479437002952 ATP-binding site [chemical binding]; other site 479437002953 RQC domain; Region: RQC; pfam09382 479437002954 HRDC domain; Region: HRDC; pfam00570 479437002955 Pirin-related protein [General function prediction only]; Region: COG1741 479437002956 Pirin; Region: Pirin; pfam02678 479437002957 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 479437002958 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 479437002959 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 479437002960 Predicted membrane protein [Function unknown]; Region: COG4709 479437002961 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437002962 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437002963 Homeodomain-like domain; Region: HTH_23; pfam13384 479437002964 HTH-like domain; Region: HTH_21; pfam13276 479437002965 Integrase core domain; Region: rve; pfam00665 479437002966 Integrase core domain; Region: rve_2; pfam13333 479437002967 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 479437002968 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 479437002969 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 479437002970 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 479437002971 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 479437002972 GatB domain; Region: GatB_Yqey; smart00845 479437002973 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 479437002974 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 479437002975 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 479437002976 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 479437002977 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 479437002978 dimer interface [polypeptide binding]; other site 479437002979 motif 1; other site 479437002980 active site 479437002981 motif 3; other site 479437002982 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 479437002983 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 479437002984 histidinol dehydrogenase; Region: hisD; TIGR00069 479437002985 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 479437002986 NAD binding site [chemical binding]; other site 479437002987 dimerization interface [polypeptide binding]; other site 479437002988 product binding site; other site 479437002989 substrate binding site [chemical binding]; other site 479437002990 zinc binding site [ion binding]; other site 479437002991 catalytic residues [active] 479437002992 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 479437002993 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 479437002994 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437002995 homodimer interface [polypeptide binding]; other site 479437002996 catalytic residue [active] 479437002997 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 479437002998 putative active site pocket [active] 479437002999 4-fold oligomerization interface [polypeptide binding]; other site 479437003000 metal binding residues [ion binding]; metal-binding site 479437003001 3-fold/trimer interface [polypeptide binding]; other site 479437003002 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 479437003003 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 479437003004 putative active site [active] 479437003005 oxyanion strand; other site 479437003006 catalytic triad [active] 479437003007 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 479437003008 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 479437003009 catalytic residues [active] 479437003010 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 479437003011 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 479437003012 substrate binding site [chemical binding]; other site 479437003013 glutamase interaction surface [polypeptide binding]; other site 479437003014 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 479437003015 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437003016 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437003017 metal binding site [ion binding]; metal-binding site 479437003018 active site 479437003019 I-site; other site 479437003020 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 479437003021 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 479437003022 active site 479437003023 intersubunit interactions; other site 479437003024 catalytic residue [active] 479437003025 transcription termination factor Rho; Provisional; Region: rho; PRK09376 479437003026 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 479437003027 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 479437003028 RNA binding site [nucleotide binding]; other site 479437003029 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 479437003030 multimer interface [polypeptide binding]; other site 479437003031 Walker A motif; other site 479437003032 ATP binding site [chemical binding]; other site 479437003033 Walker B motif; other site 479437003034 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 479437003035 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 479437003036 tandem repeat interface [polypeptide binding]; other site 479437003037 oligomer interface [polypeptide binding]; other site 479437003038 active site residues [active] 479437003039 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 479437003040 active site 479437003041 HIGH motif; other site 479437003042 nucleotide binding site [chemical binding]; other site 479437003043 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 479437003044 KMSKS motif; other site 479437003045 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 479437003046 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 479437003047 Moco binding site; other site 479437003048 metal coordination site [ion binding]; other site 479437003049 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 479437003050 Moco binding site; other site 479437003051 metal coordination site [ion binding]; other site 479437003052 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437003053 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 479437003054 DNA binding residues [nucleotide binding] 479437003055 dimerization interface [polypeptide binding]; other site 479437003056 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 479437003057 RNA/DNA hybrid binding site [nucleotide binding]; other site 479437003058 active site 479437003059 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437003060 NlpC/P60 family; Region: NLPC_P60; pfam00877 479437003061 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 479437003062 G1 box; other site 479437003063 GTP/Mg2+ binding site [chemical binding]; other site 479437003064 Switch I region; other site 479437003065 G2 box; other site 479437003066 G3 box; other site 479437003067 Switch II region; other site 479437003068 G4 box; other site 479437003069 G5 box; other site 479437003070 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 479437003071 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437003072 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 479437003073 motif II; other site 479437003074 Catalytic domain of Protein Kinases; Region: PKc; cd00180 479437003075 active site 479437003076 ATP binding site [chemical binding]; other site 479437003077 substrate binding site [chemical binding]; other site 479437003078 activation loop (A-loop); other site 479437003079 Double zinc ribbon; Region: DZR; pfam12773 479437003080 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 479437003081 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 479437003082 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 479437003083 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437003084 putative substrate translocation pore; other site 479437003085 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437003086 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 479437003087 non-specific DNA binding site [nucleotide binding]; other site 479437003088 salt bridge; other site 479437003089 sequence-specific DNA binding site [nucleotide binding]; other site 479437003090 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 479437003091 rRNA interaction site [nucleotide binding]; other site 479437003092 S8 interaction site; other site 479437003093 putative laminin-1 binding site; other site 479437003094 elongation factor Ts; Provisional; Region: tsf; PRK09377 479437003095 UBA/TS-N domain; Region: UBA; pfam00627 479437003096 Elongation factor TS; Region: EF_TS; pfam00889 479437003097 Elongation factor TS; Region: EF_TS; pfam00889 479437003098 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 479437003099 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 479437003100 hinge; other site 479437003101 active site 479437003102 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 479437003103 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 479437003104 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 479437003105 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 479437003106 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 479437003107 active site 479437003108 multimer interface [polypeptide binding]; other site 479437003109 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 479437003110 predicted active site [active] 479437003111 catalytic triad [active] 479437003112 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 479437003113 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cl00018 479437003114 non-heme iron binding site [ion binding]; other site 479437003115 Desulfoferrodoxin [Energy production and conversion]; Region: COG2033 479437003116 dimer interface [polypeptide binding]; other site 479437003117 Desulfoferrodoxin; Region: Desulfoferrodox; pfam01880 479437003118 non-heme iron binding site [ion binding]; other site 479437003119 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 479437003120 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 479437003121 domain interfaces; other site 479437003122 active site 479437003123 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 479437003124 intersubunit interface [polypeptide binding]; other site 479437003125 active site 479437003126 Zn2+ binding site [ion binding]; other site 479437003127 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 479437003128 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 479437003129 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 479437003130 dimer interface [polypeptide binding]; other site 479437003131 putative functional site; other site 479437003132 putative MPT binding site; other site 479437003133 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 479437003134 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 479437003135 intersubunit interface [polypeptide binding]; other site 479437003136 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 479437003137 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 479437003138 Walker A/P-loop; other site 479437003139 ATP binding site [chemical binding]; other site 479437003140 Q-loop/lid; other site 479437003141 ABC transporter signature motif; other site 479437003142 Walker B; other site 479437003143 D-loop; other site 479437003144 H-loop/switch region; other site 479437003145 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 479437003146 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 479437003147 ABC-ATPase subunit interface; other site 479437003148 dimer interface [polypeptide binding]; other site 479437003149 putative PBP binding regions; other site 479437003150 Domain of unknown function (DUF4213); Region: DUF4213; pfam13938 479437003151 Uncharacterized conserved protein [Function unknown]; Region: COG2014 479437003152 Domain of unknown function (DUF364); Region: DUF364; pfam04016 479437003153 NTPase; Region: NTPase_1; cl17478 479437003154 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 479437003155 Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either...; Region: rubredoxin_like; cl00202 479437003156 Rubredoxin [Energy production and conversion]; Region: COG1773 479437003157 iron binding site [ion binding]; other site 479437003158 putative transposase OrfB; Reviewed; Region: PHA02517 479437003159 HTH-like domain; Region: HTH_21; pfam13276 479437003160 Integrase core domain; Region: rve; pfam00665 479437003161 Integrase core domain; Region: rve_2; pfam13333 479437003162 Helix-turn-helix domain; Region: HTH_28; pfam13518 479437003163 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 479437003164 S-adenosylmethionine binding site [chemical binding]; other site 479437003165 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 479437003166 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 479437003167 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 479437003168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437003169 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437003170 Walker A/P-loop; other site 479437003171 ATP binding site [chemical binding]; other site 479437003172 Q-loop/lid; other site 479437003173 ABC transporter signature motif; other site 479437003174 Walker B; other site 479437003175 D-loop; other site 479437003176 H-loop/switch region; other site 479437003177 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 479437003178 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 479437003179 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 479437003180 CAAX protease self-immunity; Region: Abi; pfam02517 479437003181 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 479437003182 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 479437003183 Walker A/P-loop; other site 479437003184 ATP binding site [chemical binding]; other site 479437003185 Q-loop/lid; other site 479437003186 ABC transporter signature motif; other site 479437003187 Walker B; other site 479437003188 D-loop; other site 479437003189 H-loop/switch region; other site 479437003190 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 479437003191 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437003192 substrate binding pocket [chemical binding]; other site 479437003193 membrane-bound complex binding site; other site 479437003194 hinge residues; other site 479437003195 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 479437003196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437003197 dimer interface [polypeptide binding]; other site 479437003198 conserved gate region; other site 479437003199 putative PBP binding loops; other site 479437003200 ABC-ATPase subunit interface; other site 479437003201 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 479437003202 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437003203 dimer interface [polypeptide binding]; other site 479437003204 conserved gate region; other site 479437003205 putative PBP binding loops; other site 479437003206 ABC-ATPase subunit interface; other site 479437003207 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 479437003208 sequence-specific DNA binding site [nucleotide binding]; other site 479437003209 salt bridge; other site 479437003210 DNA topoisomerase I; Validated; Region: PRK07219 479437003211 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 479437003212 active site 479437003213 putative interdomain interaction site [polypeptide binding]; other site 479437003214 putative metal-binding site [ion binding]; other site 479437003215 putative nucleotide binding site [chemical binding]; other site 479437003216 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 479437003217 domain I; other site 479437003218 DNA binding groove [nucleotide binding] 479437003219 phosphate binding site [ion binding]; other site 479437003220 domain II; other site 479437003221 domain III; other site 479437003222 nucleotide binding site [chemical binding]; other site 479437003223 catalytic site [active] 479437003224 domain IV; other site 479437003225 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 479437003226 malate dehydrogenase; Reviewed; Region: PRK06223 479437003227 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 479437003228 NAD(P) binding site [chemical binding]; other site 479437003229 dimer interface [polypeptide binding]; other site 479437003230 tetramer (dimer of dimers) interface [polypeptide binding]; other site 479437003231 substrate binding site [chemical binding]; other site 479437003232 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437003233 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437003234 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 479437003235 FMN binding site [chemical binding]; other site 479437003236 dimer interface [polypeptide binding]; other site 479437003237 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 479437003238 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 479437003239 Fumarase C-terminus; Region: Fumerase_C; cl00795 479437003240 thymidylate kinase; Validated; Region: tmk; PRK00698 479437003241 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 479437003242 TMP-binding site; other site 479437003243 ATP-binding site [chemical binding]; other site 479437003244 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 479437003245 DNA polymerase III subunit delta'; Validated; Region: PRK08485 479437003246 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 479437003247 PSP1 C-terminal conserved region; Region: PSP1; cl00770 479437003248 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 479437003249 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 479437003250 active site 479437003251 EDD domain protein, DegV family; Region: DegV; TIGR00762 479437003252 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 479437003253 EDD domain protein, DegV family; Region: DegV; TIGR00762 479437003254 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 479437003255 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 479437003256 Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]; Region: PflX; COG1313 479437003257 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 479437003258 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 479437003259 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 479437003260 FeS/SAM binding site; other site 479437003261 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 479437003262 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 479437003263 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 479437003264 metabolite-proton symporter; Region: 2A0106; TIGR00883 479437003265 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 479437003266 putative substrate translocation pore; other site 479437003267 BCCT family transporter; Region: BCCT; pfam02028 479437003268 Creatinine amidohydrolase; Region: Creatininase; pfam02633 479437003269 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 479437003270 EamA-like transporter family; Region: EamA; pfam00892 479437003271 EamA-like transporter family; Region: EamA; pfam00892 479437003272 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 479437003273 Amidinotransferase; Region: Amidinotransf; cl12043 479437003274 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 479437003275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437003276 SnoaL-like domain; Region: SnoaL_3; pfam13474 479437003277 PAS domain; Region: PAS_9; pfam13426 479437003278 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 479437003279 putative active site [active] 479437003280 heme pocket [chemical binding]; other site 479437003281 PAS fold; Region: PAS_3; pfam08447 479437003282 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 479437003283 heme pocket [chemical binding]; other site 479437003284 putative active site [active] 479437003285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437003286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437003287 metal binding site [ion binding]; metal-binding site 479437003288 active site 479437003289 I-site; other site 479437003290 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 479437003291 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 479437003292 Walker A/P-loop; other site 479437003293 ATP binding site [chemical binding]; other site 479437003294 Q-loop/lid; other site 479437003295 ABC transporter signature motif; other site 479437003296 Walker B; other site 479437003297 D-loop; other site 479437003298 H-loop/switch region; other site 479437003299 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 479437003300 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 479437003301 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 479437003302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437003303 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437003304 active site 479437003305 phosphorylation site [posttranslational modification] 479437003306 intermolecular recognition site; other site 479437003307 dimerization interface [polypeptide binding]; other site 479437003308 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 479437003309 DNA binding site [nucleotide binding] 479437003310 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437003311 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 479437003312 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 479437003313 dimer interface [polypeptide binding]; other site 479437003314 phosphorylation site [posttranslational modification] 479437003315 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 479437003316 ATP binding site [chemical binding]; other site 479437003317 G-X-G motif; other site 479437003318 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437003319 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 479437003320 non-specific DNA binding site [nucleotide binding]; other site 479437003321 salt bridge; other site 479437003322 sequence-specific DNA binding site [nucleotide binding]; other site 479437003323 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 479437003324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437003325 Walker A/P-loop; other site 479437003326 ATP binding site [chemical binding]; other site 479437003327 Q-loop/lid; other site 479437003328 ABC transporter signature motif; other site 479437003329 Walker B; other site 479437003330 D-loop; other site 479437003331 H-loop/switch region; other site 479437003332 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 479437003333 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 479437003334 B3/4 domain; Region: B3_4; pfam03483 479437003335 DNA polymerase IV; Reviewed; Region: PRK03103 479437003336 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 479437003337 active site 479437003338 DNA binding site [nucleotide binding] 479437003339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 479437003340 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437003341 Coenzyme A binding pocket [chemical binding]; other site 479437003342 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 479437003343 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 479437003344 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 479437003345 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 479437003346 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 479437003347 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437003348 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 479437003349 RelB antitoxin; Region: RelB; cl01171 479437003350 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 479437003351 putative active site [active] 479437003352 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 479437003353 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 479437003354 ATP binding site [chemical binding]; other site 479437003355 Mg++ binding site [ion binding]; other site 479437003356 motif III; other site 479437003357 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 479437003358 nucleotide binding region [chemical binding]; other site 479437003359 ATP-binding site [chemical binding]; other site 479437003360 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 479437003361 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 479437003362 putative substrate translocation pore; other site 479437003363 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 479437003364 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 479437003365 DNA binding residues [nucleotide binding] 479437003366 putative dimer interface [polypeptide binding]; other site 479437003367 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 479437003368 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437003369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437003370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437003371 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 479437003372 dimerization interface [polypeptide binding]; other site 479437003373 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437003374 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437003375 molybdopterin cofactor binding site; other site 479437003376 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437003377 molybdopterin cofactor binding site; other site 479437003378 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437003379 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 479437003380 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437003381 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437003382 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437003383 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437003384 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437003385 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 479437003386 non-specific DNA binding site [nucleotide binding]; other site 479437003387 salt bridge; other site 479437003388 sequence-specific DNA binding site [nucleotide binding]; other site 479437003389 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 479437003390 conserved cys residue [active] 479437003391 Domain of unknown function (DUF362); Region: DUF362; pfam04015 479437003392 Uncharacterized conserved protein [Function unknown]; Region: COG2006 479437003393 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 479437003394 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 479437003395 Galactose-1-phosphate uridyl transferase, N-terminal domain; Region: GalP_UDP_transf; pfam01087 479437003396 Galactose-1-phosphate uridyl transferase, C-terminal domain; Region: GalP_UDP_tr_C; pfam02744 479437003397 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 479437003398 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 479437003399 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 479437003400 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 479437003401 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 479437003402 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 479437003403 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 479437003404 classical (c) SDRs; Region: SDR_c; cd05233 479437003405 NAD(P) binding site [chemical binding]; other site 479437003406 active site 479437003407 RNHCP domain; Region: RNHCP; pfam12647 479437003408 GTPase RsgA; Reviewed; Region: PRK01889 479437003409 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 479437003410 RNA binding site [nucleotide binding]; other site 479437003411 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 479437003412 GTPase/Zn-binding domain interface [polypeptide binding]; other site 479437003413 GTP/Mg2+ binding site [chemical binding]; other site 479437003414 G4 box; other site 479437003415 G5 box; other site 479437003416 G1 box; other site 479437003417 Switch I region; other site 479437003418 G2 box; other site 479437003419 G3 box; other site 479437003420 Switch II region; other site 479437003421 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 479437003422 classical (c) SDRs; Region: SDR_c; cd05233 479437003423 NAD(P) binding site [chemical binding]; other site 479437003424 active site 479437003425 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 479437003426 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 479437003427 homotetramer interface [polypeptide binding]; other site 479437003428 ligand binding site [chemical binding]; other site 479437003429 catalytic site [active] 479437003430 NAD binding site [chemical binding]; other site 479437003431 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 479437003432 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 479437003433 DXD motif; other site 479437003434 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 479437003435 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437003436 active site 479437003437 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437003438 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 479437003439 substrate binding pocket [chemical binding]; other site 479437003440 membrane-bound complex binding site; other site 479437003441 hinge residues; other site 479437003442 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 479437003443 AIR carboxylase; Region: AIRC; smart01001 479437003444 Protein of unknown function DUF111; Region: DUF111; cl03398 479437003445 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 479437003446 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 479437003447 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 479437003448 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437003449 Walker A/P-loop; other site 479437003450 ATP binding site [chemical binding]; other site 479437003451 Q-loop/lid; other site 479437003452 ABC transporter signature motif; other site 479437003453 Walker B; other site 479437003454 D-loop; other site 479437003455 H-loop/switch region; other site 479437003456 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 479437003457 Peptidase M16C associated; Region: M16C_assoc; pfam08367 479437003458 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 479437003459 hypothetical protein; Validated; Region: PRK07121 479437003460 L-aspartate oxidase; Provisional; Region: PRK06175 479437003461 Fic family protein [Function unknown]; Region: COG3177 479437003462 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 479437003463 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437003464 Walker A/P-loop; other site 479437003465 ATP binding site [chemical binding]; other site 479437003466 Q-loop/lid; other site 479437003467 ABC transporter signature motif; other site 479437003468 Walker B; other site 479437003469 D-loop; other site 479437003470 H-loop/switch region; other site 479437003471 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 479437003472 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 479437003473 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437003474 Walker A/P-loop; other site 479437003475 ATP binding site [chemical binding]; other site 479437003476 Q-loop/lid; other site 479437003477 ABC transporter signature motif; other site 479437003478 Walker B; other site 479437003479 D-loop; other site 479437003480 H-loop/switch region; other site 479437003481 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 479437003482 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 479437003483 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437003484 dimer interface [polypeptide binding]; other site 479437003485 conserved gate region; other site 479437003486 ABC-ATPase subunit interface; other site 479437003487 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 479437003488 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437003489 putative PBP binding loops; other site 479437003490 dimer interface [polypeptide binding]; other site 479437003491 ABC-ATPase subunit interface; other site 479437003492 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 479437003493 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 479437003494 peptide binding site [polypeptide binding]; other site 479437003495 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 479437003496 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 479437003497 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437003498 catalytic residue [active] 479437003499 DAK2 domain; Region: Dak2; pfam02734 479437003500 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 479437003501 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 479437003502 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 479437003503 intersubunit interface [polypeptide binding]; other site 479437003504 active site 479437003505 zinc binding site [ion binding]; other site 479437003506 Na+ binding site [ion binding]; other site 479437003507 Protein of unknown function (DUF454); Region: DUF454; cl01063 479437003508 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 479437003509 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 479437003510 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 479437003511 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 479437003512 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 479437003513 23S rRNA binding site [nucleotide binding]; other site 479437003514 L21 binding site [polypeptide binding]; other site 479437003515 L13 binding site [polypeptide binding]; other site 479437003516 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 479437003517 Predicted dehydrogenase [General function prediction only]; Region: COG0579 479437003518 hydroxyglutarate oxidase; Provisional; Region: PRK11728 479437003519 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 479437003520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 479437003521 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 479437003522 Protein of unknown function (DUF1667); Region: DUF1667; cl17602 479437003523 helicase 45; Provisional; Region: PTZ00424 479437003524 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 479437003525 ATP binding site [chemical binding]; other site 479437003526 Mg++ binding site [ion binding]; other site 479437003527 motif III; other site 479437003528 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 479437003529 nucleotide binding region [chemical binding]; other site 479437003530 ATP-binding site [chemical binding]; other site 479437003531 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 479437003532 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 479437003533 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 479437003534 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 479437003535 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 479437003536 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 479437003537 Part of AAA domain; Region: AAA_19; pfam13245 479437003538 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 479437003539 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 479437003540 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 479437003541 Ligand binding site; other site 479437003542 Putative Catalytic site; other site 479437003543 DXD motif; other site 479437003544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437003545 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 479437003546 dimer interface [polypeptide binding]; other site 479437003547 phosphorylation site [posttranslational modification] 479437003548 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 479437003549 ATP binding site [chemical binding]; other site 479437003550 Mg2+ binding site [ion binding]; other site 479437003551 G-X-G motif; other site 479437003552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 479437003553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437003554 active site 479437003555 phosphorylation site [posttranslational modification] 479437003556 intermolecular recognition site; other site 479437003557 dimerization interface [polypeptide binding]; other site 479437003558 Predicted membrane protein [Function unknown]; Region: COG2246 479437003559 GtrA-like protein; Region: GtrA; pfam04138 479437003560 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 479437003561 TRAM domain; Region: TRAM; pfam01938 479437003562 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 479437003563 trimer interface [polypeptide binding]; other site 479437003564 active site 479437003565 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 479437003566 active site 479437003567 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 479437003568 binding surface 479437003569 TPR motif; other site 479437003570 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 479437003571 binding surface 479437003572 TPR repeat; Region: TPR_11; pfam13414 479437003573 TPR motif; other site 479437003574 TPR repeat; Region: TPR_11; pfam13414 479437003575 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 479437003576 binding surface 479437003577 Tetratricopeptide repeat; Region: TPR_12; pfam13424 479437003578 TPR motif; other site 479437003579 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 479437003580 active site 479437003581 multimer interface [polypeptide binding]; other site 479437003582 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 479437003583 cytochrome-c3 hydrogenase subunit gamma; Provisional; Region: PRK08345 479437003584 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 479437003585 FAD binding pocket [chemical binding]; other site 479437003586 FAD binding motif [chemical binding]; other site 479437003587 phosphate binding motif [ion binding]; other site 479437003588 beta-alpha-beta structure motif; other site 479437003589 NAD binding pocket [chemical binding]; other site 479437003590 Iron coordination center [ion binding]; other site 479437003591 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 479437003592 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 479437003593 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 479437003594 rod shape-determining protein MreB; Provisional; Region: PRK13927 479437003595 MreB and similar proteins; Region: MreB_like; cd10225 479437003596 nucleotide binding site [chemical binding]; other site 479437003597 Mg binding site [ion binding]; other site 479437003598 putative protofilament interaction site [polypeptide binding]; other site 479437003599 RodZ interaction site [polypeptide binding]; other site 479437003600 rod shape-determining protein MreC; Provisional; Region: PRK13922 479437003601 rod shape-determining protein MreC; Region: MreC; pfam04085 479437003602 rod shape-determining protein MreD; Region: MreD; cl01087 479437003603 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 479437003604 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 479437003605 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 479437003606 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 479437003607 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 479437003608 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 479437003609 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 479437003610 B12 binding site [chemical binding]; other site 479437003611 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 479437003612 FeS/SAM binding site; other site 479437003613 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 479437003614 Transcriptional regulators [Transcription]; Region: MarR; COG1846 479437003615 MarR family; Region: MarR_2; pfam12802 479437003616 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437003617 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437003618 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437003619 Walker A/P-loop; other site 479437003620 ATP binding site [chemical binding]; other site 479437003621 Q-loop/lid; other site 479437003622 ABC transporter signature motif; other site 479437003623 Walker B; other site 479437003624 D-loop; other site 479437003625 H-loop/switch region; other site 479437003626 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437003627 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437003628 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 479437003629 Walker A/P-loop; other site 479437003630 ATP binding site [chemical binding]; other site 479437003631 Q-loop/lid; other site 479437003632 ABC transporter signature motif; other site 479437003633 Walker B; other site 479437003634 D-loop; other site 479437003635 H-loop/switch region; other site 479437003636 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 479437003637 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 479437003638 Rrf2 family protein; Region: rrf2_super; TIGR00738 479437003639 Transcriptional regulator; Region: Rrf2; pfam02082 479437003640 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 479437003641 endonuclease III; Region: ENDO3c; smart00478 479437003642 minor groove reading motif; other site 479437003643 helix-hairpin-helix signature motif; other site 479437003644 substrate binding pocket [chemical binding]; other site 479437003645 active site 479437003646 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437003647 MULE transposase domain; Region: MULE; pfam10551 479437003648 Predicted membrane protein [Function unknown]; Region: COG1971 479437003649 Domain of unknown function DUF; Region: DUF204; pfam02659 479437003650 Domain of unknown function DUF; Region: DUF204; pfam02659 479437003651 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 479437003652 Prephenate dehydratase; Region: PDT; pfam00800 479437003653 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 479437003654 putative L-Phe binding site [chemical binding]; other site 479437003655 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 479437003656 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 479437003657 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 479437003658 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 479437003659 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 479437003660 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 479437003661 Predicted flavoprotein [General function prediction only]; Region: COG0431 479437003662 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437003663 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 479437003664 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 479437003665 nickel binding site [ion binding]; other site 479437003666 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 479437003667 PAS fold; Region: PAS_3; pfam08447 479437003668 putative active site [active] 479437003669 heme pocket [chemical binding]; other site 479437003670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437003671 metal binding site [ion binding]; metal-binding site 479437003672 active site 479437003673 I-site; other site 479437003674 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 479437003675 Protein of unknown function, DUF488; Region: DUF488; pfam04343 479437003676 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437003677 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437003678 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 479437003679 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437003680 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 479437003681 non-specific DNA binding site [nucleotide binding]; other site 479437003682 salt bridge; other site 479437003683 sequence-specific DNA binding site [nucleotide binding]; other site 479437003684 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 479437003685 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 479437003686 non-heme iron binding site [ion binding]; other site 479437003687 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 479437003688 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 479437003689 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 479437003690 active site 479437003691 catalytic tetrad [active] 479437003692 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 479437003693 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 479437003694 minor groove reading motif; other site 479437003695 helix-hairpin-helix signature motif; other site 479437003696 substrate binding pocket [chemical binding]; other site 479437003697 active site 479437003698 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 479437003699 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 479437003700 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 479437003701 active site 479437003702 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437003703 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 479437003704 DNA binding residues [nucleotide binding] 479437003705 dimerization interface [polypeptide binding]; other site 479437003706 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 479437003707 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 479437003708 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 479437003709 ATP binding site [chemical binding]; other site 479437003710 putative Mg++ binding site [ion binding]; other site 479437003711 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 479437003712 nucleotide binding region [chemical binding]; other site 479437003713 ATP-binding site [chemical binding]; other site 479437003714 TRCF domain; Region: TRCF; pfam03461 479437003715 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 479437003716 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 479437003717 SdpI/YhfL protein family; Region: SdpI; pfam13630 479437003718 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 479437003719 dimerization interface [polypeptide binding]; other site 479437003720 putative DNA binding site [nucleotide binding]; other site 479437003721 putative Zn2+ binding site [ion binding]; other site 479437003722 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 479437003723 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 479437003724 active site 479437003725 Transcriptional regulators [Transcription]; Region: MarR; COG1846 479437003726 MarR family; Region: MarR_2; pfam12802 479437003727 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437003728 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437003729 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 479437003730 CoenzymeA binding site [chemical binding]; other site 479437003731 subunit interaction site [polypeptide binding]; other site 479437003732 PHB binding site; other site 479437003733 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437003734 4Fe-4S binding domain; Region: Fer4; pfam00037 479437003735 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 479437003736 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 479437003737 HIGH motif; other site 479437003738 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 479437003739 active site 479437003740 KMSKS motif; other site 479437003741 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 479437003742 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 479437003743 S-adenosylmethionine synthetase; Validated; Region: PRK05250 479437003744 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 479437003745 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 479437003746 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 479437003747 primosome assembly protein PriA; Validated; Region: PRK05580 479437003748 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 479437003749 ATP binding site [chemical binding]; other site 479437003750 putative Mg++ binding site [ion binding]; other site 479437003751 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 479437003752 helicase superfamily c-terminal domain; Region: HELICc; smart00490 479437003753 ATP-binding site [chemical binding]; other site 479437003754 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 479437003755 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 479437003756 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 479437003757 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 479437003758 substrate binding pocket [chemical binding]; other site 479437003759 membrane-bound complex binding site; other site 479437003760 hinge residues; other site 479437003761 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437003762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437003763 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 479437003764 dimer interface [polypeptide binding]; other site 479437003765 phosphorylation site [posttranslational modification] 479437003766 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 479437003767 ATP binding site [chemical binding]; other site 479437003768 Mg2+ binding site [ion binding]; other site 479437003769 G-X-G motif; other site 479437003770 Response regulator receiver domain; Region: Response_reg; pfam00072 479437003771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437003772 active site 479437003773 phosphorylation site [posttranslational modification] 479437003774 intermolecular recognition site; other site 479437003775 dimerization interface [polypeptide binding]; other site 479437003776 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 479437003777 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 479437003778 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437003779 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 479437003780 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 479437003781 DNA binding residues [nucleotide binding] 479437003782 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 479437003783 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 479437003784 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437003785 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437003786 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 479437003787 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 479437003788 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 479437003789 active site 479437003790 HIGH motif; other site 479437003791 dimer interface [polypeptide binding]; other site 479437003792 KMSKS motif; other site 479437003793 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 479437003794 DNA-binding site [nucleotide binding]; DNA binding site 479437003795 RNA-binding motif; other site 479437003796 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 479437003797 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 479437003798 DNA binding residues [nucleotide binding] 479437003799 putative dimer interface [polypeptide binding]; other site 479437003800 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 479437003801 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437003802 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 479437003803 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 479437003804 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437003805 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437003806 ABC transporter; Region: ABC_tran_2; pfam12848 479437003807 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437003808 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 479437003809 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 479437003810 homodimer interface [polypeptide binding]; other site 479437003811 substrate-cofactor binding pocket; other site 479437003812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437003813 catalytic residue [active] 479437003814 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 479437003815 classical (c) SDRs; Region: SDR_c; cd05233 479437003816 NAD(P) binding site [chemical binding]; other site 479437003817 active site 479437003818 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 479437003819 Peptidase family M50; Region: Peptidase_M50; pfam02163 479437003820 active site 479437003821 putative substrate binding region [chemical binding]; other site 479437003822 ScpA/B protein; Region: ScpA_ScpB; cl00598 479437003823 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 479437003824 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 479437003825 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 479437003826 RNA binding surface [nucleotide binding]; other site 479437003827 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 479437003828 active site 479437003829 prephenate dehydrogenase; Validated; Region: PRK06545 479437003830 prephenate dehydrogenase; Validated; Region: PRK08507 479437003831 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 479437003832 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 479437003833 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 479437003834 hinge; other site 479437003835 active site 479437003836 cytidylate kinase; Provisional; Region: cmk; PRK00023 479437003837 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 479437003838 CMP-binding site; other site 479437003839 The sites determining sugar specificity; other site 479437003840 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 479437003841 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 479437003842 putative acyl-acceptor binding pocket; other site 479437003843 LytB protein; Region: LYTB; cl00507 479437003844 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 479437003845 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 479437003846 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 479437003847 Protein of unknown function (DUF512); Region: DUF512; pfam04459 479437003848 GTP-binding protein Der; Reviewed; Region: PRK00093 479437003849 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 479437003850 G1 box; other site 479437003851 GTP/Mg2+ binding site [chemical binding]; other site 479437003852 Switch I region; other site 479437003853 G2 box; other site 479437003854 Switch II region; other site 479437003855 G3 box; other site 479437003856 G4 box; other site 479437003857 G5 box; other site 479437003858 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 479437003859 G1 box; other site 479437003860 GTP/Mg2+ binding site [chemical binding]; other site 479437003861 Switch I region; other site 479437003862 G2 box; other site 479437003863 G3 box; other site 479437003864 Switch II region; other site 479437003865 G4 box; other site 479437003866 G5 box; other site 479437003867 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 479437003868 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 479437003869 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 479437003870 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 479437003871 Glycopeptide antibiotics resistance protein [Defense mechanisms]; Region: VanZ; COG4767 479437003872 RDD family; Region: RDD; pfam06271 479437003873 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 479437003874 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 479437003875 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 479437003876 DNA binding site [nucleotide binding] 479437003877 active site 479437003878 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 479437003879 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 479437003880 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 479437003881 dimer interface [polypeptide binding]; other site 479437003882 phosphorylation site [posttranslational modification] 479437003883 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 479437003884 ATP binding site [chemical binding]; other site 479437003885 Mg2+ binding site [ion binding]; other site 479437003886 G-X-G motif; other site 479437003887 Response regulator receiver domain; Region: Response_reg; pfam00072 479437003888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437003889 active site 479437003890 phosphorylation site [posttranslational modification] 479437003891 intermolecular recognition site; other site 479437003892 dimerization interface [polypeptide binding]; other site 479437003893 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 479437003894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437003895 active site 479437003896 phosphorylation site [posttranslational modification] 479437003897 intermolecular recognition site; other site 479437003898 dimerization interface [polypeptide binding]; other site 479437003899 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437003900 Zn2+ binding site [ion binding]; other site 479437003901 Mg2+ binding site [ion binding]; other site 479437003902 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437003903 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437003904 metal binding site [ion binding]; metal-binding site 479437003905 active site 479437003906 I-site; other site 479437003907 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 479437003908 putative binding surface; other site 479437003909 active site 479437003910 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 479437003911 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 479437003912 substrate binding site [chemical binding]; other site 479437003913 hexamer interface [polypeptide binding]; other site 479437003914 metal binding site [ion binding]; metal-binding site 479437003915 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 479437003916 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 479437003917 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437003918 catalytic residue [active] 479437003919 histidinol-phosphatase; Provisional; Region: PRK07328 479437003920 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 479437003921 active site 479437003922 dimer interface [polypeptide binding]; other site 479437003923 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 479437003924 Uncharacterized conserved protein [Function unknown]; Region: COG0327 479437003925 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 479437003926 Putative zinc ribbon domain; Region: DUF164; pfam02591 479437003927 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 479437003928 Asp23 family; Region: Asp23; cl00574 479437003929 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 479437003930 DAK2 domain; Region: Dak2; pfam02734 479437003931 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 479437003932 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 479437003933 generic binding surface II; other site 479437003934 ssDNA binding site; other site 479437003935 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 479437003936 ATP binding site [chemical binding]; other site 479437003937 putative Mg++ binding site [ion binding]; other site 479437003938 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 479437003939 nucleotide binding region [chemical binding]; other site 479437003940 ATP-binding site [chemical binding]; other site 479437003941 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 479437003942 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 479437003943 S-adenosylmethionine binding site [chemical binding]; other site 479437003944 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 479437003945 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 479437003946 active site 479437003947 (T/H)XGH motif; other site 479437003948 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 479437003949 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437003950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437003951 DNA-binding site [nucleotide binding]; DNA binding site 479437003952 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437003953 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437003954 Walker A/P-loop; other site 479437003955 ATP binding site [chemical binding]; other site 479437003956 Q-loop/lid; other site 479437003957 ABC transporter signature motif; other site 479437003958 Walker B; other site 479437003959 D-loop; other site 479437003960 H-loop/switch region; other site 479437003961 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; cl02915 479437003962 dimer interface [polypeptide binding]; other site 479437003963 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437003964 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437003965 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 479437003966 Walker A/P-loop; other site 479437003967 ATP binding site [chemical binding]; other site 479437003968 Q-loop/lid; other site 479437003969 ABC transporter signature motif; other site 479437003970 Walker B; other site 479437003971 D-loop; other site 479437003972 H-loop/switch region; other site 479437003973 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 479437003974 putative phosphate acyltransferase; Provisional; Region: PRK05331 479437003975 ribonuclease III; Reviewed; Region: rnc; PRK00102 479437003976 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 479437003977 dimerization interface [polypeptide binding]; other site 479437003978 active site 479437003979 metal binding site [ion binding]; metal-binding site 479437003980 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 479437003981 dsRNA binding site [nucleotide binding]; other site 479437003982 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 479437003983 AAA domain; Region: AAA_23; pfam13476 479437003984 Walker A/P-loop; other site 479437003985 ATP binding site [chemical binding]; other site 479437003986 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 479437003987 ABC transporter signature motif; other site 479437003988 Walker B; other site 479437003989 D-loop; other site 479437003990 H-loop/switch region; other site 479437003991 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437003992 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437003993 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 479437003994 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 479437003995 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 479437003996 P loop; other site 479437003997 GTP binding site [chemical binding]; other site 479437003998 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437003999 HipA-like C-terminal domain; Region: HipA_C; pfam07804 479437004000 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004001 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 479437004002 non-specific DNA binding site [nucleotide binding]; other site 479437004003 salt bridge; other site 479437004004 sequence-specific DNA binding site [nucleotide binding]; other site 479437004005 signal recognition particle protein; Provisional; Region: PRK10867 479437004006 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 479437004007 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 479437004008 P loop; other site 479437004009 GTP binding site [chemical binding]; other site 479437004010 Signal peptide binding domain; Region: SRP_SPB; pfam02978 479437004011 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 479437004012 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 479437004013 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 479437004014 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 479437004015 KH domain; Region: KH_4; pfam13083 479437004016 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 479437004017 RimM N-terminal domain; Region: RimM; pfam01782 479437004018 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 479437004019 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 479437004020 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 479437004021 Catalytic site [active] 479437004022 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 479437004023 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 479437004024 Catalytic site [active] 479437004025 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 479437004026 dimer interface [polypeptide binding]; other site 479437004027 motif 1; other site 479437004028 active site 479437004029 motif 2; other site 479437004030 motif 3; other site 479437004031 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 479437004032 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 479437004033 pyruvate phosphate dikinase; Provisional; Region: PRK09279 479437004034 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 479437004035 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 479437004036 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 479437004037 fumarate reductase flavoprotein subunit; Validated; Region: PRK06481 479437004038 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437004039 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437004040 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437004041 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 479437004042 DNA binding residues [nucleotide binding] 479437004043 dimerization interface [polypeptide binding]; other site 479437004044 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 479437004045 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 479437004046 TrkA-C domain; Region: TrkA_C; pfam02080 479437004047 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437004048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437004049 FMN-binding domain; Region: FMN_bind; cl01081 479437004050 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437004051 Fic family protein [Function unknown]; Region: COG3177 479437004052 Fic/DOC family; Region: Fic; pfam02661 479437004053 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 479437004054 non-specific DNA interactions [nucleotide binding]; other site 479437004055 DNA binding site [nucleotide binding] 479437004056 sequence specific DNA binding site [nucleotide binding]; other site 479437004057 putative cAMP binding site [chemical binding]; other site 479437004058 MarR family; Region: MarR; pfam01047 479437004059 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 479437004060 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437004061 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 479437004062 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 479437004063 motif II; other site 479437004064 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 479437004065 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 479437004066 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 479437004067 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 479437004068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437004069 Zn2+ binding site [ion binding]; other site 479437004070 Mg2+ binding site [ion binding]; other site 479437004071 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 479437004072 AzlC protein; Region: AzlC; pfam03591 479437004073 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 479437004074 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 479437004075 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 479437004076 RNA/DNA hybrid binding site [nucleotide binding]; other site 479437004077 active site 479437004078 hypothetical protein; Reviewed; Region: PRK12497 479437004079 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 479437004080 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 479437004081 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 479437004082 Walker A motif; other site 479437004083 ATP binding site [chemical binding]; other site 479437004084 Walker B motif; other site 479437004085 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 479437004086 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 479437004087 DNA protecting protein DprA; Region: dprA; TIGR00732 479437004088 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 479437004089 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 479437004090 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 479437004091 Glucose inhibited division protein A; Region: GIDA; pfam01134 479437004092 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 479437004093 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 479437004094 active site 479437004095 DNA binding site [nucleotide binding] 479437004096 Int/Topo IB signature motif; other site 479437004097 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437004098 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437004099 active site 479437004100 phosphorylation site [posttranslational modification] 479437004101 intermolecular recognition site; other site 479437004102 dimerization interface [polypeptide binding]; other site 479437004103 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 479437004104 DNA binding site [nucleotide binding] 479437004105 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437004106 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 479437004107 phosphorylation site [posttranslational modification] 479437004108 dimer interface [polypeptide binding]; other site 479437004109 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 479437004110 ATP binding site [chemical binding]; other site 479437004111 Mg2+ binding site [ion binding]; other site 479437004112 G-X-G motif; other site 479437004113 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437004114 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437004115 Walker A/P-loop; other site 479437004116 ATP binding site [chemical binding]; other site 479437004117 Q-loop/lid; other site 479437004118 ABC transporter signature motif; other site 479437004119 Walker B; other site 479437004120 D-loop; other site 479437004121 H-loop/switch region; other site 479437004122 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004123 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 479437004124 non-specific DNA binding site [nucleotide binding]; other site 479437004125 salt bridge; other site 479437004126 sequence-specific DNA binding site [nucleotide binding]; other site 479437004127 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 479437004128 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 479437004129 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 479437004130 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 479437004131 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 479437004132 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 479437004133 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 479437004134 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 479437004135 EamA-like transporter family; Region: EamA; pfam00892 479437004136 EamA-like transporter family; Region: EamA; pfam00892 479437004137 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 479437004138 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437004139 Coenzyme A binding pocket [chemical binding]; other site 479437004140 EamA-like transporter family; Region: EamA; pfam00892 479437004141 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 479437004142 EamA-like transporter family; Region: EamA; pfam00892 479437004143 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 479437004144 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 479437004145 Domain of unknown function (DUF1848); Region: DUF1848; pfam08902 479437004146 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 479437004147 putative active site [active] 479437004148 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 479437004149 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 479437004150 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 479437004151 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437004152 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 479437004153 DNA binding residues [nucleotide binding] 479437004154 dimerization interface [polypeptide binding]; other site 479437004155 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437004156 Helix-turn-helix domain; Region: HTH_18; pfam12833 479437004157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437004158 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437004159 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437004160 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437004161 Walker A/P-loop; other site 479437004162 ATP binding site [chemical binding]; other site 479437004163 Q-loop/lid; other site 479437004164 ABC transporter signature motif; other site 479437004165 Walker B; other site 479437004166 D-loop; other site 479437004167 H-loop/switch region; other site 479437004168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004169 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437004170 Walker A/P-loop; other site 479437004171 ATP binding site [chemical binding]; other site 479437004172 Q-loop/lid; other site 479437004173 ABC transporter signature motif; other site 479437004174 Walker B; other site 479437004175 D-loop; other site 479437004176 H-loop/switch region; other site 479437004177 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437004178 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 479437004179 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004181 Walker A/P-loop; other site 479437004182 ATP binding site [chemical binding]; other site 479437004183 Q-loop/lid; other site 479437004184 ABC transporter signature motif; other site 479437004185 Walker B; other site 479437004186 D-loop; other site 479437004187 H-loop/switch region; other site 479437004188 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004189 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004190 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004191 Walker A/P-loop; other site 479437004192 ATP binding site [chemical binding]; other site 479437004193 Q-loop/lid; other site 479437004194 ABC transporter signature motif; other site 479437004195 Walker B; other site 479437004196 D-loop; other site 479437004197 H-loop/switch region; other site 479437004198 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 479437004199 FAD binding domain; Region: FAD_binding_4; pfam01565 479437004200 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 479437004201 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 479437004202 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004204 Walker A/P-loop; other site 479437004205 ATP binding site [chemical binding]; other site 479437004206 Q-loop/lid; other site 479437004207 ABC transporter signature motif; other site 479437004208 Walker B; other site 479437004209 D-loop; other site 479437004210 H-loop/switch region; other site 479437004211 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 479437004212 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 479437004213 Walker A/P-loop; other site 479437004214 ATP binding site [chemical binding]; other site 479437004215 Q-loop/lid; other site 479437004216 ABC transporter signature motif; other site 479437004217 Walker B; other site 479437004218 D-loop; other site 479437004219 H-loop/switch region; other site 479437004220 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 479437004221 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 479437004222 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437004223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437004224 ABC transporter; Region: ABC_tran_2; pfam12848 479437004225 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437004226 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 479437004227 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 479437004228 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004229 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 479437004230 non-specific DNA binding site [nucleotide binding]; other site 479437004231 salt bridge; other site 479437004232 sequence-specific DNA binding site [nucleotide binding]; other site 479437004233 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 479437004234 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 479437004235 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 479437004236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437004237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437004238 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 479437004239 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 479437004240 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 479437004241 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 479437004242 Saccharopine dehydrogenase N-terminal domain; Region: SDH_N_domain; cl04528 479437004243 Uncharacterized conserved protein [Function unknown]; Region: COG1915 479437004244 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 479437004245 ATP binding site [chemical binding]; other site 479437004246 putative Mg++ binding site [ion binding]; other site 479437004247 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 479437004248 nucleotide binding region [chemical binding]; other site 479437004249 ATP-binding site [chemical binding]; other site 479437004250 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 479437004251 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437004252 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437004253 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 479437004254 DNA binding residues [nucleotide binding] 479437004255 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 479437004256 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 479437004257 Walker A/P-loop; other site 479437004258 ATP binding site [chemical binding]; other site 479437004259 Q-loop/lid; other site 479437004260 ABC transporter signature motif; other site 479437004261 Walker B; other site 479437004262 D-loop; other site 479437004263 H-loop/switch region; other site 479437004264 isocitrate dehydrogenase; Validated; Region: PRK08299 479437004265 Predicted membrane protein [Function unknown]; Region: COG1511 479437004266 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 479437004267 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 479437004268 Predicted membrane protein [Function unknown]; Region: COG1511 479437004269 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 479437004270 Predicted membrane protein [Function unknown]; Region: COG1511 479437004271 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 479437004272 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004273 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004275 Walker A/P-loop; other site 479437004276 ATP binding site [chemical binding]; other site 479437004277 Q-loop/lid; other site 479437004278 ABC transporter signature motif; other site 479437004279 Walker B; other site 479437004280 D-loop; other site 479437004281 H-loop/switch region; other site 479437004282 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 479437004283 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 479437004284 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 479437004285 iron-sulfur cluster [ion binding]; other site 479437004286 [2Fe-2S] cluster binding site [ion binding]; other site 479437004287 DNA polymerase IV; Reviewed; Region: PRK03103 479437004288 Y-family of DNA polymerases; Region: PolY; cl12025 479437004289 active site 479437004290 DNA binding site [nucleotide binding] 479437004291 YolD-like protein; Region: YolD; pfam08863 479437004292 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004293 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 479437004294 Walker A/P-loop; other site 479437004295 ATP binding site [chemical binding]; other site 479437004296 Q-loop/lid; other site 479437004297 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004298 ABC transporter signature motif; other site 479437004299 Walker B; other site 479437004300 D-loop; other site 479437004301 H-loop/switch region; other site 479437004302 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004303 Walker A/P-loop; other site 479437004304 ATP binding site [chemical binding]; other site 479437004305 Q-loop/lid; other site 479437004306 ABC transporter signature motif; other site 479437004307 Walker B; other site 479437004308 D-loop; other site 479437004309 H-loop/switch region; other site 479437004310 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 479437004311 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 479437004312 non-specific DNA binding site [nucleotide binding]; other site 479437004313 salt bridge; other site 479437004314 sequence-specific DNA binding site [nucleotide binding]; other site 479437004315 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 479437004316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437004317 homodimer interface [polypeptide binding]; other site 479437004318 catalytic residue [active] 479437004319 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 479437004320 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 479437004321 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 479437004322 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 479437004323 RNA binding site [nucleotide binding]; other site 479437004324 Arsenate reductase and related proteins, glutaredoxin family [Inorganic ion transport and metabolism]; Region: ArsC; COG1393 479437004325 ArsC family; Region: ArsC; pfam03960 479437004326 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 479437004327 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 479437004328 active site 479437004329 catalytic residues [active] 479437004330 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 479437004331 putative transporter; Provisional; Region: PRK11660 479437004332 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 479437004333 Sulfate transporter family; Region: Sulfate_transp; pfam00916 479437004334 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 479437004335 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 479437004336 FMN binding site [chemical binding]; other site 479437004337 dimer interface [polypeptide binding]; other site 479437004338 RelB antitoxin; Region: RelB; cl01171 479437004339 Helix-turn-helix domain; Region: HTH_18; pfam12833 479437004340 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437004341 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437004342 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437004343 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437004344 Walker A/P-loop; other site 479437004345 ATP binding site [chemical binding]; other site 479437004346 Q-loop/lid; other site 479437004347 ABC transporter signature motif; other site 479437004348 Walker B; other site 479437004349 D-loop; other site 479437004350 H-loop/switch region; other site 479437004351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004352 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437004353 Walker A/P-loop; other site 479437004354 ATP binding site [chemical binding]; other site 479437004355 Q-loop/lid; other site 479437004356 ABC transporter signature motif; other site 479437004357 Walker B; other site 479437004358 D-loop; other site 479437004359 H-loop/switch region; other site 479437004360 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437004361 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004362 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004363 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004364 Walker A/P-loop; other site 479437004365 ATP binding site [chemical binding]; other site 479437004366 Q-loop/lid; other site 479437004367 ABC transporter signature motif; other site 479437004368 Walker B; other site 479437004369 D-loop; other site 479437004370 H-loop/switch region; other site 479437004371 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004372 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004374 Walker A/P-loop; other site 479437004375 ATP binding site [chemical binding]; other site 479437004376 Q-loop/lid; other site 479437004377 ABC transporter signature motif; other site 479437004378 Walker B; other site 479437004379 D-loop; other site 479437004380 H-loop/switch region; other site 479437004381 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 479437004382 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 479437004383 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 479437004384 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437004385 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437004386 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437004387 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004388 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437004389 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004390 Walker A/P-loop; other site 479437004391 ATP binding site [chemical binding]; other site 479437004392 Q-loop/lid; other site 479437004393 ABC transporter signature motif; other site 479437004394 Walker B; other site 479437004395 D-loop; other site 479437004396 H-loop/switch region; other site 479437004397 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437004398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004399 Walker A/P-loop; other site 479437004400 ATP binding site [chemical binding]; other site 479437004401 Q-loop/lid; other site 479437004402 ABC transporter signature motif; other site 479437004403 Walker B; other site 479437004404 D-loop; other site 479437004405 H-loop/switch region; other site 479437004406 conserved hypothetical integral membrane protein TIGR02185; Region: Trep_Strep 479437004407 Cobalt transport protein; Region: CbiQ; cl00463 479437004408 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437004409 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437004410 Walker A/P-loop; other site 479437004411 ATP binding site [chemical binding]; other site 479437004412 Q-loop/lid; other site 479437004413 ABC transporter signature motif; other site 479437004414 Walker B; other site 479437004415 D-loop; other site 479437004416 H-loop/switch region; other site 479437004417 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 479437004418 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437004419 Walker A/P-loop; other site 479437004420 ATP binding site [chemical binding]; other site 479437004421 Q-loop/lid; other site 479437004422 ABC transporter signature motif; other site 479437004423 Walker B; other site 479437004424 D-loop; other site 479437004425 H-loop/switch region; other site 479437004426 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 479437004427 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 479437004428 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 479437004429 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437004430 Helix-turn-helix domain; Region: HTH_17; cl17695 479437004431 Helix-turn-helix domain; Region: HTH_36; pfam13730 479437004432 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 479437004433 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 479437004434 Walker A motif; other site 479437004435 ATP binding site [chemical binding]; other site 479437004436 Walker B motif; other site 479437004437 arginine finger; other site 479437004438 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 479437004439 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 479437004440 Walker A motif; other site 479437004441 ATP binding site [chemical binding]; other site 479437004442 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 479437004443 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 479437004444 PrgI family protein; Region: PrgI; pfam12666 479437004445 AAA-like domain; Region: AAA_10; pfam12846 479437004446 Domain of unknown function DUF87; Region: DUF87; pfam01935 479437004447 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 479437004448 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437004449 NlpC/P60 family; Region: NLPC_P60; pfam00877 479437004450 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 479437004451 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 479437004452 active site 479437004453 catalytic site [active] 479437004454 HEPN domain; Region: HEPN; cl00824 479437004455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 479437004456 Transposase; Region: DDE_Tnp_ISL3; pfam01610 479437004457 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 479437004458 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 479437004459 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 479437004460 ATP binding site [chemical binding]; other site 479437004461 putative Mg++ binding site [ion binding]; other site 479437004462 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 479437004463 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 479437004464 HsdM N-terminal domain; Region: HsdM_N; pfam12161 479437004465 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 479437004466 MULE transposase domain; Region: MULE; pfam10551 479437004467 Abi-like protein; Region: Abi_2; pfam07751 479437004468 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 479437004469 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 479437004470 ParB-like nuclease domain; Region: ParBc; pfam02195 479437004471 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 479437004472 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 479437004473 P-loop; other site 479437004474 Magnesium ion binding site [ion binding]; other site 479437004475 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 479437004476 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 479437004477 integrase; Provisional; Region: int; PHA02601 479437004478 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 479437004479 Int/Topo IB signature motif; other site 479437004480 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004481 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 479437004482 non-specific DNA binding site [nucleotide binding]; other site 479437004483 salt bridge; other site 479437004484 sequence-specific DNA binding site [nucleotide binding]; other site 479437004485 Divergent AAA domain; Region: AAA_4; pfam04326 479437004486 GMP synthase, PP-ATPase domain/subunit [Nucleotide transport and metabolism]; Region: GuaA; COG0519 479437004487 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 479437004488 ATP Binding subdomain [chemical binding]; other site 479437004489 Ligand Binding sites [chemical binding]; other site 479437004490 Dimerization subdomain; other site 479437004491 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 479437004492 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437004493 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437004494 FtsX-like permease family; Region: FtsX; pfam02687 479437004495 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 479437004496 FtsX-like permease family; Region: FtsX; pfam02687 479437004497 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437004498 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437004499 Walker A/P-loop; other site 479437004500 ATP binding site [chemical binding]; other site 479437004501 Q-loop/lid; other site 479437004502 ABC transporter signature motif; other site 479437004503 Walker B; other site 479437004504 D-loop; other site 479437004505 H-loop/switch region; other site 479437004506 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 479437004507 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 479437004508 dimer interface [polypeptide binding]; other site 479437004509 phosphorylation site [posttranslational modification] 479437004510 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 479437004511 ATP binding site [chemical binding]; other site 479437004512 Mg2+ binding site [ion binding]; other site 479437004513 G-X-G motif; other site 479437004514 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437004515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437004516 active site 479437004517 phosphorylation site [posttranslational modification] 479437004518 intermolecular recognition site; other site 479437004519 dimerization interface [polypeptide binding]; other site 479437004520 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 479437004521 DNA binding site [nucleotide binding] 479437004522 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004523 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 479437004524 non-specific DNA binding site [nucleotide binding]; other site 479437004525 salt bridge; other site 479437004526 sequence-specific DNA binding site [nucleotide binding]; other site 479437004527 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 479437004528 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 479437004529 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437004530 Soluble P-type ATPase [General function prediction only]; Region: COG4087 479437004531 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 479437004532 metal-binding site [ion binding] 479437004533 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 479437004534 dimerization interface [polypeptide binding]; other site 479437004535 putative DNA binding site [nucleotide binding]; other site 479437004536 putative Zn2+ binding site [ion binding]; other site 479437004537 4Fe-4S binding domain; Region: Fer4_6; pfam12837 479437004538 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437004539 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 479437004540 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437004541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 479437004542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437004543 EamA-like transporter family; Region: EamA; pfam00892 479437004544 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 479437004545 EamA-like transporter family; Region: EamA; pfam00892 479437004546 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 479437004547 C-terminal domain of Faecalibacterium prausnitzii A2-165 FrmR , and related domains; this domain family was previously known as part of DUF156; Region: FpFrmR-Cterm-like_DUF156; cd10156 479437004548 putative homodimer interface [polypeptide binding]; other site 479437004549 putative homotetramer interface [polypeptide binding]; other site 479437004550 putative allosteric switch controlling residues; other site 479437004551 putative metal binding site [ion binding]; other site 479437004552 putative homodimer-homodimer interface [polypeptide binding]; other site 479437004553 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 479437004554 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 479437004555 metal-binding site [ion binding] 479437004556 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437004557 Soluble P-type ATPase [General function prediction only]; Region: COG4087 479437004558 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 479437004559 metal-binding site [ion binding] 479437004560 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 479437004561 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 479437004562 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437004563 catalytic residue [active] 479437004564 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 479437004565 active site 479437004566 DNA polymerase IV; Validated; Region: PRK02406 479437004567 DNA binding site [nucleotide binding] 479437004568 EDD domain protein, DegV family; Region: DegV; TIGR00762 479437004569 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 479437004570 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 479437004571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 479437004572 active site 479437004573 HIGH motif; other site 479437004574 nucleotide binding site [chemical binding]; other site 479437004575 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 479437004576 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 479437004577 active site 479437004578 KMSKS motif; other site 479437004579 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 479437004580 tRNA binding surface [nucleotide binding]; other site 479437004581 anticodon binding site; other site 479437004582 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 479437004583 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 479437004584 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 479437004585 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 479437004586 RNA binding surface [nucleotide binding]; other site 479437004587 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 479437004588 active site 479437004589 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 479437004590 ferrochelatase; Reviewed; Region: hemH; PRK00035 479437004591 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 479437004592 C-terminal domain interface [polypeptide binding]; other site 479437004593 active site 479437004594 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 479437004595 active site 479437004596 N-terminal domain interface [polypeptide binding]; other site 479437004597 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 479437004598 Flavoprotein; Region: Flavoprotein; pfam02441 479437004599 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 479437004600 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 479437004601 homotrimer interaction site [polypeptide binding]; other site 479437004602 putative active site [active] 479437004603 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 479437004604 homotrimer interaction site [polypeptide binding]; other site 479437004605 putative active site [active] 479437004606 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 479437004607 homotrimer interaction site [polypeptide binding]; other site 479437004608 putative active site [active] 479437004609 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 479437004610 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 479437004611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437004612 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 479437004613 DNA binding residues [nucleotide binding] 479437004614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437004615 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 479437004616 DNA binding residues [nucleotide binding] 479437004617 dimerization interface [polypeptide binding]; other site 479437004618 Predicted membrane protein [Function unknown]; Region: COG1288 479437004619 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 479437004620 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437004621 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437004622 hydrogenase 4 subunit D; Validated; Region: PRK06525 479437004623 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 479437004624 NADH dehydrogenase; Region: NADHdh; cl00469 479437004625 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 479437004626 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 479437004627 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 479437004628 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 479437004629 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 479437004630 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437004631 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 479437004632 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 479437004633 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437004634 VanW like protein; Region: VanW; pfam04294 479437004635 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 479437004636 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437004637 acyl-activating enzyme (AAE) consensus motif; other site 479437004638 AMP binding site [chemical binding]; other site 479437004639 active site 479437004640 CoA binding site [chemical binding]; other site 479437004641 ACT domain-containing protein [General function prediction only]; Region: COG4747 479437004642 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 479437004643 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 479437004644 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 479437004645 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 479437004646 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 479437004647 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 479437004648 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 479437004649 phosphopeptide binding site; other site 479437004650 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 479437004651 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 479437004652 dimer interface [polypeptide binding]; other site 479437004653 PYR/PP interface [polypeptide binding]; other site 479437004654 TPP binding site [chemical binding]; other site 479437004655 substrate binding site [chemical binding]; other site 479437004656 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 479437004657 TPP-binding site; other site 479437004658 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 479437004659 ACT domain-containing protein [General function prediction only]; Region: COG4747 479437004660 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 479437004661 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 479437004662 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 479437004663 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437004664 acyl-activating enzyme (AAE) consensus motif; other site 479437004665 AMP binding site [chemical binding]; other site 479437004666 active site 479437004667 CoA binding site [chemical binding]; other site 479437004668 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 479437004669 active site 479437004670 HIGH motif; other site 479437004671 nucleotide binding site [chemical binding]; other site 479437004672 active site 479437004673 KMSKS motif; other site 479437004674 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437004675 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 479437004676 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004677 molybdopterin cofactor binding site; other site 479437004678 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437004679 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004680 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004681 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 479437004682 molybdopterin cofactor binding site; other site 479437004683 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437004684 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 479437004685 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 479437004686 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437004687 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 479437004688 DNA binding residues [nucleotide binding] 479437004689 dimerization interface [polypeptide binding]; other site 479437004690 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 479437004691 UbiA prenyltransferase family; Region: UbiA; pfam01040 479437004692 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 479437004693 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 479437004694 active site 479437004695 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 479437004696 Low molecular weight phosphatase family; Region: LMWPc; cd00115 479437004697 active site 479437004698 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 479437004699 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 479437004700 active site 479437004701 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 479437004702 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 479437004703 putative homodimer interface [polypeptide binding]; other site 479437004704 putative DNA binding site [nucleotide binding]; other site 479437004705 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 479437004706 active site 479437004707 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 479437004708 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 479437004709 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 479437004710 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 479437004711 active site 479437004712 homodimer interface [polypeptide binding]; other site 479437004713 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 479437004714 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 479437004715 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437004716 DNA binding residues [nucleotide binding] 479437004717 putative dimer interface [polypeptide binding]; other site 479437004718 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 479437004719 trimer interface [polypeptide binding]; other site 479437004720 active site 479437004721 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 479437004722 ATP cone domain; Region: ATP-cone; pfam03477 479437004723 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 479437004724 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437004725 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437004726 LexA repressor; Validated; Region: PRK00215 479437004727 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 479437004728 putative DNA binding site [nucleotide binding]; other site 479437004729 putative Zn2+ binding site [ion binding]; other site 479437004730 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 479437004731 Catalytic site [active] 479437004732 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 479437004733 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 479437004734 HflX GTPase family; Region: HflX; cd01878 479437004735 G1 box; other site 479437004736 GTP/Mg2+ binding site [chemical binding]; other site 479437004737 Switch I region; other site 479437004738 G2 box; other site 479437004739 G3 box; other site 479437004740 Switch II region; other site 479437004741 G4 box; other site 479437004742 G5 box; other site 479437004743 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 479437004744 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 479437004745 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 479437004746 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 479437004747 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 479437004748 FeS/SAM binding site; other site 479437004749 TRAM domain; Region: TRAM; pfam01938 479437004750 Stage V sporulation protein S (SpoVS); Region: SpoVS; cl01005 479437004751 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 479437004752 ATP binding site [chemical binding]; other site 479437004753 Mg2+ binding site [ion binding]; other site 479437004754 G-X-G motif; other site 479437004755 phosphodiesterase; Provisional; Region: PRK12704 479437004756 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 479437004757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437004758 Zn2+ binding site [ion binding]; other site 479437004759 Mg2+ binding site [ion binding]; other site 479437004760 recombination regulator RecX; Reviewed; Region: recX; PRK00117 479437004761 recombinase A; Provisional; Region: recA; PRK09354 479437004762 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 479437004763 hexamer interface [polypeptide binding]; other site 479437004764 Walker A motif; other site 479437004765 ATP binding site [chemical binding]; other site 479437004766 Walker B motif; other site 479437004767 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 479437004768 Competence-damaged protein; Region: CinA; pfam02464 479437004769 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 479437004770 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 479437004771 TRAM domain; Region: TRAM; cl01282 479437004772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 479437004773 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 479437004774 Helix-turn-helix domain; Region: HTH_25; pfam13413 479437004775 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 479437004776 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 479437004777 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 479437004778 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 479437004779 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437004780 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 479437004781 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 479437004782 dihydrodipicolinate synthase; Region: dapA; TIGR00674 479437004783 dimer interface [polypeptide binding]; other site 479437004784 active site 479437004785 catalytic residue [active] 479437004786 dihydrodipicolinate reductase; Provisional; Region: PRK00048 479437004787 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 479437004788 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 479437004789 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 479437004790 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 479437004791 RNase E interface [polypeptide binding]; other site 479437004792 trimer interface [polypeptide binding]; other site 479437004793 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 479437004794 RNase E interface [polypeptide binding]; other site 479437004795 trimer interface [polypeptide binding]; other site 479437004796 active site 479437004797 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 479437004798 putative nucleic acid binding region [nucleotide binding]; other site 479437004799 G-X-X-G motif; other site 479437004800 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 479437004801 RNA binding site [nucleotide binding]; other site 479437004802 domain interface; other site 479437004803 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 479437004804 16S/18S rRNA binding site [nucleotide binding]; other site 479437004805 S13e-L30e interaction site [polypeptide binding]; other site 479437004806 25S rRNA binding site [nucleotide binding]; other site 479437004807 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437004808 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 479437004809 dimer interface [polypeptide binding]; other site 479437004810 phosphorylation site [posttranslational modification] 479437004811 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 479437004812 ATP binding site [chemical binding]; other site 479437004813 Mg2+ binding site [ion binding]; other site 479437004814 G-X-G motif; other site 479437004815 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437004816 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437004817 active site 479437004818 phosphorylation site [posttranslational modification] 479437004819 intermolecular recognition site; other site 479437004820 dimerization interface [polypeptide binding]; other site 479437004821 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 479437004822 DNA binding site [nucleotide binding] 479437004823 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437004824 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 479437004825 active site 479437004826 catalytic site [active] 479437004827 substrate binding site [chemical binding]; other site 479437004828 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 479437004829 Dimer interface [polypeptide binding]; other site 479437004830 BRCT sequence motif; other site 479437004831 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 479437004832 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 479437004833 putative active site [active] 479437004834 uncharacterized protein TIGR03905; Region: TIGR03905_4_Cys 479437004835 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 479437004836 Recombination protein O N terminal; Region: RecO_N; pfam11967 479437004837 Recombination protein O C terminal; Region: RecO_C; pfam02565 479437004838 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 479437004839 Double zinc ribbon; Region: DZR; pfam12773 479437004840 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437004841 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437004842 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437004843 GTPase Era; Reviewed; Region: era; PRK00089 479437004844 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 479437004845 G1 box; other site 479437004846 GTP/Mg2+ binding site [chemical binding]; other site 479437004847 Switch I region; other site 479437004848 G2 box; other site 479437004849 Switch II region; other site 479437004850 G3 box; other site 479437004851 G4 box; other site 479437004852 G5 box; other site 479437004853 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 479437004854 metal-binding heat shock protein; Provisional; Region: PRK00016 479437004855 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 479437004856 PhoH-like protein; Region: PhoH; pfam02562 479437004857 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 479437004858 putative active site [active] 479437004859 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 479437004860 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 479437004861 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 479437004862 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 479437004863 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 479437004864 HSP70 interaction site [polypeptide binding]; other site 479437004865 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 479437004866 Zn binding sites [ion binding]; other site 479437004867 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 479437004868 dimer interface [polypeptide binding]; other site 479437004869 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 479437004870 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 479437004871 coproporphyrinogen III oxidase; Provisional; Region: PRK07379 479437004872 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 479437004873 FeS/SAM binding site; other site 479437004874 HemN C-terminal domain; Region: HemN_C; pfam06969 479437004875 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 479437004876 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 479437004877 FMN binding site [chemical binding]; other site 479437004878 active site 479437004879 catalytic residues [active] 479437004880 substrate binding site [chemical binding]; other site 479437004881 GTP-binding protein LepA; Provisional; Region: PRK05433 479437004882 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 479437004883 G1 box; other site 479437004884 putative GEF interaction site [polypeptide binding]; other site 479437004885 GTP/Mg2+ binding site [chemical binding]; other site 479437004886 Switch I region; other site 479437004887 G2 box; other site 479437004888 G3 box; other site 479437004889 Switch II region; other site 479437004890 G4 box; other site 479437004891 G5 box; other site 479437004892 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 479437004893 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 479437004894 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 479437004895 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 479437004896 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 479437004897 DNA polymerase III, delta subunit; Region: holA; TIGR01128 479437004898 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 479437004899 Competence protein; Region: Competence; cl00471 479437004900 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437004901 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 479437004902 Helix-hairpin-helix motif; Region: HHH; pfam00633 479437004903 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 479437004904 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 479437004905 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 479437004906 Ligand Binding Site [chemical binding]; other site 479437004907 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 479437004908 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 479437004909 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 479437004910 catalytic site [active] 479437004911 G-X2-G-X-G-K; other site 479437004912 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 479437004913 active site 479437004914 dimer interface [polypeptide binding]; other site 479437004915 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 479437004916 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 479437004917 heterodimer interface [polypeptide binding]; other site 479437004918 active site 479437004919 FMN binding site [chemical binding]; other site 479437004920 homodimer interface [polypeptide binding]; other site 479437004921 substrate binding site [chemical binding]; other site 479437004922 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 479437004923 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 479437004924 FAD binding pocket [chemical binding]; other site 479437004925 FAD binding motif [chemical binding]; other site 479437004926 phosphate binding motif [ion binding]; other site 479437004927 beta-alpha-beta structure motif; other site 479437004928 NAD binding pocket [chemical binding]; other site 479437004929 Iron coordination center [ion binding]; other site 479437004930 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437004931 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 479437004932 non-specific DNA binding site [nucleotide binding]; other site 479437004933 salt bridge; other site 479437004934 sequence-specific DNA binding site [nucleotide binding]; other site 479437004935 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 479437004936 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 479437004937 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 479437004938 ATP-grasp domain; Region: ATP-grasp_4; cl17255 479437004939 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 479437004940 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 479437004941 ATP-grasp domain; Region: ATP-grasp_4; cl17255 479437004942 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 479437004943 IMP binding site; other site 479437004944 dimer interface [polypeptide binding]; other site 479437004945 interdomain contacts; other site 479437004946 partial ornithine binding site; other site 479437004947 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 479437004948 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 479437004949 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 479437004950 catalytic site [active] 479437004951 subunit interface [polypeptide binding]; other site 479437004952 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 479437004953 putative active site [active] 479437004954 dihydroorotase; Validated; Region: pyrC; PRK09357 479437004955 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 479437004956 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 479437004957 active site 479437004958 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 479437004959 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437004960 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437004961 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 479437004962 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437004963 active site 479437004964 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 479437004965 active site 479437004966 catalytic site [active] 479437004967 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 479437004968 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 479437004969 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437004970 4Fe-4S binding domain; Region: Fer4; cl02805 479437004971 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004972 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004973 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004974 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 479437004975 molybdopterin cofactor binding site; other site 479437004976 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437004977 selenium donor protein; Region: selD; TIGR00476 479437004978 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 479437004979 dimerization interface [polypeptide binding]; other site 479437004980 putative ATP binding site [chemical binding]; other site 479437004981 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 479437004982 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 479437004983 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 479437004984 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 479437004985 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437004986 catalytic residue [active] 479437004987 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 479437004988 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 479437004989 CPxP motif; other site 479437004990 DsrE/DsrF-like family; Region: DrsE; pfam02635 479437004991 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 479437004992 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 479437004993 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 479437004994 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 479437004995 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 479437004996 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 479437004997 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 479437004998 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 479437004999 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 479437005000 G1 box; other site 479437005001 putative GEF interaction site [polypeptide binding]; other site 479437005002 GTP/Mg2+ binding site [chemical binding]; other site 479437005003 Switch I region; other site 479437005004 G2 box; other site 479437005005 G3 box; other site 479437005006 Switch II region; other site 479437005007 G4 box; other site 479437005008 G5 box; other site 479437005009 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 479437005010 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 479437005011 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 479437005012 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 479437005013 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 479437005014 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 479437005015 FeS/SAM binding site; other site 479437005016 hypothetical protein; Provisional; Region: PRK03881 479437005017 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 479437005018 AMMECR1; Region: AMMECR1; pfam01871 479437005019 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 479437005020 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 479437005021 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437005022 active site 479437005023 phosphorylation site [posttranslational modification] 479437005024 intermolecular recognition site; other site 479437005025 dimerization interface [polypeptide binding]; other site 479437005026 LytTr DNA-binding domain; Region: LytTR; pfam04397 479437005027 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 479437005028 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 479437005029 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 479437005030 active site 479437005031 catalytic tetrad [active] 479437005032 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437005033 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 479437005034 acyl-activating enzyme (AAE) consensus motif; other site 479437005035 AMP binding site [chemical binding]; other site 479437005036 active site 479437005037 CoA binding site [chemical binding]; other site 479437005038 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437005039 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 479437005040 non-specific DNA binding site [nucleotide binding]; other site 479437005041 salt bridge; other site 479437005042 sequence-specific DNA binding site [nucleotide binding]; other site 479437005043 Cupin domain; Region: Cupin_2; pfam07883 479437005044 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 479437005045 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 479437005046 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 479437005047 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 479437005048 TPP-binding site [chemical binding]; other site 479437005049 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 479437005050 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 479437005051 dimer interface [polypeptide binding]; other site 479437005052 PYR/PP interface [polypeptide binding]; other site 479437005053 TPP binding site [chemical binding]; other site 479437005054 substrate binding site [chemical binding]; other site 479437005055 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437005056 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437005057 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 479437005058 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437005059 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 479437005060 acyl-activating enzyme (AAE) consensus motif; other site 479437005061 AMP binding site [chemical binding]; other site 479437005062 active site 479437005063 CoA binding site [chemical binding]; other site 479437005064 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437005065 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 479437005066 non-specific DNA binding site [nucleotide binding]; other site 479437005067 salt bridge; other site 479437005068 sequence-specific DNA binding site [nucleotide binding]; other site 479437005069 Cupin domain; Region: Cupin_2; pfam07883 479437005070 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 479437005071 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 479437005072 FeS/SAM binding site; other site 479437005073 NusB family; Region: NusB; pfam01029 479437005074 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 479437005075 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 479437005076 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 479437005077 putative active site [active] 479437005078 substrate binding site [chemical binding]; other site 479437005079 putative cosubstrate binding site; other site 479437005080 catalytic site [active] 479437005081 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 479437005082 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 479437005083 active site 479437005084 catalytic residues [active] 479437005085 metal binding site [ion binding]; metal-binding site 479437005086 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437005087 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 479437005088 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 479437005089 DNA primase, catalytic core; Region: dnaG; TIGR01391 479437005090 CHC2 zinc finger; Region: zf-CHC2; pfam01807 479437005091 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 479437005092 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 479437005093 active site 479437005094 metal binding site [ion binding]; metal-binding site 479437005095 interdomain interaction site; other site 479437005096 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 479437005097 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437005098 Zn2+ binding site [ion binding]; other site 479437005099 Mg2+ binding site [ion binding]; other site 479437005100 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 479437005101 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 479437005102 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 479437005103 active site 479437005104 metal binding site [ion binding]; metal-binding site 479437005105 homotetramer interface [polypeptide binding]; other site 479437005106 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437005107 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437005108 Walker A/P-loop; other site 479437005109 ATP binding site [chemical binding]; other site 479437005110 Q-loop/lid; other site 479437005111 ABC transporter signature motif; other site 479437005112 Walker B; other site 479437005113 D-loop; other site 479437005114 H-loop/switch region; other site 479437005115 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437005116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437005117 Walker A/P-loop; other site 479437005118 ATP binding site [chemical binding]; other site 479437005119 Q-loop/lid; other site 479437005120 ABC transporter signature motif; other site 479437005121 Walker B; other site 479437005122 D-loop; other site 479437005123 H-loop/switch region; other site 479437005124 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 479437005125 Protein of unknown function (DUF454); Region: DUF454; cl01063 479437005126 Type III pantothenate kinase; Region: Pan_kinase; cl17198 479437005127 OPT oligopeptide transporter protein; Region: OPT; cl14607 479437005128 OPT oligopeptide transporter protein; Region: OPT; cl14607 479437005129 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 479437005130 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 479437005131 active site 479437005132 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 479437005133 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437005134 UDP-galactopyranose mutase; Region: GLF; pfam03275 479437005135 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 479437005136 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 479437005137 propionate/acetate kinase; Provisional; Region: PRK12379 479437005138 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 479437005139 nucleotide binding site/active site [active] 479437005140 HIT family signature motif; other site 479437005141 catalytic residue [active] 479437005142 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 479437005143 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 479437005144 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 479437005145 generic binding surface II; other site 479437005146 generic binding surface I; other site 479437005147 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 479437005148 ribonuclease D; Region: rnd; TIGR01388 479437005149 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 479437005150 catalytic site [active] 479437005151 putative active site [active] 479437005152 putative substrate binding site [chemical binding]; other site 479437005153 HRDC domain; Region: HRDC; pfam00570 479437005154 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 479437005155 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 479437005156 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 479437005157 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437005158 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437005159 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 479437005160 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 479437005161 [4Fe-4S] binding site [ion binding]; other site 479437005162 molybdopterin cofactor binding site; other site 479437005163 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 479437005164 molybdopterin cofactor binding site; other site 479437005165 NapD protein; Region: NapD; pfam03927 479437005166 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437005167 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437005168 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437005169 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437005170 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437005171 active site 479437005172 phosphorylation site [posttranslational modification] 479437005173 intermolecular recognition site; other site 479437005174 dimerization interface [polypeptide binding]; other site 479437005175 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 479437005176 DNA binding residues [nucleotide binding] 479437005177 dimerization interface [polypeptide binding]; other site 479437005178 GAF domain; Region: GAF; pfam01590 479437005179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 479437005180 Histidine kinase; Region: HisKA_3; pfam07730 479437005181 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 479437005182 ATP binding site [chemical binding]; other site 479437005183 Mg2+ binding site [ion binding]; other site 479437005184 G-X-G motif; other site 479437005185 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 479437005186 thiamine phosphate binding site [chemical binding]; other site 479437005187 active site 479437005188 pyrophosphate binding site [ion binding]; other site 479437005189 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 479437005190 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 479437005191 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 479437005192 phosphate binding site [ion binding]; other site 479437005193 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 479437005194 ATP binding site [chemical binding]; other site 479437005195 substrate interface [chemical binding]; other site 479437005196 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 479437005197 thiS-thiF/thiG interaction site; other site 479437005198 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 479437005199 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 479437005200 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 479437005201 motif II; other site 479437005202 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 479437005203 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 479437005204 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 479437005205 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 479437005206 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437005207 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 479437005208 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 479437005209 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]; Region: VirB11; COG0630 479437005210 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 479437005211 ATP binding site [chemical binding]; other site 479437005212 Walker A motif; other site 479437005213 hexamer interface [polypeptide binding]; other site 479437005214 Walker B motif; other site 479437005215 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 479437005216 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 479437005217 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 479437005218 active site 479437005219 catalytic residues [active] 479437005220 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 479437005221 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 479437005222 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 479437005223 phosphoglyceromutase; Provisional; Region: PRK05434 479437005224 triosephosphate isomerase; Provisional; Region: PRK14567 479437005225 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 479437005226 substrate binding site [chemical binding]; other site 479437005227 dimer interface [polypeptide binding]; other site 479437005228 catalytic triad [active] 479437005229 Phosphoglycerate kinase; Region: PGK; pfam00162 479437005230 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 479437005231 substrate binding site [chemical binding]; other site 479437005232 hinge regions; other site 479437005233 ADP binding site [chemical binding]; other site 479437005234 catalytic site [active] 479437005235 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 479437005236 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 479437005237 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 479437005238 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 479437005239 CoenzymeA binding site [chemical binding]; other site 479437005240 subunit interaction site [polypeptide binding]; other site 479437005241 PHB binding site; other site 479437005242 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 479437005243 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 479437005244 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 479437005245 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 479437005246 phosphate binding site [ion binding]; other site 479437005247 putative substrate binding pocket [chemical binding]; other site 479437005248 dimer interface [polypeptide binding]; other site 479437005249 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 479437005250 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 479437005251 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 479437005252 GIY-YIG motif/motif A; other site 479437005253 active site 479437005254 catalytic site [active] 479437005255 putative DNA binding site [nucleotide binding]; other site 479437005256 metal binding site [ion binding]; metal-binding site 479437005257 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 479437005258 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 479437005259 Family description; Region: UvrD_C_2; pfam13538 479437005260 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 479437005261 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 479437005262 Beta-lactamase; Region: Beta-lactamase; pfam00144 479437005263 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 479437005264 DltD central region; Region: DltD_M; pfam04918 479437005265 DltD C-terminal region; Region: DltD_C; pfam04914 479437005266 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated; Region: PRK05087 479437005267 D-alanyl-lipoteichoic acid biosynthesis protein DltB; Region: LTA_dltB; TIGR04091 479437005268 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 479437005269 D-alanine:D-alanyl carrier protein ligase (DltA); Region: DltA; cd05945 479437005270 acyl-activating enzyme (AAE) consensus motif; other site 479437005271 AMP binding site [chemical binding]; other site 479437005272 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 479437005273 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 479437005274 Fic/DOC family; Region: Fic; pfam02661 479437005275 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 479437005276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 479437005277 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 479437005278 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437005279 MULE transposase domain; Region: MULE; pfam10551 479437005280 glutamate dehydrogenase; Provisional; Region: PRK09414 479437005281 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 479437005282 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 479437005283 NAD(P) binding site [chemical binding]; other site 479437005284 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437005285 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437005286 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437005287 metal binding site [ion binding]; metal-binding site 479437005288 active site 479437005289 I-site; other site 479437005290 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 479437005291 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 479437005292 Sulfatase; Region: Sulfatase; cl17466 479437005293 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 479437005294 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 479437005295 active site 479437005296 Riboflavin kinase; Region: Flavokinase; smart00904 479437005297 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 479437005298 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 479437005299 RNA binding site [nucleotide binding]; other site 479437005300 active site 479437005301 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 479437005302 DHH family; Region: DHH; pfam01368 479437005303 Ribosome-binding factor A; Region: RBFA; pfam02033 479437005304 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 479437005305 translation initiation factor IF-2; Region: IF-2; TIGR00487 479437005306 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 479437005307 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 479437005308 G1 box; other site 479437005309 putative GEF interaction site [polypeptide binding]; other site 479437005310 GTP/Mg2+ binding site [chemical binding]; other site 479437005311 Switch I region; other site 479437005312 G2 box; other site 479437005313 G3 box; other site 479437005314 Switch II region; other site 479437005315 G4 box; other site 479437005316 G5 box; other site 479437005317 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 479437005318 Translation-initiation factor 2; Region: IF-2; pfam11987 479437005319 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 479437005320 Protein of unknown function (DUF448); Region: DUF448; pfam04296 479437005321 putative RNA binding cleft [nucleotide binding]; other site 479437005322 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 479437005323 NusA N-terminal domain; Region: NusA_N; pfam08529 479437005324 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 479437005325 RNA binding site [nucleotide binding]; other site 479437005326 homodimer interface [polypeptide binding]; other site 479437005327 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 479437005328 G-X-X-G motif; other site 479437005329 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 479437005330 G-X-X-G motif; other site 479437005331 ribosome maturation protein RimP; Reviewed; Region: PRK00092 479437005332 Sm and related proteins; Region: Sm_like; cl00259 479437005333 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 479437005334 putative oligomer interface [polypeptide binding]; other site 479437005335 putative RNA binding site [nucleotide binding]; other site 479437005336 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 479437005337 ATP binding site [chemical binding]; other site 479437005338 G-X-G motif; other site 479437005339 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 479437005340 Interdomain contacts; other site 479437005341 Cytokine receptor motif; other site 479437005342 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 479437005343 Interdomain contacts; other site 479437005344 Cytokine receptor motif; other site 479437005345 Peptidase M60-like family; Region: M60-like; pfam13402 479437005346 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 479437005347 sugar binding site [chemical binding]; other site 479437005348 AMP-binding domain protein; Validated; Region: PRK08315 479437005349 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437005350 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 479437005351 acyl-activating enzyme (AAE) consensus motif; other site 479437005352 acyl-activating enzyme (AAE) consensus motif; other site 479437005353 putative AMP binding site [chemical binding]; other site 479437005354 putative active site [active] 479437005355 putative CoA binding site [chemical binding]; other site 479437005356 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 479437005357 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 479437005358 non-specific DNA binding site [nucleotide binding]; other site 479437005359 salt bridge; other site 479437005360 sequence-specific DNA binding site [nucleotide binding]; other site 479437005361 Cupin domain; Region: Cupin_2; pfam07883 479437005362 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 479437005363 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 479437005364 oxidoreductase; Provisional; Region: PRK10015 479437005365 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 479437005366 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 479437005367 Ligand Binding Site [chemical binding]; other site 479437005368 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 479437005369 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 479437005370 Ligand Binding Site [chemical binding]; other site 479437005371 Electron transfer flavoprotein domain; Region: ETF; pfam01012 479437005372 enoyl-CoA hydratase; Provisional; Region: PRK06494 479437005373 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 479437005374 substrate binding site [chemical binding]; other site 479437005375 oxyanion hole (OAH) forming residues; other site 479437005376 trimer interface [polypeptide binding]; other site 479437005377 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 479437005378 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 479437005379 putative substrate translocation pore; other site 479437005380 enoyl-CoA hydratase; Region: PLN02864 479437005381 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 479437005382 active site 2 [active] 479437005383 active site 1 [active] 479437005384 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 479437005385 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437005386 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 479437005387 acyl-activating enzyme (AAE) consensus motif; other site 479437005388 putative AMP binding site [chemical binding]; other site 479437005389 putative active site [active] 479437005390 putative CoA binding site [chemical binding]; other site 479437005391 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 479437005392 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437005393 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 479437005394 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437005395 active site 479437005396 acetyl esterase; Provisional; Region: PRK10162 479437005397 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 479437005398 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437005399 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 479437005400 putative substrate translocation pore; other site 479437005401 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437005402 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 479437005403 DNA binding residues [nucleotide binding] 479437005404 dimerization interface [polypeptide binding]; other site 479437005405 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 479437005406 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 479437005407 NAD(P) binding site [chemical binding]; other site 479437005408 catalytic residues [active] 479437005409 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 479437005410 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437005411 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437005412 active site 479437005413 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 479437005414 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437005415 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437005416 active site 479437005417 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 479437005418 Ligand Binding Site [chemical binding]; other site 479437005419 Electron transfer flavoprotein domain; Region: ETF; pfam01012 479437005420 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 479437005421 Ligand Binding Site [chemical binding]; other site 479437005422 Electron transfer flavoprotein domain; Region: ETF; smart00893 479437005423 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 479437005424 oxidoreductase; Provisional; Region: PRK10015 479437005425 ferredoxin-like protein FixX; Provisional; Region: PRK15449 479437005426 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437005427 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437005428 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 479437005429 dimerization interface [polypeptide binding]; other site 479437005430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437005431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437005432 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 479437005433 dimerization interface [polypeptide binding]; other site 479437005434 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 479437005435 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 479437005436 putative substrate translocation pore; other site 479437005437 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 479437005438 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437005439 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437005440 active site 479437005441 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 479437005442 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437005443 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 479437005444 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437005445 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 479437005446 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 479437005447 substrate binding site [chemical binding]; other site 479437005448 oxyanion hole (OAH) forming residues; other site 479437005449 trimer interface [polypeptide binding]; other site 479437005450 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 479437005451 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 479437005452 acyl-activating enzyme (AAE) consensus motif; other site 479437005453 putative AMP binding site [chemical binding]; other site 479437005454 putative active site [active] 479437005455 putative CoA binding site [chemical binding]; other site 479437005456 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 479437005457 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 479437005458 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 479437005459 4Fe-4S binding domain; Region: Fer4; cl02805 479437005460 Cysteine-rich domain; Region: CCG; pfam02754 479437005461 Cysteine-rich domain; Region: CCG; pfam02754 479437005462 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 479437005463 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 479437005464 Ligand Binding Site [chemical binding]; other site 479437005465 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 479437005466 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 479437005467 Ligand binding site [chemical binding]; other site 479437005468 Electron transfer flavoprotein domain; Region: ETF; pfam01012 479437005469 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 479437005470 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 479437005471 active site 479437005472 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 479437005473 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437005474 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437005475 active site 479437005476 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 479437005477 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437005478 active site 479437005479 FMN binding site [chemical binding]; other site 479437005480 substrate binding site [chemical binding]; other site 479437005481 putative catalytic residue [active] 479437005482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 479437005483 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437005484 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437005485 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 479437005486 CoenzymeA binding site [chemical binding]; other site 479437005487 subunit interaction site [polypeptide binding]; other site 479437005488 PHB binding site; other site 479437005489 2-isopropylmalate synthase; Validated; Region: PRK00915 479437005490 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 479437005491 active site 479437005492 catalytic residues [active] 479437005493 metal binding site [ion binding]; metal-binding site 479437005494 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 479437005495 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 479437005496 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 479437005497 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437005498 4Fe-4S binding domain; Region: Fer4; pfam00037 479437005499 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437005500 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437005501 molybdopterin cofactor binding site; other site 479437005502 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437005503 molybdopterin cofactor binding site; other site 479437005504 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437005505 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 479437005506 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437005507 DNA-binding site [nucleotide binding]; DNA binding site 479437005508 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 479437005509 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 479437005510 ligand binding site [chemical binding]; other site 479437005511 NAD binding site [chemical binding]; other site 479437005512 dimerization interface [polypeptide binding]; other site 479437005513 catalytic site [active] 479437005514 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 479437005515 putative L-serine binding site [chemical binding]; other site 479437005516 ketol-acid reductoisomerase; Provisional; Region: PRK05479 479437005517 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 479437005518 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 479437005519 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 479437005520 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 479437005521 putative valine binding site [chemical binding]; other site 479437005522 dimer interface [polypeptide binding]; other site 479437005523 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 479437005524 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 479437005525 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 479437005526 PYR/PP interface [polypeptide binding]; other site 479437005527 dimer interface [polypeptide binding]; other site 479437005528 TPP binding site [chemical binding]; other site 479437005529 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 479437005530 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 479437005531 TPP-binding site [chemical binding]; other site 479437005532 dimer interface [polypeptide binding]; other site 479437005533 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 479437005534 6-phosphogluconate dehydratase; Region: edd; TIGR01196 479437005535 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437005536 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 479437005537 Transcription antiterminator [Transcription]; Region: NusG; COG0250 479437005538 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 479437005539 heterodimer interface [polypeptide binding]; other site 479437005540 homodimer interface [polypeptide binding]; other site 479437005541 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 479437005542 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 479437005543 putative catalytic site [active] 479437005544 putative metal binding site [ion binding]; other site 479437005545 putative phosphate binding site [ion binding]; other site 479437005546 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 479437005547 putative active site [active] 479437005548 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 479437005549 non-specific DNA binding site [nucleotide binding]; other site 479437005550 salt bridge; other site 479437005551 sequence-specific DNA binding site [nucleotide binding]; other site 479437005552 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 479437005553 Predicted membrane protein, putative toxin regulator [General function prediction only]; Region: PfoR; COG3641 479437005554 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 479437005555 purine nucleoside phosphorylase; Provisional; Region: PRK08202 479437005556 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 479437005557 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 479437005558 S-adenosylmethionine binding site [chemical binding]; other site 479437005559 peptide chain release factor 1; Validated; Region: prfA; PRK00591 479437005560 PCRF domain; Region: PCRF; pfam03462 479437005561 RF-1 domain; Region: RF-1; pfam00472 479437005562 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 479437005563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 479437005564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 479437005565 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 479437005566 methionine sulfoxide reductase B; Provisional; Region: PRK00222 479437005567 SelR domain; Region: SelR; pfam01641 479437005568 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 479437005569 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437005570 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 479437005571 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437005572 DNA binding residues [nucleotide binding] 479437005573 dimer interface [polypeptide binding]; other site 479437005574 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 479437005575 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 479437005576 catalytic residues [active] 479437005577 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 479437005578 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 479437005579 active site 479437005580 nucleophile elbow; other site 479437005581 Ion transport protein; Region: Ion_trans; pfam00520 479437005582 Ion channel; Region: Ion_trans_2; pfam07885 479437005583 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 479437005584 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 479437005585 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 479437005586 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 479437005587 Na binding site [ion binding]; other site 479437005588 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437005589 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 479437005590 DNA binding residues [nucleotide binding] 479437005591 dimerization interface [polypeptide binding]; other site 479437005592 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 479437005593 Predicted transcriptional regulators [Transcription]; Region: COG1695 479437005594 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 479437005595 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 479437005596 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 479437005597 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 479437005598 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 479437005599 active site 479437005600 dimer interface [polypeptide binding]; other site 479437005601 motif 1; other site 479437005602 motif 2; other site 479437005603 motif 3; other site 479437005604 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 479437005605 anticodon binding site; other site 479437005606 Double zinc ribbon; Region: DZR; pfam12773 479437005607 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 479437005608 non-specific DNA binding site [nucleotide binding]; other site 479437005609 salt bridge; other site 479437005610 sequence-specific DNA binding site [nucleotide binding]; other site 479437005611 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 479437005612 NeuB family; Region: NeuB; pfam03102 479437005613 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 479437005614 NeuB binding interface [polypeptide binding]; other site 479437005615 putative substrate binding site [chemical binding]; other site 479437005616 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 479437005617 ligand binding site; other site 479437005618 tetramer interface; other site 479437005619 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 479437005620 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 479437005621 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 479437005622 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 479437005623 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 479437005624 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 479437005625 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 479437005626 active site 479437005627 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437005628 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 479437005629 transcription termination/antitermination factor NusG; Region: nusG; TIGR00922 479437005630 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 479437005631 heterodimer interface [polypeptide binding]; other site 479437005632 homodimer interface [polypeptide binding]; other site 479437005633 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437005634 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 479437005635 non-specific DNA binding site [nucleotide binding]; other site 479437005636 salt bridge; other site 479437005637 sequence-specific DNA binding site [nucleotide binding]; other site 479437005638 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 479437005639 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437005640 non-specific DNA binding site [nucleotide binding]; other site 479437005641 salt bridge; other site 479437005642 sequence-specific DNA binding site [nucleotide binding]; other site 479437005643 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 479437005644 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437005645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437005646 metal binding site [ion binding]; metal-binding site 479437005647 active site 479437005648 I-site; other site 479437005649 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 479437005650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 479437005651 active site 479437005652 HIGH motif; other site 479437005653 nucleotide binding site [chemical binding]; other site 479437005654 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 479437005655 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 479437005656 active site 479437005657 KMSKS motif; other site 479437005658 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 479437005659 tRNA binding surface [nucleotide binding]; other site 479437005660 anticodon binding site; other site 479437005661 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 479437005662 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 479437005663 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 479437005664 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 479437005665 Walker A motif; other site 479437005666 ATP binding site [chemical binding]; other site 479437005667 Walker B motif; other site 479437005668 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 479437005669 Clp protease; Region: CLP_protease; pfam00574 479437005670 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 479437005671 oligomer interface [polypeptide binding]; other site 479437005672 active site residues [active] 479437005673 trigger factor; Provisional; Region: tig; PRK01490 479437005674 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 479437005675 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 479437005676 serine/threonine transporter SstT; Provisional; Region: PRK13628 479437005677 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 479437005678 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 479437005679 Uncharacterized conserved protein [Function unknown]; Region: COG1432 479437005680 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 479437005681 putative metal binding site [ion binding]; other site 479437005682 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 479437005683 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 479437005684 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437005685 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437005686 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 479437005687 DNA binding residues [nucleotide binding] 479437005688 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437005689 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437005690 Walker A/P-loop; other site 479437005691 ATP binding site [chemical binding]; other site 479437005692 Q-loop/lid; other site 479437005693 ABC transporter signature motif; other site 479437005694 Walker B; other site 479437005695 D-loop; other site 479437005696 H-loop/switch region; other site 479437005697 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437005698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437005699 active site 479437005700 phosphorylation site [posttranslational modification] 479437005701 intermolecular recognition site; other site 479437005702 dimerization interface [polypeptide binding]; other site 479437005703 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 479437005704 DNA binding site [nucleotide binding] 479437005705 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437005706 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 479437005707 dimer interface [polypeptide binding]; other site 479437005708 phosphorylation site [posttranslational modification] 479437005709 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 479437005710 ATP binding site [chemical binding]; other site 479437005711 Mg2+ binding site [ion binding]; other site 479437005712 G-X-G motif; other site 479437005713 EDD domain protein, DegV family; Region: DegV; TIGR00762 479437005714 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 479437005715 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 479437005716 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 479437005717 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 479437005718 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 479437005719 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 479437005720 active site 479437005721 HIGH motif; other site 479437005722 KMSK motif region; other site 479437005723 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 479437005724 tRNA binding surface [nucleotide binding]; other site 479437005725 anticodon binding site; other site 479437005726 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 479437005727 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 479437005728 carbamate kinase; Reviewed; Region: PRK12686 479437005729 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 479437005730 putative substrate binding site [chemical binding]; other site 479437005731 nucleotide binding site [chemical binding]; other site 479437005732 nucleotide binding site [chemical binding]; other site 479437005733 homodimer interface [polypeptide binding]; other site 479437005734 ornithine carbamoyltransferase; Validated; Region: PRK02102 479437005735 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437005736 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437005737 Amidinotransferase; Region: Amidinotransf; cl12043 479437005738 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 479437005739 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 479437005740 C-terminal domain interface [polypeptide binding]; other site 479437005741 GSH binding site (G-site) [chemical binding]; other site 479437005742 dimer interface [polypeptide binding]; other site 479437005743 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 479437005744 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 479437005745 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 479437005746 active site 479437005747 DNA binding site [nucleotide binding] 479437005748 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 479437005749 DNA binding site [nucleotide binding] 479437005750 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 479437005751 nucleotide binding site [chemical binding]; other site 479437005752 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 479437005753 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 479437005754 active site 479437005755 dimerization interface [polypeptide binding]; other site 479437005756 glutamate racemase; Provisional; Region: PRK00865 479437005757 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 479437005758 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437005759 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 479437005760 putative deacylase active site [active] 479437005761 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437005762 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 479437005763 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437005764 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 479437005765 non-specific DNA binding site [nucleotide binding]; other site 479437005766 salt bridge; other site 479437005767 sequence-specific DNA binding site [nucleotide binding]; other site 479437005768 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 479437005769 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 479437005770 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 479437005771 SmpB-tmRNA interface; other site 479437005772 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 479437005773 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 479437005774 oligomer interface [polypeptide binding]; other site 479437005775 active site 479437005776 metal binding site [ion binding]; metal-binding site 479437005777 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 479437005778 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 479437005779 active site 479437005780 homotetramer interface [polypeptide binding]; other site 479437005781 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 479437005782 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 479437005783 GIY-YIG motif/motif A; other site 479437005784 putative active site [active] 479437005785 putative metal binding site [ion binding]; other site 479437005786 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 479437005787 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 479437005788 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 479437005789 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 479437005790 active site 479437005791 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 479437005792 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 479437005793 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 479437005794 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 479437005795 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 479437005796 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 479437005797 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 479437005798 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 479437005799 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 479437005800 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 479437005801 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 479437005802 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 479437005803 nudix motif; other site 479437005804 Uncharacterized conserved protein [Function unknown]; Region: COG1683 479437005805 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 479437005806 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 479437005807 SWIM zinc finger; Region: SWIM; pfam04434 479437005808 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 479437005809 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 479437005810 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 479437005811 ATP binding site [chemical binding]; other site 479437005812 putative Mg++ binding site [ion binding]; other site 479437005813 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 479437005814 nucleotide binding region [chemical binding]; other site 479437005815 ATP-binding site [chemical binding]; other site 479437005816 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 479437005817 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 479437005818 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 479437005819 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 479437005820 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 479437005821 dimer interface [polypeptide binding]; other site 479437005822 active site 479437005823 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 479437005824 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 479437005825 NAD(P) binding site [chemical binding]; other site 479437005826 homotetramer interface [polypeptide binding]; other site 479437005827 homodimer interface [polypeptide binding]; other site 479437005828 active site 479437005829 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 479437005830 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 479437005831 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 479437005832 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 479437005833 FMN binding site [chemical binding]; other site 479437005834 substrate binding site [chemical binding]; other site 479437005835 putative catalytic residue [active] 479437005836 acyl carrier protein; Provisional; Region: acpP; PRK00982 479437005837 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 479437005838 MarR family; Region: MarR_2; cl17246 479437005839 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 479437005840 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 479437005841 RNB domain; Region: RNB; pfam00773 479437005842 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 479437005843 RNA binding site [nucleotide binding]; other site 479437005844 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 479437005845 protein binding site [polypeptide binding]; other site 479437005846 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 479437005847 Catalytic dyad [active] 479437005848 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 479437005849 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 479437005850 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 479437005851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437005852 Walker A/P-loop; other site 479437005853 ATP binding site [chemical binding]; other site 479437005854 Q-loop/lid; other site 479437005855 ABC transporter signature motif; other site 479437005856 Walker B; other site 479437005857 D-loop; other site 479437005858 H-loop/switch region; other site 479437005859 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 479437005860 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 479437005861 PYR/PP interface [polypeptide binding]; other site 479437005862 dimer interface [polypeptide binding]; other site 479437005863 TPP binding site [chemical binding]; other site 479437005864 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 479437005865 transketolase; Reviewed; Region: PRK05899 479437005866 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 479437005867 TPP-binding site [chemical binding]; other site 479437005868 dimer interface [polypeptide binding]; other site 479437005869 peptide chain release factor 2; Validated; Region: prfB; PRK00578 479437005870 PCRF domain; Region: PCRF; pfam03462 479437005871 RF-1 domain; Region: RF-1; pfam00472 479437005872 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 479437005873 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 479437005874 SEC-C motif; Region: SEC-C; pfam02810 479437005875 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 479437005876 Protein of unknown function (DUF497); Region: DUF497; pfam04365 479437005877 Bacterial transcriptional activator domain; Region: BTAD; smart01043 479437005878 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 479437005879 putative active site pocket [active] 479437005880 cleavage site 479437005881 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 479437005882 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 479437005883 Cl- selectivity filter; other site 479437005884 Cl- binding residues [ion binding]; other site 479437005885 pore gating glutamate residue; other site 479437005886 dimer interface [polypeptide binding]; other site 479437005887 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 479437005888 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437005889 Zn2+ binding site [ion binding]; other site 479437005890 Mg2+ binding site [ion binding]; other site 479437005891 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 479437005892 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 479437005893 active site 479437005894 (T/H)XGH motif; other site 479437005895 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 479437005896 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 479437005897 putative catalytic cysteine [active] 479437005898 gamma-glutamyl kinase; Provisional; Region: PRK05429 479437005899 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 479437005900 nucleotide binding site [chemical binding]; other site 479437005901 homotetrameric interface [polypeptide binding]; other site 479437005902 putative phosphate binding site [ion binding]; other site 479437005903 putative allosteric binding site; other site 479437005904 PUA domain; Region: PUA; cl00607 479437005905 GTPase CgtA; Reviewed; Region: obgE; PRK12297 479437005906 GTP1/OBG; Region: GTP1_OBG; pfam01018 479437005907 Obg GTPase; Region: Obg; cd01898 479437005908 G1 box; other site 479437005909 GTP/Mg2+ binding site [chemical binding]; other site 479437005910 Switch I region; other site 479437005911 G2 box; other site 479437005912 G3 box; other site 479437005913 Switch II region; other site 479437005914 G4 box; other site 479437005915 G5 box; other site 479437005916 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 479437005917 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 479437005918 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 479437005919 DNA polymerase I; Provisional; Region: PRK05755 479437005920 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 479437005921 active site 479437005922 metal binding site 1 [ion binding]; metal-binding site 479437005923 putative 5' ssDNA interaction site; other site 479437005924 metal binding site 3; metal-binding site 479437005925 metal binding site 2 [ion binding]; metal-binding site 479437005926 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 479437005927 putative DNA binding site [nucleotide binding]; other site 479437005928 putative metal binding site [ion binding]; other site 479437005929 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 479437005930 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 479437005931 active site 479437005932 DNA binding site [nucleotide binding] 479437005933 catalytic site [active] 479437005934 two-component response regulator VirG; Provisional; Region: PRK13856 479437005935 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 479437005936 DNA binding site [nucleotide binding] 479437005937 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 479437005938 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 479437005939 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 479437005940 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 479437005941 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 479437005942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437005943 dimer interface [polypeptide binding]; other site 479437005944 conserved gate region; other site 479437005945 putative PBP binding loops; other site 479437005946 ABC-ATPase subunit interface; other site 479437005947 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 479437005948 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 479437005949 Walker A/P-loop; other site 479437005950 ATP binding site [chemical binding]; other site 479437005951 Q-loop/lid; other site 479437005952 ABC transporter signature motif; other site 479437005953 Walker B; other site 479437005954 D-loop; other site 479437005955 H-loop/switch region; other site 479437005956 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 479437005957 Ligand Binding Site [chemical binding]; other site 479437005958 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 479437005959 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 479437005960 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 479437005961 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 479437005962 inhibitor-cofactor binding pocket; inhibition site 479437005963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437005964 catalytic residue [active] 479437005965 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437005966 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 479437005967 putative binding surface; other site 479437005968 active site 479437005969 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 479437005970 ethanolamine utilization protein EutH; Provisional; Region: PRK15086 479437005971 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 479437005972 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 479437005973 active site 479437005974 metal-binding site 479437005975 Phosphotransferase enzyme family; Region: APH; pfam01636 479437005976 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 479437005977 active site 479437005978 ATP binding site [chemical binding]; other site 479437005979 substrate binding site [chemical binding]; other site 479437005980 dimer interface [polypeptide binding]; other site 479437005981 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 479437005982 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 479437005983 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 479437005984 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 479437005985 active site 479437005986 metal-binding site 479437005987 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 479437005988 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437005989 dimer interface [polypeptide binding]; other site 479437005990 conserved gate region; other site 479437005991 putative PBP binding loops; other site 479437005992 ABC-ATPase subunit interface; other site 479437005993 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437005994 dimer interface [polypeptide binding]; other site 479437005995 conserved gate region; other site 479437005996 putative PBP binding loops; other site 479437005997 ABC-ATPase subunit interface; other site 479437005998 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 479437005999 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006000 Walker A/P-loop; other site 479437006001 ATP binding site [chemical binding]; other site 479437006002 Q-loop/lid; other site 479437006003 ABC transporter signature motif; other site 479437006004 Walker B; other site 479437006005 D-loop; other site 479437006006 H-loop/switch region; other site 479437006007 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 479437006008 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 479437006009 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 479437006010 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 479437006011 LicD family; Region: LicD; cl01378 479437006012 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 479437006013 active site 479437006014 LicD family; Region: LicD; cl01378 479437006015 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 479437006016 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 479437006017 active site 479437006018 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 479437006019 active site 479437006020 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 479437006021 active site 479437006022 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 479437006023 active site 479437006024 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 479437006025 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 479437006026 Probable Catalytic site; other site 479437006027 metal-binding site 479437006028 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 479437006029 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 479437006030 Probable Catalytic site; other site 479437006031 metal-binding site 479437006032 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 479437006033 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 479437006034 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 479437006035 NAD binding site [chemical binding]; other site 479437006036 substrate binding site [chemical binding]; other site 479437006037 homodimer interface [polypeptide binding]; other site 479437006038 active site 479437006039 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 479437006040 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 479437006041 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 479437006042 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 479437006043 Walker A/P-loop; other site 479437006044 ATP binding site [chemical binding]; other site 479437006045 Q-loop/lid; other site 479437006046 ABC transporter signature motif; other site 479437006047 Walker B; other site 479437006048 D-loop; other site 479437006049 H-loop/switch region; other site 479437006050 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 479437006051 Domain of unknown function (DUF4422); Region: DUF4422; pfam14393 479437006052 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 479437006053 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 479437006054 NADP binding site [chemical binding]; other site 479437006055 active site 479437006056 putative substrate binding site [chemical binding]; other site 479437006057 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 479437006058 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 479437006059 substrate binding site; other site 479437006060 tetramer interface; other site 479437006061 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437006062 NlpC/P60 family; Region: NLPC_P60; cl17555 479437006063 Predicted membrane protein (DUF2142); Region: DUF2142; pfam09913 479437006064 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 479437006065 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 479437006066 Probable Catalytic site; other site 479437006067 metal-binding site 479437006068 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 479437006069 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 479437006070 Probable Catalytic site; other site 479437006071 metal-binding site 479437006072 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 479437006073 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 479437006074 active site 479437006075 metal binding site [ion binding]; metal-binding site 479437006076 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 479437006077 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 479437006078 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 479437006079 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 479437006080 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 479437006081 CotH protein; Region: CotH; pfam08757 479437006082 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 479437006083 Ligand binding site; other site 479437006084 Putative Catalytic site; other site 479437006085 DXD motif; other site 479437006086 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 479437006087 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 479437006088 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 479437006089 active site 479437006090 NTP binding site [chemical binding]; other site 479437006091 metal binding triad [ion binding]; metal-binding site 479437006092 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 479437006093 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437006094 Zn2+ binding site [ion binding]; other site 479437006095 Mg2+ binding site [ion binding]; other site 479437006096 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 479437006097 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 479437006098 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 479437006099 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 479437006100 CDGSH-type zinc finger. Function unknown; Region: ZnF_CDGSH; smart00704 479437006101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437006102 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 479437006103 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 479437006104 active site 479437006105 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 479437006106 dimer interface [polypeptide binding]; other site 479437006107 substrate binding site [chemical binding]; other site 479437006108 ATP binding site [chemical binding]; other site 479437006109 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 479437006110 thiamine phosphate binding site [chemical binding]; other site 479437006111 active site 479437006112 pyrophosphate binding site [ion binding]; other site 479437006113 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 479437006114 substrate binding site [chemical binding]; other site 479437006115 multimerization interface [polypeptide binding]; other site 479437006116 ATP binding site [chemical binding]; other site 479437006117 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 479437006118 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 479437006119 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 479437006120 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 479437006121 inhibitor-cofactor binding pocket; inhibition site 479437006122 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437006123 catalytic residue [active] 479437006124 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 479437006125 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 479437006126 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 479437006127 dimer interface [polypeptide binding]; other site 479437006128 active site 479437006129 Schiff base residues; other site 479437006130 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 479437006131 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 479437006132 FeS/SAM binding site; other site 479437006133 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 479437006134 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 479437006135 active site 479437006136 SAM binding site [chemical binding]; other site 479437006137 homodimer interface [polypeptide binding]; other site 479437006138 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 479437006139 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 479437006140 active site 479437006141 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 479437006142 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 479437006143 domain interfaces; other site 479437006144 active site 479437006145 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 479437006146 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 479437006147 tRNA; other site 479437006148 putative tRNA binding site [nucleotide binding]; other site 479437006149 putative NADP binding site [chemical binding]; other site 479437006150 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 479437006151 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 479437006152 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 479437006153 Thiamine pyrophosphokinase; Region: TPK; cd07995 479437006154 active site 479437006155 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 479437006156 dimerization interface [polypeptide binding]; other site 479437006157 thiamine binding site [chemical binding]; other site 479437006158 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437006159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437006160 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 479437006161 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 479437006162 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 479437006163 Walker A/P-loop; other site 479437006164 ATP binding site [chemical binding]; other site 479437006165 Q-loop/lid; other site 479437006166 ABC transporter signature motif; other site 479437006167 Walker B; other site 479437006168 D-loop; other site 479437006169 H-loop/switch region; other site 479437006170 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 479437006171 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 479437006172 dimer interface [polypeptide binding]; other site 479437006173 ABC-ATPase subunit interface; other site 479437006174 putative PBP binding regions; other site 479437006175 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 479437006176 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 479437006177 intersubunit interface [polypeptide binding]; other site 479437006178 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 479437006179 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 479437006180 FeS/SAM binding site; other site 479437006181 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 479437006182 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 479437006183 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 479437006184 DNA binding residues [nucleotide binding] 479437006185 dimer interface [polypeptide binding]; other site 479437006186 DivIVA protein; Region: DivIVA; pfam05103 479437006187 DivIVA domain; Region: DivI1A_domain; TIGR03544 479437006188 YGGT family; Region: YGGT; pfam02325 479437006189 Protein of unknown function (DUF552); Region: DUF552; pfam04472 479437006190 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 479437006191 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 479437006192 catalytic residue [active] 479437006193 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 479437006194 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 479437006195 cell division protein FtsZ; Validated; Region: PRK09330 479437006196 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 479437006197 nucleotide binding site [chemical binding]; other site 479437006198 SulA interaction site; other site 479437006199 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 479437006200 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 479437006201 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437006202 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437006203 4Fe-4S binding domain; Region: Fer4; pfam00037 479437006204 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 479437006205 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 479437006206 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 479437006207 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 479437006208 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 479437006209 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437006210 catalytic residue [active] 479437006211 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 479437006212 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 479437006213 FAD binding domain; Region: FAD_binding_4; pfam01565 479437006214 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 479437006215 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 479437006216 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 479437006217 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437006218 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 479437006219 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 479437006220 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 479437006221 active site 479437006222 homodimer interface [polypeptide binding]; other site 479437006223 cell division protein FtsW; Region: ftsW; TIGR02614 479437006224 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 479437006225 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437006226 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 479437006227 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 479437006228 Mg++ binding site [ion binding]; other site 479437006229 putative catalytic motif [active] 479437006230 putative substrate binding site [chemical binding]; other site 479437006231 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 479437006232 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 479437006233 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437006234 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 479437006235 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 479437006236 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 479437006237 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437006238 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 479437006239 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 479437006240 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 479437006241 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 479437006242 MraW methylase family; Region: Methyltransf_5; pfam01795 479437006243 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 479437006244 cell division protein MraZ; Reviewed; Region: PRK00326 479437006245 MraZ protein; Region: MraZ; pfam02381 479437006246 MraZ protein; Region: MraZ; pfam02381 479437006247 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 479437006248 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 479437006249 active site 479437006250 Int/Topo IB signature motif; other site 479437006251 CTP synthetase; Validated; Region: pyrG; PRK05380 479437006252 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 479437006253 Catalytic site [active] 479437006254 active site 479437006255 UTP binding site [chemical binding]; other site 479437006256 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 479437006257 active site 479437006258 putative oxyanion hole; other site 479437006259 catalytic triad [active] 479437006260 FAD binding domain; Region: FAD_binding_2; pfam00890 479437006261 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437006262 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 479437006263 DNA binding residues [nucleotide binding] 479437006264 dimerization interface [polypeptide binding]; other site 479437006265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 479437006266 hypothetical protein; Provisional; Region: PRK13663 479437006267 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 479437006268 protein-splicing catalytic site; other site 479437006269 thioester formation/cholesterol transfer; other site 479437006270 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437006271 hypothetical protein; Provisional; Region: PHA03169 479437006272 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437006273 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 479437006274 DNA binding residues [nucleotide binding] 479437006275 dimerization interface [polypeptide binding]; other site 479437006276 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 479437006277 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 479437006278 integral membrane protein MviN; Region: mviN; TIGR01695 479437006279 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 479437006280 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437006281 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437006282 LysR substrate binding domain; Region: LysR_substrate; pfam03466 479437006283 dimerization interface [polypeptide binding]; other site 479437006284 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 479437006285 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 479437006286 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 479437006287 active site 479437006288 dimer interface [polypeptide binding]; other site 479437006289 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 479437006290 Ligand Binding Site [chemical binding]; other site 479437006291 Molecular Tunnel; other site 479437006292 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 479437006293 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 479437006294 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 479437006295 active site 479437006296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 479437006297 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437006298 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 479437006299 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 479437006300 mRNA/rRNA interface [nucleotide binding]; other site 479437006301 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 479437006302 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 479437006303 23S rRNA interface [nucleotide binding]; other site 479437006304 L7/L12 interface [polypeptide binding]; other site 479437006305 putative thiostrepton binding site; other site 479437006306 L25 interface [polypeptide binding]; other site 479437006307 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 479437006308 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 479437006309 putative homodimer interface [polypeptide binding]; other site 479437006310 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 479437006311 heterodimer interface [polypeptide binding]; other site 479437006312 homodimer interface [polypeptide binding]; other site 479437006313 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 479437006314 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 479437006315 elongation factor Tu; Reviewed; Region: PRK00049 479437006316 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 479437006317 G1 box; other site 479437006318 GEF interaction site [polypeptide binding]; other site 479437006319 GTP/Mg2+ binding site [chemical binding]; other site 479437006320 Switch I region; other site 479437006321 G2 box; other site 479437006322 G3 box; other site 479437006323 Switch II region; other site 479437006324 G4 box; other site 479437006325 G5 box; other site 479437006326 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 479437006327 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 479437006328 Antibiotic Binding Site [chemical binding]; other site 479437006329 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 479437006330 putative active site [active] 479437006331 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 479437006332 substrate binding site [chemical binding]; other site 479437006333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 479437006334 Rho Binding; Region: Rho_Binding; pfam08912 479437006335 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 479437006336 NlpC/P60 family; Region: NLPC_P60; cl17555 479437006337 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 479437006338 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 479437006339 Na binding site [ion binding]; other site 479437006340 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 479437006341 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 479437006342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437006343 homodimer interface [polypeptide binding]; other site 479437006344 catalytic residue [active] 479437006345 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 479437006346 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 479437006347 ATP binding site [chemical binding]; other site 479437006348 putative Mg++ binding site [ion binding]; other site 479437006349 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 479437006350 nucleotide binding region [chemical binding]; other site 479437006351 ATP-binding site [chemical binding]; other site 479437006352 DEAD/H associated; Region: DEAD_assoc; pfam08494 479437006353 PIN domain; Region: PIN_3; pfam13470 479437006354 RelB antitoxin; Region: RelB; cl01171 479437006355 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 479437006356 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 479437006357 dimer interface [polypeptide binding]; other site 479437006358 PYR/PP interface [polypeptide binding]; other site 479437006359 TPP binding site [chemical binding]; other site 479437006360 substrate binding site [chemical binding]; other site 479437006361 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 479437006362 Domain of unknown function; Region: EKR; pfam10371 479437006363 4Fe-4S binding domain; Region: Fer4_6; pfam12837 479437006364 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 479437006365 TPP-binding site [chemical binding]; other site 479437006366 dimer interface [polypeptide binding]; other site 479437006367 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 479437006368 additional DNA contacts [nucleotide binding]; other site 479437006369 mismatch recognition site; other site 479437006370 active site 479437006371 zinc binding site [ion binding]; other site 479437006372 DNA intercalation site [nucleotide binding]; other site 479437006373 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 479437006374 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 479437006375 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; cd00229 479437006376 active site 479437006377 catalytic triad [active] 479437006378 oxyanion hole [active] 479437006379 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 479437006380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437006381 dimer interface [polypeptide binding]; other site 479437006382 conserved gate region; other site 479437006383 putative PBP binding loops; other site 479437006384 ABC-ATPase subunit interface; other site 479437006385 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 479437006386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437006387 dimer interface [polypeptide binding]; other site 479437006388 conserved gate region; other site 479437006389 putative PBP binding loops; other site 479437006390 ABC-ATPase subunit interface; other site 479437006391 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 479437006392 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437006393 Walker A/P-loop; other site 479437006394 ATP binding site [chemical binding]; other site 479437006395 Q-loop/lid; other site 479437006396 ABC transporter signature motif; other site 479437006397 Walker B; other site 479437006398 D-loop; other site 479437006399 H-loop/switch region; other site 479437006400 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 479437006401 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 479437006402 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437006403 Walker A/P-loop; other site 479437006404 ATP binding site [chemical binding]; other site 479437006405 Q-loop/lid; other site 479437006406 ABC transporter signature motif; other site 479437006407 Walker B; other site 479437006408 D-loop; other site 479437006409 H-loop/switch region; other site 479437006410 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 479437006411 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 479437006412 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 479437006413 inhibitor site; inhibition site 479437006414 active site 479437006415 dimer interface [polypeptide binding]; other site 479437006416 catalytic residue [active] 479437006417 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 479437006418 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 479437006419 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 479437006420 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 479437006421 putative active site cavity [active] 479437006422 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 479437006423 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 479437006424 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 479437006425 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 479437006426 active site 479437006427 dimer interface [polypeptide binding]; other site 479437006428 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 479437006429 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 479437006430 active site 479437006431 trimer interface [polypeptide binding]; other site 479437006432 allosteric site; other site 479437006433 active site lid [active] 479437006434 hexamer (dimer of trimers) interface [polypeptide binding]; other site 479437006435 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 479437006436 adenylate kinase; Reviewed; Region: adk; PRK00279 479437006437 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 479437006438 AMP-binding site [chemical binding]; other site 479437006439 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 479437006440 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 479437006441 SecY translocase; Region: SecY; pfam00344 479437006442 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 479437006443 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 479437006444 23S rRNA binding site [nucleotide binding]; other site 479437006445 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 479437006446 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 479437006447 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 479437006448 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 479437006449 5S rRNA interface [nucleotide binding]; other site 479437006450 L27 interface [polypeptide binding]; other site 479437006451 23S rRNA interface [nucleotide binding]; other site 479437006452 L5 interface [polypeptide binding]; other site 479437006453 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 479437006454 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 479437006455 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 479437006456 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 479437006457 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 479437006458 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 479437006459 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 479437006460 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 479437006461 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 479437006462 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 479437006463 RNA binding site [nucleotide binding]; other site 479437006464 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 479437006465 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 479437006466 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 479437006467 23S rRNA interface [nucleotide binding]; other site 479437006468 putative translocon interaction site; other site 479437006469 signal recognition particle (SRP54) interaction site; other site 479437006470 L23 interface [polypeptide binding]; other site 479437006471 trigger factor interaction site; other site 479437006472 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 479437006473 23S rRNA interface [nucleotide binding]; other site 479437006474 5S rRNA interface [nucleotide binding]; other site 479437006475 putative antibiotic binding site [chemical binding]; other site 479437006476 L25 interface [polypeptide binding]; other site 479437006477 L27 interface [polypeptide binding]; other site 479437006478 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 479437006479 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 479437006480 G-X-X-G motif; other site 479437006481 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 479437006482 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 479437006483 putative translocon binding site; other site 479437006484 protein-rRNA interface [nucleotide binding]; other site 479437006485 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 479437006486 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 479437006487 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 479437006488 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 479437006489 trigger factor; Provisional; Region: tig; PRK01490 479437006490 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 479437006491 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 479437006492 FtsX-like permease family; Region: FtsX; pfam02687 479437006493 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 479437006494 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 479437006495 FtsX-like permease family; Region: FtsX; pfam02687 479437006496 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437006497 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437006498 Walker A/P-loop; other site 479437006499 ATP binding site [chemical binding]; other site 479437006500 Q-loop/lid; other site 479437006501 ABC transporter signature motif; other site 479437006502 Walker B; other site 479437006503 D-loop; other site 479437006504 H-loop/switch region; other site 479437006505 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437006506 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437006507 active site 479437006508 phosphorylation site [posttranslational modification] 479437006509 intermolecular recognition site; other site 479437006510 dimerization interface [polypeptide binding]; other site 479437006511 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 479437006512 DNA binding site [nucleotide binding] 479437006513 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437006514 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 479437006515 dimer interface [polypeptide binding]; other site 479437006516 phosphorylation site [posttranslational modification] 479437006517 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 479437006518 ATP binding site [chemical binding]; other site 479437006519 Mg2+ binding site [ion binding]; other site 479437006520 G-X-G motif; other site 479437006521 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 479437006522 active site 479437006523 oxyanion hole [active] 479437006524 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 479437006525 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 479437006526 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 479437006527 catalytic residue [active] 479437006528 Phosphopantetheine attachment site; Region: PP-binding; cl09936 479437006529 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 479437006530 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 479437006531 catalytic triad [active] 479437006532 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 479437006533 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 479437006534 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 479437006535 short chain dehydrogenase; Provisional; Region: PRK06701 479437006536 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 479437006537 NAD binding site [chemical binding]; other site 479437006538 metal binding site [ion binding]; metal-binding site 479437006539 active site 479437006540 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 479437006541 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 479437006542 active site 479437006543 metal binding site [ion binding]; metal-binding site 479437006544 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 479437006545 Amino acid permease; Region: AA_permease_2; pfam13520 479437006546 putrescine carbamoyltransferase; Provisional; Region: PRK02255 479437006547 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437006548 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437006549 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 479437006550 agmatine deiminase; Region: agmatine_aguA; TIGR03380 479437006551 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437006552 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 479437006553 DNA binding residues [nucleotide binding] 479437006554 dimerization interface [polypeptide binding]; other site 479437006555 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 479437006556 trimer interface [polypeptide binding]; other site 479437006557 dimer interface [polypeptide binding]; other site 479437006558 putative active site [active] 479437006559 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 479437006560 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 479437006561 FeS/SAM binding site; other site 479437006562 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 479437006563 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 479437006564 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006565 Walker A/P-loop; other site 479437006566 ATP binding site [chemical binding]; other site 479437006567 Q-loop/lid; other site 479437006568 ABC transporter signature motif; other site 479437006569 Walker B; other site 479437006570 D-loop; other site 479437006571 H-loop/switch region; other site 479437006572 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 479437006573 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437006574 dimer interface [polypeptide binding]; other site 479437006575 conserved gate region; other site 479437006576 putative PBP binding loops; other site 479437006577 ABC-ATPase subunit interface; other site 479437006578 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 479437006579 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 479437006580 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437006581 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437006582 Walker A/P-loop; other site 479437006583 ATP binding site [chemical binding]; other site 479437006584 Q-loop/lid; other site 479437006585 ABC transporter signature motif; other site 479437006586 Walker B; other site 479437006587 D-loop; other site 479437006588 H-loop/switch region; other site 479437006589 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 479437006590 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 479437006591 Walker A/P-loop; other site 479437006592 ATP binding site [chemical binding]; other site 479437006593 Q-loop/lid; other site 479437006594 ABC transporter signature motif; other site 479437006595 Walker B; other site 479437006596 D-loop; other site 479437006597 H-loop/switch region; other site 479437006598 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 479437006599 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437006600 dimer interface [polypeptide binding]; other site 479437006601 conserved gate region; other site 479437006602 putative PBP binding loops; other site 479437006603 ABC-ATPase subunit interface; other site 479437006604 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 479437006605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437006606 dimer interface [polypeptide binding]; other site 479437006607 conserved gate region; other site 479437006608 putative PBP binding loops; other site 479437006609 ABC-ATPase subunit interface; other site 479437006610 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 479437006611 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_19; cd08518 479437006612 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 479437006613 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 479437006614 nucleotide binding pocket [chemical binding]; other site 479437006615 K-X-D-G motif; other site 479437006616 catalytic site [active] 479437006617 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 479437006618 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 479437006619 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 479437006620 Dimer interface [polypeptide binding]; other site 479437006621 BRCT sequence motif; other site 479437006622 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 479437006623 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437006624 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437006625 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 479437006626 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 479437006627 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 479437006628 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 479437006629 glutaminase active site [active] 479437006630 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 479437006631 dimer interface [polypeptide binding]; other site 479437006632 active site 479437006633 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 479437006634 dimer interface [polypeptide binding]; other site 479437006635 active site 479437006636 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 479437006637 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437006638 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437006639 Predicted membrane protein [Function unknown]; Region: COG1511 479437006640 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 479437006641 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 479437006642 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006643 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437006644 Walker A/P-loop; other site 479437006645 ATP binding site [chemical binding]; other site 479437006646 ABC transporter signature motif; other site 479437006647 Walker B; other site 479437006648 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 479437006649 dimer interface [polypeptide binding]; other site 479437006650 active site 479437006651 metal binding site [ion binding]; metal-binding site 479437006652 glutathione binding site [chemical binding]; other site 479437006653 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 479437006654 YcfA-like protein; Region: YcfA; cl00752 479437006655 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437006656 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 479437006657 elongation factor G; Reviewed; Region: PRK12740 479437006658 G1 box; other site 479437006659 putative GEF interaction site [polypeptide binding]; other site 479437006660 GTP/Mg2+ binding site [chemical binding]; other site 479437006661 Switch I region; other site 479437006662 G2 box; other site 479437006663 G3 box; other site 479437006664 Switch II region; other site 479437006665 G4 box; other site 479437006666 G5 box; other site 479437006667 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 479437006668 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 479437006669 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 479437006670 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 479437006671 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437006672 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 479437006673 DNA binding residues [nucleotide binding] 479437006674 molybdenum transport protein ModD; Provisional; Region: PRK06096 479437006675 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 479437006676 dimerization interface [polypeptide binding]; other site 479437006677 active site 479437006678 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 479437006679 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 479437006680 active site 479437006681 putative substrate binding pocket [chemical binding]; other site 479437006682 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 479437006683 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 479437006684 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 479437006685 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 479437006686 substrate binding pocket [chemical binding]; other site 479437006687 membrane-bound complex binding site; other site 479437006688 hinge residues; other site 479437006689 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 479437006690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437006691 metal binding site [ion binding]; metal-binding site 479437006692 active site 479437006693 I-site; other site 479437006694 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 479437006695 TspO/MBR family; Region: TspO_MBR; cl01379 479437006696 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 479437006697 Peptidase family U32; Region: Peptidase_U32; pfam01136 479437006698 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 479437006699 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 479437006700 active site 479437006701 HIGH motif; other site 479437006702 Transposase family tnp2; Region: Transposase_21; pfam02992 479437006703 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 479437006704 KMSKS motif; other site 479437006705 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 479437006706 tRNA binding surface [nucleotide binding]; other site 479437006707 anticodon binding site; other site 479437006708 This DALR domain is found in cysteinyl-tRNA-synthetases; Region: DALR_2; smart00840 479437006709 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 479437006710 homotrimer interaction site [polypeptide binding]; other site 479437006711 zinc binding site [ion binding]; other site 479437006712 CDP-binding sites; other site 479437006713 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 479437006714 substrate binding site; other site 479437006715 dimer interface; other site 479437006716 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 479437006717 trimer interface [polypeptide binding]; other site 479437006718 active site 479437006719 substrate binding site [chemical binding]; other site 479437006720 CoA binding site [chemical binding]; other site 479437006721 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 479437006722 Clp amino terminal domain; Region: Clp_N; pfam02861 479437006723 Clp amino terminal domain; Region: Clp_N; pfam02861 479437006724 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 479437006725 Walker A motif; other site 479437006726 ATP binding site [chemical binding]; other site 479437006727 Walker B motif; other site 479437006728 arginine finger; other site 479437006729 UvrB/uvrC motif; Region: UVR; pfam02151 479437006730 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 479437006731 Walker A motif; other site 479437006732 ATP binding site [chemical binding]; other site 479437006733 Walker B motif; other site 479437006734 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 479437006735 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 479437006736 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 479437006737 dimer interface [polypeptide binding]; other site 479437006738 putative anticodon binding site; other site 479437006739 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 479437006740 motif 1; other site 479437006741 active site 479437006742 motif 2; other site 479437006743 motif 3; other site 479437006744 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 479437006745 dimer interface [polypeptide binding]; other site 479437006746 putative tRNA-binding site [nucleotide binding]; other site 479437006747 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 479437006748 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 479437006749 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 479437006750 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 479437006751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 479437006752 Transposase; Region: DEDD_Tnp_IS110; pfam01548 479437006753 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 479437006754 MULE transposase domain; Region: MULE; pfam10551 479437006755 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437006756 MULE transposase domain; Region: MULE; pfam10551 479437006757 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 479437006758 Helix-turn-helix domain; Region: HTH_17; pfam12728 479437006759 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 479437006760 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 479437006761 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 479437006762 catalytic loop [active] 479437006763 iron binding site [ion binding]; other site 479437006764 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 479437006765 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 479437006766 [4Fe-4S] binding site [ion binding]; other site 479437006767 molybdopterin cofactor binding site; other site 479437006768 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 479437006769 molybdopterin cofactor binding site; other site 479437006770 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 479437006771 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 479437006772 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437006773 Predicted transcriptional regulator [Transcription]; Region: COG2378 479437006774 WYL domain; Region: WYL; pfam13280 479437006775 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 479437006776 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 479437006777 NAD binding site [chemical binding]; other site 479437006778 dimer interface [polypeptide binding]; other site 479437006779 substrate binding site [chemical binding]; other site 479437006780 tetramer (dimer of dimers) interface [polypeptide binding]; other site 479437006781 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 479437006782 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 479437006783 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 479437006784 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 479437006785 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 479437006786 active site 479437006787 nucleophile elbow; other site 479437006788 YtpI-like protein; Region: YtpI; pfam14007 479437006789 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 479437006790 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437006791 DNA binding residues [nucleotide binding] 479437006792 dimerization interface [polypeptide binding]; other site 479437006793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437006794 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 479437006795 non-specific DNA binding site [nucleotide binding]; other site 479437006796 salt bridge; other site 479437006797 sequence-specific DNA binding site [nucleotide binding]; other site 479437006798 HipA N-terminal domain; Region: Couple_hipA; pfam13657 479437006799 HipA-like N-terminal domain; Region: HipA_N; pfam07805 479437006800 HipA-like C-terminal domain; Region: HipA_C; pfam07804 479437006801 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 479437006802 active site 479437006803 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 479437006804 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 479437006805 putative ATP binding site [chemical binding]; other site 479437006806 putative substrate interface [chemical binding]; other site 479437006807 Dolichol kinase [Lipid metabolism]; Region: SEC59; COG0170 479437006808 Integral membrane protein DUF92; Region: DUF92; pfam01940 479437006809 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 479437006810 active site lid residues [active] 479437006811 substrate binding pocket [chemical binding]; other site 479437006812 catalytic residues [active] 479437006813 substrate-Mg2+ binding site; other site 479437006814 aspartate-rich region 1; other site 479437006815 aspartate-rich region 2; other site 479437006816 phytoene desaturase; Region: crtI_fam; TIGR02734 479437006817 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437006818 Rrf2 family protein; Region: rrf2_super; TIGR00738 479437006819 Transcriptional regulator; Region: Rrf2; cl17282 479437006820 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 479437006821 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006822 Walker A/P-loop; other site 479437006823 ATP binding site [chemical binding]; other site 479437006824 Q-loop/lid; other site 479437006825 ABC transporter signature motif; other site 479437006826 Walker B; other site 479437006827 D-loop; other site 479437006828 H-loop/switch region; other site 479437006829 FeS assembly protein SufB; Region: sufB; TIGR01980 479437006830 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 479437006831 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 479437006832 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 479437006833 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 479437006834 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 479437006835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437006836 catalytic residue [active] 479437006837 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 479437006838 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 479437006839 trimerization site [polypeptide binding]; other site 479437006840 active site 479437006841 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 479437006842 AAA domain; Region: AAA_14; pfam13173 479437006843 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 479437006844 putative DNA binding site [nucleotide binding]; other site 479437006845 putative Zn2+ binding site [ion binding]; other site 479437006846 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 479437006847 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437006848 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 479437006849 Walker A/P-loop; other site 479437006850 ATP binding site [chemical binding]; other site 479437006851 Q-loop/lid; other site 479437006852 ABC transporter signature motif; other site 479437006853 Walker B; other site 479437006854 D-loop; other site 479437006855 H-loop/switch region; other site 479437006856 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 479437006857 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437006858 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 479437006859 DNA binding residues [nucleotide binding] 479437006860 AAA domain; Region: AAA_30; pfam13604 479437006861 AAA domain; Region: AAA_11; pfam13086 479437006862 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 479437006863 AAA domain; Region: AAA_12; pfam13087 479437006864 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 479437006865 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 479437006866 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 479437006867 Sodium Bile acid symporter family; Region: SBF; pfam01758 479437006868 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 479437006869 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 479437006870 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 479437006871 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 479437006872 dimer interface [polypeptide binding]; other site 479437006873 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437006874 catalytic residue [active] 479437006875 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 479437006876 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 479437006877 dimer interface [polypeptide binding]; other site 479437006878 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 479437006879 putative radical transfer pathway; other site 479437006880 diiron center [ion binding]; other site 479437006881 tyrosyl radical; other site 479437006882 ribonucleotide-diphosphate reductase subunit alpha; Provisional; Region: PRK12364 479437006883 ATP cone domain; Region: ATP-cone; pfam03477 479437006884 Class I ribonucleotide reductase; Region: RNR_I; cd01679 479437006885 active site 479437006886 dimer interface [polypeptide binding]; other site 479437006887 catalytic residues [active] 479437006888 effector binding site; other site 479437006889 R2 peptide binding site; other site 479437006890 Protein of unknown function, DUF417; Region: DUF417; cl01162 479437006891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437006892 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 479437006893 DNA binding residues [nucleotide binding] 479437006894 dimerization interface [polypeptide binding]; other site 479437006895 hypothetical protein; Validated; Region: PRK07121 479437006896 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437006897 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437006898 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437006899 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 479437006900 dimer interface [polypeptide binding]; other site 479437006901 phosphorylation site [posttranslational modification] 479437006902 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 479437006903 ATP binding site [chemical binding]; other site 479437006904 Mg2+ binding site [ion binding]; other site 479437006905 G-X-G motif; other site 479437006906 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 479437006907 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 479437006908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006909 Walker A/P-loop; other site 479437006910 ATP binding site [chemical binding]; other site 479437006911 Q-loop/lid; other site 479437006912 ABC transporter signature motif; other site 479437006913 Walker B; other site 479437006914 D-loop; other site 479437006915 H-loop/switch region; other site 479437006916 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437006917 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437006918 active site 479437006919 phosphorylation site [posttranslational modification] 479437006920 intermolecular recognition site; other site 479437006921 dimerization interface [polypeptide binding]; other site 479437006922 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 479437006923 DNA binding site [nucleotide binding] 479437006924 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 479437006925 Transcriptional regulator [Transcription]; Region: LytR; COG1316 479437006926 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 479437006927 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 479437006928 Uncharacterized protein containing a NRPS condensation (elongation) domain [General function prediction only]; Region: COG4908 479437006929 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 479437006930 Predicted membrane protein (DUF2101); Region: DUF2101; cl01648 479437006931 peroxiredoxin; Region: AhpC; TIGR03137 479437006932 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 479437006933 dimer interface [polypeptide binding]; other site 479437006934 decamer (pentamer of dimers) interface [polypeptide binding]; other site 479437006935 catalytic triad [active] 479437006936 peroxidatic and resolving cysteines [active] 479437006937 MFS transport protein AraJ; Provisional; Region: PRK10091 479437006938 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 479437006939 putative substrate translocation pore; other site 479437006940 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 479437006941 putative homodimer interface [polypeptide binding]; other site 479437006942 putative homotetramer interface [polypeptide binding]; other site 479437006943 putative metal binding site [ion binding]; other site 479437006944 putative homodimer-homodimer interface [polypeptide binding]; other site 479437006945 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 479437006946 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437006947 Soluble P-type ATPase [General function prediction only]; Region: COG4087 479437006948 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437006949 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437006950 Walker A/P-loop; other site 479437006951 ATP binding site [chemical binding]; other site 479437006952 Q-loop/lid; other site 479437006953 ABC transporter signature motif; other site 479437006954 Walker B; other site 479437006955 D-loop; other site 479437006956 H-loop/switch region; other site 479437006957 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437006958 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006959 Walker A/P-loop; other site 479437006960 ATP binding site [chemical binding]; other site 479437006961 Q-loop/lid; other site 479437006962 ABC transporter signature motif; other site 479437006963 Walker B; other site 479437006964 D-loop; other site 479437006965 H-loop/switch region; other site 479437006966 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437006967 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437006968 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 479437006969 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437006970 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006971 Walker A/P-loop; other site 479437006972 ATP binding site [chemical binding]; other site 479437006973 Q-loop/lid; other site 479437006974 ABC transporter signature motif; other site 479437006975 Walker B; other site 479437006976 D-loop; other site 479437006977 H-loop/switch region; other site 479437006978 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437006979 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437006980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006981 Walker A/P-loop; other site 479437006982 ATP binding site [chemical binding]; other site 479437006983 Q-loop/lid; other site 479437006984 ABC transporter signature motif; other site 479437006985 Walker B; other site 479437006986 D-loop; other site 479437006987 H-loop/switch region; other site 479437006988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437006989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437006990 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 479437006991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437006992 catalytic residue [active] 479437006993 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 479437006994 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 479437006995 motif II; other site 479437006996 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437006997 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437006998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437006999 Walker A/P-loop; other site 479437007000 ATP binding site [chemical binding]; other site 479437007001 Q-loop/lid; other site 479437007002 ABC transporter signature motif; other site 479437007003 Walker B; other site 479437007004 D-loop; other site 479437007005 H-loop/switch region; other site 479437007006 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437007007 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437007008 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437007009 Walker A/P-loop; other site 479437007010 ATP binding site [chemical binding]; other site 479437007011 Q-loop/lid; other site 479437007012 ABC transporter signature motif; other site 479437007013 Walker B; other site 479437007014 D-loop; other site 479437007015 H-loop/switch region; other site 479437007016 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437007017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007018 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; pfam09605 479437007019 Cobalt transport protein; Region: CbiQ; cl00463 479437007020 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437007021 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437007022 Walker A/P-loop; other site 479437007023 ATP binding site [chemical binding]; other site 479437007024 Q-loop/lid; other site 479437007025 ABC transporter signature motif; other site 479437007026 Walker B; other site 479437007027 D-loop; other site 479437007028 H-loop/switch region; other site 479437007029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437007030 Walker A/P-loop; other site 479437007031 ATP binding site [chemical binding]; other site 479437007032 ABC transporter; Region: ABC_tran; pfam00005 479437007033 Q-loop/lid; other site 479437007034 ABC transporter signature motif; other site 479437007035 Walker B; other site 479437007036 D-loop; other site 479437007037 H-loop/switch region; other site 479437007038 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 479437007039 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 479437007040 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437007041 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007042 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437007043 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437007044 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437007045 Walker A/P-loop; other site 479437007046 ATP binding site [chemical binding]; other site 479437007047 Q-loop/lid; other site 479437007048 ABC transporter signature motif; other site 479437007049 Walker B; other site 479437007050 D-loop; other site 479437007051 H-loop/switch region; other site 479437007052 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437007053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437007054 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437007055 Walker A/P-loop; other site 479437007056 ATP binding site [chemical binding]; other site 479437007057 Q-loop/lid; other site 479437007058 ABC transporter signature motif; other site 479437007059 Walker B; other site 479437007060 D-loop; other site 479437007061 H-loop/switch region; other site 479437007062 FeoA domain; Region: FeoA; pfam04023 479437007063 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 479437007064 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 479437007065 G1 box; other site 479437007066 GTP/Mg2+ binding site [chemical binding]; other site 479437007067 Switch I region; other site 479437007068 G2 box; other site 479437007069 G3 box; other site 479437007070 Switch II region; other site 479437007071 G4 box; other site 479437007072 G5 box; other site 479437007073 Nucleoside recognition; Region: Gate; pfam07670 479437007074 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 479437007075 Nucleoside recognition; Region: Gate; pfam07670 479437007076 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 479437007077 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 479437007078 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 479437007079 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 479437007080 hypothetical protein; Provisional; Region: PRK00955 479437007081 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 479437007082 Protein of unknown function (DUF4013); Region: DUF4013; pfam13197 479437007083 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 479437007084 peripheral dimer interface [polypeptide binding]; other site 479437007085 core dimer interface [polypeptide binding]; other site 479437007086 L10 interface [polypeptide binding]; other site 479437007087 L11 interface [polypeptide binding]; other site 479437007088 putative EF-Tu interaction site [polypeptide binding]; other site 479437007089 putative EF-G interaction site [polypeptide binding]; other site 479437007090 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 479437007091 23S rRNA interface [nucleotide binding]; other site 479437007092 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 479437007093 aconitate hydratase; Validated; Region: PRK09277 479437007094 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 479437007095 substrate binding site [chemical binding]; other site 479437007096 ligand binding site [chemical binding]; other site 479437007097 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 479437007098 substrate binding site [chemical binding]; other site 479437007099 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 479437007100 isocitrate dehydrogenase; Validated; Region: PRK06451 479437007101 Transglycosylase; Region: Transgly; pfam00912 479437007102 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 479437007103 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 479437007104 argininosuccinate lyase; Provisional; Region: PRK00855 479437007105 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 479437007106 active sites [active] 479437007107 tetramer interface [polypeptide binding]; other site 479437007108 argininosuccinate synthase; Provisional; Region: PRK13820 479437007109 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 479437007110 ANP binding site [chemical binding]; other site 479437007111 Substrate Binding Site II [chemical binding]; other site 479437007112 Substrate Binding Site I [chemical binding]; other site 479437007113 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 479437007114 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 479437007115 acetylornithine aminotransferase; Provisional; Region: PRK02627 479437007116 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 479437007117 inhibitor-cofactor binding pocket; inhibition site 479437007118 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437007119 catalytic residue [active] 479437007120 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 479437007121 feedback inhibition sensing region; other site 479437007122 homohexameric interface [polypeptide binding]; other site 479437007123 nucleotide binding site [chemical binding]; other site 479437007124 N-acetyl-L-glutamate binding site [chemical binding]; other site 479437007125 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 479437007126 heterotetramer interface [polypeptide binding]; other site 479437007127 active site pocket [active] 479437007128 cleavage site 479437007129 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 479437007130 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 479437007131 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 479437007132 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 479437007133 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 479437007134 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 479437007135 NAD(P) binding site [chemical binding]; other site 479437007136 homodimer interface [polypeptide binding]; other site 479437007137 substrate binding site [chemical binding]; other site 479437007138 active site 479437007139 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 479437007140 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 479437007141 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 479437007142 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 479437007143 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007144 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 479437007145 DNA binding residues [nucleotide binding] 479437007146 dimerization interface [polypeptide binding]; other site 479437007147 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 479437007148 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 479437007149 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437007150 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 479437007151 methionine aminopeptidase; Provisional; Region: PRK12318 479437007152 SEC-C motif; Region: SEC-C; pfam02810 479437007153 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 479437007154 active site 479437007155 Uncharacterized conserved protein [Function unknown]; Region: COG0398 479437007156 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 479437007157 Protein of unknown function DUF86; Region: DUF86; cl01031 479437007158 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 479437007159 active site 479437007160 NTP binding site [chemical binding]; other site 479437007161 metal binding triad [ion binding]; metal-binding site 479437007162 antibiotic binding site [chemical binding]; other site 479437007163 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 479437007164 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 479437007165 putative tRNA-binding site [nucleotide binding]; other site 479437007166 B3/4 domain; Region: B3_4; pfam03483 479437007167 tRNA synthetase B5 domain; Region: B5; smart00874 479437007168 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 479437007169 dimer interface [polypeptide binding]; other site 479437007170 motif 1; other site 479437007171 motif 3; other site 479437007172 motif 2; other site 479437007173 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 479437007174 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 479437007175 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 479437007176 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 479437007177 dimer interface [polypeptide binding]; other site 479437007178 motif 1; other site 479437007179 active site 479437007180 motif 2; other site 479437007181 motif 3; other site 479437007182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 479437007183 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 479437007184 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 479437007185 non-specific DNA binding site [nucleotide binding]; other site 479437007186 salt bridge; other site 479437007187 sequence-specific DNA binding site [nucleotide binding]; other site 479437007188 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 479437007189 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 479437007190 Predicted transcriptional regulator [Transcription]; Region: COG2378 479437007191 HTH domain; Region: HTH_11; pfam08279 479437007192 WYL domain; Region: WYL; pfam13280 479437007193 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437007194 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 479437007195 Radical SAM superfamily; Region: Radical_SAM; pfam04055 479437007196 FeS/SAM binding site; other site 479437007197 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 479437007198 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437007199 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437007200 molybdopterin cofactor binding site; other site 479437007201 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437007202 molybdopterin cofactor binding site; other site 479437007203 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437007204 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 479437007205 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437007206 DNA-binding site [nucleotide binding]; DNA binding site 479437007207 Predicted membrane protein [Function unknown]; Region: COG2364 479437007208 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 479437007209 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 479437007210 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437007211 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 479437007212 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 479437007213 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437007214 4Fe-4S binding domain; Region: Fer4; cl02805 479437007215 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437007216 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437007217 molybdopterin cofactor binding site; other site 479437007218 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437007219 molybdopterin cofactor binding site; other site 479437007220 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437007221 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437007222 DNA-binding site [nucleotide binding]; DNA binding site 479437007223 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 479437007224 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437007225 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437007226 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 479437007227 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007228 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 479437007229 non-specific DNA binding site [nucleotide binding]; other site 479437007230 salt bridge; other site 479437007231 sequence-specific DNA binding site [nucleotide binding]; other site 479437007232 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 479437007233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007234 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 479437007235 Transposase, Mutator family; Region: Transposase_mut; pfam00872 479437007236 MULE transposase domain; Region: MULE; pfam10551 479437007237 Predicted membrane protein [Function unknown]; Region: COG1511 479437007238 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 479437007239 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 479437007240 YacP-like NYN domain; Region: NYN_YacP; pfam05991 479437007241 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 479437007242 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 479437007243 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 479437007244 Predicted membrane protein [Function unknown]; Region: COG2860 479437007245 UPF0126 domain; Region: UPF0126; pfam03458 479437007246 UPF0126 domain; Region: UPF0126; pfam03458 479437007247 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 479437007248 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 479437007249 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 479437007250 DNA binding site [nucleotide binding] 479437007251 active site 479437007252 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 479437007253 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 479437007254 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437007255 4Fe-4S binding domain; Region: Fer4; pfam00037 479437007256 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437007257 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437007258 molybdopterin cofactor binding site; other site 479437007259 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437007260 molybdopterin cofactor binding site; other site 479437007261 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 479437007262 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437007263 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437007264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437007265 DNA-binding site [nucleotide binding]; DNA binding site 479437007266 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437007267 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007268 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 479437007269 non-specific DNA binding site [nucleotide binding]; other site 479437007270 salt bridge; other site 479437007271 sequence-specific DNA binding site [nucleotide binding]; other site 479437007272 ParB-like nuclease domain; Region: ParBc; pfam02195 479437007273 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 479437007274 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437007275 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 479437007276 active site 479437007277 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 479437007278 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 479437007279 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 479437007280 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 479437007281 Polysaccharide biosynthesis protein; Region: Polysacc_synt; pfam01943 479437007282 LicD family; Region: LicD; cl01378 479437007283 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 479437007284 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 479437007285 NAD(P) binding site [chemical binding]; other site 479437007286 homodimer interface [polypeptide binding]; other site 479437007287 substrate binding site [chemical binding]; other site 479437007288 active site 479437007289 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 479437007290 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 479437007291 inhibitor-cofactor binding pocket; inhibition site 479437007292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 479437007293 catalytic residue [active] 479437007294 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 479437007295 active site 479437007296 substrate binding site [chemical binding]; other site 479437007297 trimer interface [polypeptide binding]; other site 479437007298 CoA binding site [chemical binding]; other site 479437007299 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 479437007300 ligand binding site; other site 479437007301 tetramer interface; other site 479437007302 pseudaminic acid synthase; Region: PseI; TIGR03586 479437007303 NeuB family; Region: NeuB; pfam03102 479437007304 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 479437007305 NeuB binding interface [polypeptide binding]; other site 479437007306 putative substrate binding site [chemical binding]; other site 479437007307 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 479437007308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 479437007309 NAD(P) binding site [chemical binding]; other site 479437007310 active site 479437007311 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 479437007312 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 479437007313 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 479437007314 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 479437007315 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 479437007316 Transcriptional regulators [Transcription]; Region: MarR; COG1846 479437007317 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 479437007318 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 479437007319 active site 479437007320 metal-binding site 479437007321 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 479437007322 active site 479437007323 substrate binding site [chemical binding]; other site 479437007324 ATP binding site [chemical binding]; other site 479437007325 Phosphotransferase enzyme family; Region: APH; pfam01636 479437007326 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 479437007327 Core-2/I-Branching enzyme; Region: Branch; pfam02485 479437007328 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 479437007329 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 479437007330 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 479437007331 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 479437007332 active site 479437007333 putative acyl transferase; Provisional; Region: PRK10502 479437007334 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 479437007335 trimer interface [polypeptide binding]; other site 479437007336 active site 479437007337 substrate binding site [chemical binding]; other site 479437007338 CoA binding site [chemical binding]; other site 479437007339 LicD family; Region: LicD; cl01378 479437007340 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 479437007341 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 479437007342 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 479437007343 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 479437007344 active site 479437007345 homodimer interface [polypeptide binding]; other site 479437007346 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 479437007347 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 479437007348 Bacterial sugar transferase; Region: Bac_transf; pfam02397 479437007349 Transcription antiterminator [Transcription]; Region: NusG; COG0250 479437007350 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; Region: NGN_Bact_2; cd09889 479437007351 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 479437007352 heterodimer interface [polypeptide binding]; other site 479437007353 homodimer interface [polypeptide binding]; other site 479437007354 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 479437007355 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 479437007356 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 479437007357 Chain length determinant protein; Region: Wzz; cl15801 479437007358 Transcriptional regulator [Transcription]; Region: LytR; COG1316 479437007359 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 479437007360 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 479437007361 ATP binding site [chemical binding]; other site 479437007362 Mg++ binding site [ion binding]; other site 479437007363 motif III; other site 479437007364 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 479437007365 nucleotide binding region [chemical binding]; other site 479437007366 ATP-binding site [chemical binding]; other site 479437007367 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 479437007368 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437007369 4Fe-4S binding domain; Region: Fer4; pfam00037 479437007370 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437007371 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437007372 molybdopterin cofactor binding site; other site 479437007373 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437007374 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 479437007375 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 479437007376 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437007377 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437007378 DNA-binding site [nucleotide binding]; DNA binding site 479437007379 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437007380 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007381 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 479437007382 non-specific DNA binding site [nucleotide binding]; other site 479437007383 salt bridge; other site 479437007384 sequence-specific DNA binding site [nucleotide binding]; other site 479437007385 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 479437007386 ABC1 family; Region: ABC1; cl17513 479437007387 Uncharacterized conserved protein [Function unknown]; Region: COG3937 479437007388 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 479437007389 EamA-like transporter family; Region: EamA; pfam00892 479437007390 Transcriptional regulator [Transcription]; Region: LysR; COG0583 479437007391 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 479437007392 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 479437007393 dimerization interface [polypeptide binding]; other site 479437007394 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 479437007395 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 479437007396 motif II; other site 479437007397 prolyl-tRNA synthetase; Provisional; Region: PRK09194 479437007398 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 479437007399 dimer interface [polypeptide binding]; other site 479437007400 motif 1; other site 479437007401 active site 479437007402 motif 2; other site 479437007403 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 479437007404 putative deacylase active site [active] 479437007405 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 479437007406 active site 479437007407 motif 3; other site 479437007408 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 479437007409 anticodon binding site; other site 479437007410 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 479437007411 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 479437007412 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 479437007413 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 479437007414 active site 479437007415 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 479437007416 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 479437007417 putative substrate binding region [chemical binding]; other site 479437007418 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 479437007419 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 479437007420 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 479437007421 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 479437007422 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 479437007423 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 479437007424 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 479437007425 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 479437007426 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 479437007427 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 479437007428 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 479437007429 catalytic residue [active] 479437007430 putative FPP diphosphate binding site; other site 479437007431 putative FPP binding hydrophobic cleft; other site 479437007432 dimer interface [polypeptide binding]; other site 479437007433 putative IPP diphosphate binding site; other site 479437007434 ribosome recycling factor; Reviewed; Region: frr; PRK00083 479437007435 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 479437007436 hinge region; other site 479437007437 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 479437007438 putative nucleotide binding site [chemical binding]; other site 479437007439 uridine monophosphate binding site [chemical binding]; other site 479437007440 homohexameric interface [polypeptide binding]; other site 479437007441 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 479437007442 Methyltransferase domain; Region: Methyltransf_31; pfam13847 479437007443 S-adenosylmethionine binding site [chemical binding]; other site 479437007444 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 479437007445 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 479437007446 protein binding site [polypeptide binding]; other site 479437007447 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 479437007448 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 479437007449 active site 479437007450 NAD binding site [chemical binding]; other site 479437007451 metal binding site [ion binding]; metal-binding site 479437007452 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 479437007453 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 479437007454 NAD(P) binding site [chemical binding]; other site 479437007455 catalytic residues [active] 479437007456 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 479437007457 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437007458 Flavodoxin; Region: Flavodoxin_1; pfam00258 479437007459 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 479437007460 DNA binding residues [nucleotide binding] 479437007461 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437007462 drug binding residues [chemical binding]; other site 479437007463 dimer interface [polypeptide binding]; other site 479437007464 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 479437007465 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 479437007466 putative active site [active] 479437007467 endonuclease IV; Provisional; Region: PRK01060 479437007468 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 479437007469 AP (apurinic/apyrimidinic) site pocket; other site 479437007470 DNA interaction; other site 479437007471 Metal-binding active site; metal-binding site 479437007472 SdpI/YhfL protein family; Region: SdpI; pfam13630 479437007473 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437007474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007475 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 479437007476 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437007477 putative substrate translocation pore; other site 479437007478 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 479437007479 putative substrate translocation pore; other site 479437007480 FOG: CBS domain [General function prediction only]; Region: COG0517 479437007481 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 479437007482 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 479437007483 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 479437007484 Walker A/P-loop; other site 479437007485 ATP binding site [chemical binding]; other site 479437007486 Q-loop/lid; other site 479437007487 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 479437007488 ABC transporter signature motif; other site 479437007489 Walker B; other site 479437007490 D-loop; other site 479437007491 H-loop/switch region; other site 479437007492 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437007493 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 479437007494 metal ion-dependent adhesion site (MIDAS); other site 479437007495 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 479437007496 Walker A motif; other site 479437007497 ATP binding site [chemical binding]; other site 479437007498 Walker B motif; other site 479437007499 arginine finger; other site 479437007500 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 479437007501 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 479437007502 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 479437007503 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437007504 DNA binding residues [nucleotide binding] 479437007505 dimer interface [polypeptide binding]; other site 479437007506 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 479437007507 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437007508 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437007509 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 479437007510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437007511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007512 WHG domain; Region: WHG; pfam13305 479437007513 Histidine carboxylase PI chain; Region: HDC; cl03540 479437007514 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 479437007515 Domain of unknown function (DUF368); Region: DUF368; pfam04018 479437007516 Flavodoxin domain; Region: Flavodoxin_3; pfam12641 479437007517 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 479437007518 putative active site [active] 479437007519 dimerization interface [polypeptide binding]; other site 479437007520 putative tRNAtyr binding site [nucleotide binding]; other site 479437007521 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 479437007522 ArsC family; Region: ArsC; pfam03960 479437007523 putative ArsC-like catalytic residues; other site 479437007524 putative TRX-like catalytic residues [active] 479437007525 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437007526 Predicted transcriptional regulators [Transcription]; Region: COG1725 479437007527 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437007528 DNA-binding site [nucleotide binding]; DNA binding site 479437007529 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437007530 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437007531 Walker A/P-loop; other site 479437007532 ATP binding site [chemical binding]; other site 479437007533 Q-loop/lid; other site 479437007534 ABC transporter signature motif; other site 479437007535 Walker B; other site 479437007536 D-loop; other site 479437007537 H-loop/switch region; other site 479437007538 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 479437007539 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 479437007540 Transcriptional regulator; Region: Rrf2; cl17282 479437007541 Rrf2 family protein; Region: rrf2_super; TIGR00738 479437007542 Transglycosylase; Region: Transgly; pfam00912 479437007543 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 479437007544 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 479437007545 active site 479437007546 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 479437007547 H+ Antiporter protein; Region: 2A0121; TIGR00900 479437007548 putative substrate translocation pore; other site 479437007549 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 479437007550 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 479437007551 NAD(P) binding site [chemical binding]; other site 479437007552 active site 479437007553 excinuclease ABC subunit B; Provisional; Region: PRK05298 479437007554 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 479437007555 ATP binding site [chemical binding]; other site 479437007556 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 479437007557 nucleotide binding region [chemical binding]; other site 479437007558 ATP-binding site [chemical binding]; other site 479437007559 Ultra-violet resistance protein B; Region: UvrB; pfam12344 479437007560 UvrB/uvrC motif; Region: UVR; pfam02151 479437007561 KilA-N domain; Region: KilA-N; pfam04383 479437007562 Predicted membrane protein [Function unknown]; Region: COG2855 479437007563 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 479437007564 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 479437007565 ATP-binding [chemical binding]; other site 479437007566 CoA-binding site [chemical binding]; other site 479437007567 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 479437007568 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 479437007569 Ligand Binding Site [chemical binding]; other site 479437007570 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 479437007571 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 479437007572 catalytic triad [active] 479437007573 catalytic triad [active] 479437007574 oxyanion hole [active] 479437007575 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 479437007576 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 479437007577 RNA binding site [nucleotide binding]; other site 479437007578 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 479437007579 RNA binding site [nucleotide binding]; other site 479437007580 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 479437007581 RNA binding site [nucleotide binding]; other site 479437007582 S1_RPS1_repeat_hs4: 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_hs4; cd05692 479437007583 RNA binding site [nucleotide binding]; other site 479437007584 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 479437007585 metal binding site 2 [ion binding]; metal-binding site 479437007586 putative DNA binding helix; other site 479437007587 metal binding site 1 [ion binding]; metal-binding site 479437007588 dimer interface [polypeptide binding]; other site 479437007589 structural Zn2+ binding site [ion binding]; other site 479437007590 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 479437007591 Nitrogen regulatory protein P-II; Region: P-II; smart00938 479437007592 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 479437007593 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437007594 Coenzyme A binding pocket [chemical binding]; other site 479437007595 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437007596 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437007597 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 479437007598 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007599 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 479437007600 DNA binding residues [nucleotide binding] 479437007601 dimerization interface [polypeptide binding]; other site 479437007602 hypothetical protein; Validated; Region: PRK07121 479437007603 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437007604 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 479437007605 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 479437007606 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 479437007607 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 479437007608 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 479437007609 TPP-binding site; other site 479437007610 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 479437007611 PYR/PP interface [polypeptide binding]; other site 479437007612 dimer interface [polypeptide binding]; other site 479437007613 TPP binding site [chemical binding]; other site 479437007614 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 479437007615 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 479437007616 putative RNA binding site [nucleotide binding]; other site 479437007617 Asp23 family; Region: Asp23; pfam03780 479437007618 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 479437007619 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 479437007620 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 479437007621 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 479437007622 pyruvate carboxylase subunit B; Validated; Region: PRK09282 479437007623 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 479437007624 active site 479437007625 catalytic residues [active] 479437007626 metal binding site [ion binding]; metal-binding site 479437007627 homodimer binding site [polypeptide binding]; other site 479437007628 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 479437007629 carboxyltransferase (CT) interaction site; other site 479437007630 biotinylation site [posttranslational modification]; other site 479437007631 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 479437007632 non-specific DNA binding site [nucleotide binding]; other site 479437007633 salt bridge; other site 479437007634 sequence-specific DNA binding site [nucleotide binding]; other site 479437007635 elongation factor P; Validated; Region: PRK00529 479437007636 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 479437007637 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 479437007638 RNA binding site [nucleotide binding]; other site 479437007639 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 479437007640 RNA binding site [nucleotide binding]; other site 479437007641 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 479437007642 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 479437007643 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 479437007644 active site 479437007645 Dehydroquinase class II; Region: DHquinase_II; pfam01220 479437007646 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 479437007647 active site 479437007648 trimer interface [polypeptide binding]; other site 479437007649 dimer interface [polypeptide binding]; other site 479437007650 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 479437007651 active site 479437007652 dimer interface [polypeptide binding]; other site 479437007653 metal binding site [ion binding]; metal-binding site 479437007654 shikimate kinase; Reviewed; Region: aroK; PRK00131 479437007655 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 479437007656 ADP binding site [chemical binding]; other site 479437007657 magnesium binding site [ion binding]; other site 479437007658 putative shikimate binding site; other site 479437007659 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 479437007660 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 479437007661 Tetramer interface [polypeptide binding]; other site 479437007662 active site 479437007663 FMN-binding site [chemical binding]; other site 479437007664 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 479437007665 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 479437007666 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 479437007667 shikimate binding site; other site 479437007668 NAD(P) binding site [chemical binding]; other site 479437007669 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 479437007670 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 479437007671 active site 479437007672 motif I; other site 479437007673 motif II; other site 479437007674 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 479437007675 YceG-like family; Region: YceG; pfam02618 479437007676 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 479437007677 dimerization interface [polypeptide binding]; other site 479437007678 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 479437007679 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 479437007680 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 479437007681 motif 1; other site 479437007682 active site 479437007683 motif 2; other site 479437007684 motif 3; other site 479437007685 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 479437007686 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 479437007687 Domain of unknown function DUF20; Region: UPF0118; pfam01594 479437007688 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 479437007689 recombination factor protein RarA; Reviewed; Region: PRK13342 479437007690 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 479437007691 Walker A motif; other site 479437007692 ATP binding site [chemical binding]; other site 479437007693 Walker B motif; other site 479437007694 arginine finger; other site 479437007695 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 479437007696 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 479437007697 non-specific DNA binding site [nucleotide binding]; other site 479437007698 salt bridge; other site 479437007699 sequence-specific DNA binding site [nucleotide binding]; other site 479437007700 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 479437007701 dimer interface [polypeptide binding]; other site 479437007702 phosphorylation site [posttranslational modification] 479437007703 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 479437007704 ATP binding site [chemical binding]; other site 479437007705 Mg2+ binding site [ion binding]; other site 479437007706 G-X-G motif; other site 479437007707 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437007708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437007709 active site 479437007710 phosphorylation site [posttranslational modification] 479437007711 intermolecular recognition site; other site 479437007712 dimerization interface [polypeptide binding]; other site 479437007713 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 479437007714 DNA binding site [nucleotide binding] 479437007715 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 479437007716 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 479437007717 Walker A/P-loop; other site 479437007718 ATP binding site [chemical binding]; other site 479437007719 Q-loop/lid; other site 479437007720 ABC transporter signature motif; other site 479437007721 Walker B; other site 479437007722 D-loop; other site 479437007723 H-loop/switch region; other site 479437007724 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 479437007725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437007726 dimer interface [polypeptide binding]; other site 479437007727 conserved gate region; other site 479437007728 putative PBP binding loops; other site 479437007729 ABC-ATPase subunit interface; other site 479437007730 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 479437007731 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 479437007732 dimer interface [polypeptide binding]; other site 479437007733 conserved gate region; other site 479437007734 putative PBP binding loops; other site 479437007735 ABC-ATPase subunit interface; other site 479437007736 PBP superfamily domain; Region: PBP_like_2; cl17296 479437007737 PBP superfamily domain; Region: PBP_like_2; cl17296 479437007738 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 479437007739 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 479437007740 Mechanosensitive ion channel; Region: MS_channel; pfam00924 479437007741 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 479437007742 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 479437007743 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 479437007744 ATP cone domain; Region: ATP-cone; pfam03477 479437007745 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 479437007746 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 479437007747 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 479437007748 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 479437007749 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 479437007750 putative ligand binding site [chemical binding]; other site 479437007751 putative NAD binding site [chemical binding]; other site 479437007752 catalytic site [active] 479437007753 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 479437007754 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 479437007755 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437007756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437007757 metal binding site [ion binding]; metal-binding site 479437007758 active site 479437007759 I-site; other site 479437007760 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 479437007761 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 479437007762 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 479437007763 active site 479437007764 tetramer interface; other site 479437007765 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 479437007766 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 479437007767 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437007768 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437007769 Walker A/P-loop; other site 479437007770 ATP binding site [chemical binding]; other site 479437007771 Q-loop/lid; other site 479437007772 ABC transporter signature motif; other site 479437007773 Walker B; other site 479437007774 D-loop; other site 479437007775 H-loop/switch region; other site 479437007776 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 479437007777 CcmE; Region: CcmE; cl00994 479437007778 CcmE; Region: CcmE; cl00994 479437007779 Cytochrome c552; Region: Cytochrom_C552; pfam02335 479437007780 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 479437007781 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 479437007782 Walker A/P-loop; other site 479437007783 ATP binding site [chemical binding]; other site 479437007784 Q-loop/lid; other site 479437007785 ABC transporter signature motif; other site 479437007786 Walker B; other site 479437007787 D-loop; other site 479437007788 H-loop/switch region; other site 479437007789 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007790 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 479437007791 non-specific DNA binding site [nucleotide binding]; other site 479437007792 salt bridge; other site 479437007793 sequence-specific DNA binding site [nucleotide binding]; other site 479437007794 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 479437007795 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 479437007796 catalytic residues [active] 479437007797 catalytic nucleophile [active] 479437007798 Recombinase; Region: Recombinase; pfam07508 479437007799 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 479437007800 non-specific DNA binding site [nucleotide binding]; other site 479437007801 salt bridge; other site 479437007802 sequence-specific DNA binding site [nucleotide binding]; other site 479437007803 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 479437007804 non-specific DNA binding site [nucleotide binding]; other site 479437007805 salt bridge; other site 479437007806 sequence-specific DNA binding site [nucleotide binding]; other site 479437007807 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 479437007808 Protein of unknown function (DUF1351); Region: DUF1351; pfam07083 479437007809 ERF superfamily; Region: ERF; pfam04404 479437007810 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 479437007811 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 479437007812 dimer interface [polypeptide binding]; other site 479437007813 ssDNA binding site [nucleotide binding]; other site 479437007814 tetramer (dimer of dimers) interface [polypeptide binding]; other site 479437007815 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 479437007816 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 479437007817 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 479437007818 DNA methylase; Region: N6_N4_Mtase; pfam01555 479437007819 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 479437007820 DNA methylase; Region: N6_N4_Mtase; pfam01555 479437007821 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 479437007822 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 479437007823 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 479437007824 hypothetical protein; Reviewed; Region: PRK09588 479437007825 Terminase-like family; Region: Terminase_6; pfam03237 479437007826 Phage terminase large subunit; Region: Terminase_3; cl12054 479437007827 phage portal protein, putative, A118 family; Region: A118_put_portal; TIGR01542 479437007828 Phage minor capsid protein 2; Region: Phage_min_cap2; pfam06152 479437007829 Minor capsid protein; Region: Minor_capsid_1; pfam10665 479437007830 Minor capsid protein; Region: Minor_capsid_2; pfam11114 479437007831 Minor capsid protein from bacteriophage; Region: Minor_capsid_3; pfam12691 479437007832 Bacteriophage Gp15 protein; Region: Phage_Gp15; pfam06854 479437007833 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 479437007834 Phage-related minor tail protein [Function unknown]; Region: COG5281 479437007835 Phage-related protein [Function unknown]; Region: COG4722 479437007836 Phage tail protein; Region: Sipho_tail; pfam05709 479437007837 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 479437007838 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 479437007839 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 479437007840 putative active site [active] 479437007841 putative NTP binding site [chemical binding]; other site 479437007842 putative nucleic acid binding site [nucleotide binding]; other site 479437007843 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 479437007844 putative active site [active] 479437007845 CHAP domain; Region: CHAP; cl17642 479437007846 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 479437007847 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007848 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 479437007849 non-specific DNA binding site [nucleotide binding]; other site 479437007850 salt bridge; other site 479437007851 sequence-specific DNA binding site [nucleotide binding]; other site 479437007852 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 479437007853 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 479437007854 FeS/SAM binding site; other site 479437007855 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 479437007856 FMN-binding domain; Region: FMN_bind; cl01081 479437007857 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437007858 L-aspartate oxidase; Provisional; Region: PRK06175 479437007859 ApbE family; Region: ApbE; pfam02424 479437007860 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 479437007861 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 479437007862 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007863 DNA binding residues [nucleotide binding] 479437007864 dimerization interface [polypeptide binding]; other site 479437007865 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 479437007866 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 479437007867 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 479437007868 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 479437007869 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 479437007870 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 479437007871 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 479437007872 active site 479437007873 HIGH motif; other site 479437007874 KMSKS motif; other site 479437007875 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 479437007876 tRNA binding surface [nucleotide binding]; other site 479437007877 anticodon binding site; other site 479437007878 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 479437007879 active site flap/lid [active] 479437007880 nucleophilic elbow; other site 479437007881 catalytic triad [active] 479437007882 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 479437007883 GIY-YIG motif/motif A; other site 479437007884 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437007885 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 479437007886 non-specific DNA binding site [nucleotide binding]; other site 479437007887 salt bridge; other site 479437007888 sequence-specific DNA binding site [nucleotide binding]; other site 479437007889 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 479437007890 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 479437007891 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 479437007892 putative substrate translocation pore; other site 479437007893 Protein of unknown function DUF45; Region: DUF45; cl00636 479437007894 Protein of unknown function DUF45; Region: DUF45; pfam01863 479437007895 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437007896 Predicted methyltransferases [General function prediction only]; Region: COG0313 479437007897 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 479437007898 putative SAM binding site [chemical binding]; other site 479437007899 putative homodimer interface [polypeptide binding]; other site 479437007900 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 479437007901 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 479437007902 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 479437007903 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 479437007904 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 479437007905 S-adenosylmethionine binding site [chemical binding]; other site 479437007906 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 479437007907 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 479437007908 dimerization interface [polypeptide binding]; other site 479437007909 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 479437007910 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 479437007911 dimer interface [polypeptide binding]; other site 479437007912 putative CheW interface [polypeptide binding]; other site 479437007913 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 479437007914 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 479437007915 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 479437007916 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 479437007917 putative active site [active] 479437007918 catalytic site [active] 479437007919 putative metal binding site [ion binding]; other site 479437007920 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 479437007921 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 479437007922 catalytic residues [active] 479437007923 dimer interface [polypeptide binding]; other site 479437007924 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 479437007925 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 479437007926 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 479437007927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 479437007928 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 479437007929 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 479437007930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 479437007931 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437007932 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 479437007933 Biotin operon repressor [Transcription]; Region: BirA; COG1654 479437007934 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 479437007935 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 479437007936 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 479437007937 PIN domain; Region: PIN_3; pfam13470 479437007938 RelB antitoxin; Region: RelB; cl01171 479437007939 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007940 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 479437007941 DNA binding residues [nucleotide binding] 479437007942 dimerization interface [polypeptide binding]; other site 479437007943 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 479437007944 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437007945 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 479437007946 DNA binding residues [nucleotide binding] 479437007947 dimerization interface [polypeptide binding]; other site 479437007948 hypothetical protein; Provisional; Region: PRK11770 479437007949 Domain of unknown function (DUF307); Region: DUF307; pfam03733 479437007950 Domain of unknown function (DUF307); Region: DUF307; pfam03733 479437007951 hypothetical protein; Validated; Region: PRK07121 479437007952 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437007953 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007954 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 479437007955 DNA binding residues [nucleotide binding] 479437007956 dimerization interface [polypeptide binding]; other site 479437007957 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 479437007958 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 479437007959 S-adenosylmethionine binding site [chemical binding]; other site 479437007960 hypothetical protein; Validated; Region: PRK07121 479437007961 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437007962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437007963 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 479437007964 DNA binding residues [nucleotide binding] 479437007965 dimerization interface [polypeptide binding]; other site 479437007966 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 479437007967 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 479437007968 aspartate kinase; Reviewed; Region: PRK06635 479437007969 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 479437007970 putative nucleotide binding site [chemical binding]; other site 479437007971 putative catalytic residues [active] 479437007972 putative Mg ion binding site [ion binding]; other site 479437007973 putative aspartate binding site [chemical binding]; other site 479437007974 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 479437007975 putative allosteric regulatory site; other site 479437007976 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 479437007977 putative allosteric regulatory residue; other site 479437007978 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 479437007979 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 479437007980 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 479437007981 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like; cd01619 479437007982 homodimer interface [polypeptide binding]; other site 479437007983 ligand binding site [chemical binding]; other site 479437007984 NAD binding site [chemical binding]; other site 479437007985 catalytic site [active] 479437007986 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 479437007987 Amidinotransferase; Region: Amidinotransf; pfam02274 479437007988 Predicted membrane protein [Function unknown]; Region: COG1288 479437007989 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 479437007990 ornithine carbamoyltransferase; Validated; Region: PRK02102 479437007991 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 479437007992 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 479437007993 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u3; cd11479 479437007994 Na binding site [ion binding]; other site 479437007995 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 479437007996 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 479437007997 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 479437007998 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 479437007999 hypothetical protein; Provisional; Region: PRK10578 479437008000 UPF0126 domain; Region: UPF0126; pfam03458 479437008001 UPF0126 domain; Region: UPF0126; pfam03458 479437008002 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 479437008003 Phosphate transporter family; Region: PHO4; pfam01384 479437008004 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 479437008005 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 479437008006 putative substrate translocation pore; other site 479437008007 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437008008 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 479437008009 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 479437008010 Zn2+ binding site [ion binding]; other site 479437008011 Mg2+ binding site [ion binding]; other site 479437008012 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 479437008013 synthetase active site [active] 479437008014 NTP binding site [chemical binding]; other site 479437008015 metal binding site [ion binding]; metal-binding site 479437008016 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 479437008017 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 479437008018 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 479437008019 DHH family; Region: DHH; pfam01368 479437008020 DHHA1 domain; Region: DHHA1; pfam02272 479437008021 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 479437008022 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 479437008023 ATP binding site [chemical binding]; other site 479437008024 putative Mg++ binding site [ion binding]; other site 479437008025 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 479437008026 nucleotide binding region [chemical binding]; other site 479437008027 ATP-binding site [chemical binding]; other site 479437008028 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008029 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 479437008030 DNA binding residues [nucleotide binding] 479437008031 dimerization interface [polypeptide binding]; other site 479437008032 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 479437008033 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 479437008034 RNA polymerase factor sigma C; Reviewed; Region: PRK09415 479437008035 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437008036 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 479437008037 DNA binding residues [nucleotide binding] 479437008038 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 479437008039 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 479437008040 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 479437008041 DNA binding residues [nucleotide binding] 479437008042 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 479437008043 ATP cone domain; Region: ATP-cone; pfam03477 479437008044 Class III ribonucleotide reductase; Region: RNR_III; cd01675 479437008045 effector binding site; other site 479437008046 active site 479437008047 Zn binding site [ion binding]; other site 479437008048 glycine loop; other site 479437008049 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 479437008050 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 479437008051 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 479437008052 FeS/SAM binding site; other site 479437008053 H+ Antiporter protein; Region: 2A0121; TIGR00900 479437008054 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437008055 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437008056 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 479437008057 active site 479437008058 ADP/pyrophosphate binding site [chemical binding]; other site 479437008059 dimerization interface [polypeptide binding]; other site 479437008060 allosteric effector site; other site 479437008061 fructose-1,6-bisphosphate binding site; other site 479437008062 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 479437008063 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437008064 Predicted transcriptional regulators [Transcription]; Region: COG1733 479437008065 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 479437008066 Nitroreductase-like family 3. 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_3; cd02139 479437008067 putative FMN binding site [chemical binding]; other site 479437008068 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 479437008069 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 479437008070 active site 479437008071 motif I; other site 479437008072 motif II; other site 479437008073 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 479437008074 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437008075 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 479437008076 non-specific DNA binding site [nucleotide binding]; other site 479437008077 salt bridge; other site 479437008078 sequence-specific DNA binding site [nucleotide binding]; other site 479437008079 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 479437008080 FMN-binding domain; Region: FMN_bind; cl01081 479437008081 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008082 L-aspartate oxidase; Provisional; Region: PRK06175 479437008083 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008084 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008085 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 479437008086 DNA binding residues [nucleotide binding] 479437008087 dimerization interface [polypeptide binding]; other site 479437008088 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 479437008089 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437008090 ABC transporter; Region: ABC_tran_2; pfam12848 479437008091 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 479437008092 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 479437008093 Predicted membrane protein [General function prediction only]; Region: COG4194 479437008094 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 479437008095 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437008096 DNA-binding site [nucleotide binding]; DNA binding site 479437008097 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 479437008098 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 479437008099 Walker A/P-loop; other site 479437008100 ATP binding site [chemical binding]; other site 479437008101 Q-loop/lid; other site 479437008102 ABC transporter signature motif; other site 479437008103 Walker B; other site 479437008104 D-loop; other site 479437008105 H-loop/switch region; other site 479437008106 MULE transposase domain; Region: MULE; pfam10551 479437008107 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437008108 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 479437008109 putative [Fe4-S4] binding site [ion binding]; other site 479437008110 putative molybdopterin cofactor binding site [chemical binding]; other site 479437008111 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437008112 putative molybdopterin cofactor binding site; other site 479437008113 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437008114 4Fe-4S binding domain; Region: Fer4; pfam00037 479437008115 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 479437008116 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 479437008117 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 479437008118 putative substrate translocation pore; other site 479437008119 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 479437008120 hypothetical protein; Validated; Region: PRK07121 479437008121 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008122 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 479437008123 DNA binding residues [nucleotide binding] 479437008124 dimerization interface [polypeptide binding]; other site 479437008125 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 479437008126 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 479437008127 putative active site [active] 479437008128 catalytic residue [active] 479437008129 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 479437008130 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 479437008131 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437008132 active site 479437008133 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008134 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 479437008135 DNA binding residues [nucleotide binding] 479437008136 dimerization interface [polypeptide binding]; other site 479437008137 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437008138 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 479437008139 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437008140 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437008141 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437008142 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437008143 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 479437008144 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437008145 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437008146 4Fe-4S binding domain; Region: Fer4; cl02805 479437008147 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437008148 The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members...; Region: MopB_Acetylene-hydratase; cd02759 479437008149 putative [Fe4-S4] binding site [ion binding]; other site 479437008150 putative molybdopterin cofactor binding site [chemical binding]; other site 479437008151 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437008152 molybdopterin cofactor binding site; other site 479437008153 RelB antitoxin; Region: RelB; cl01171 479437008154 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 479437008155 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 479437008156 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 479437008157 Substrate binding site; other site 479437008158 Mg++ binding site; other site 479437008159 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 479437008160 active site 479437008161 substrate binding site [chemical binding]; other site 479437008162 CoA binding site [chemical binding]; other site 479437008163 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 479437008164 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 479437008165 30S subunit binding site; other site 479437008166 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 479437008167 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008168 DNA binding residues [nucleotide binding] 479437008169 dimerization interface [polypeptide binding]; other site 479437008170 acyl carrier protein; Provisional; Region: acpP; PRK00982 479437008171 hypothetical protein; Validated; Region: PRK07121 479437008172 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437008173 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008174 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 479437008175 DNA binding residues [nucleotide binding] 479437008176 dimerization interface [polypeptide binding]; other site 479437008177 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 479437008178 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437008179 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 479437008180 putative oxidoreductase; Provisional; Region: PRK12831 479437008181 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 479437008182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437008183 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 479437008184 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 479437008185 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 479437008186 FAD binding pocket [chemical binding]; other site 479437008187 FAD binding motif [chemical binding]; other site 479437008188 phosphate binding motif [ion binding]; other site 479437008189 beta-alpha-beta structure motif; other site 479437008190 NAD binding pocket [chemical binding]; other site 479437008191 Iron coordination center [ion binding]; other site 479437008192 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u1; cd12826 479437008193 Cl binding site [ion binding]; other site 479437008194 oligomer interface [polypeptide binding]; other site 479437008195 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 479437008196 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 479437008197 Fe-S cluster binding site [ion binding]; other site 479437008198 active site 479437008199 alanine racemase; Reviewed; Region: alr; PRK00053 479437008200 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 479437008201 active site 479437008202 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 479437008203 dimer interface [polypeptide binding]; other site 479437008204 substrate binding site [chemical binding]; other site 479437008205 catalytic residues [active] 479437008206 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008207 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 479437008208 DNA binding residues [nucleotide binding] 479437008209 dimerization interface [polypeptide binding]; other site 479437008210 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 479437008211 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008212 molybdopterin cofactor binding site; other site 479437008213 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437008214 molybdopterin cofactor binding site; other site 479437008215 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437008216 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437008217 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 479437008218 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437008219 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 479437008220 MPT binding site; other site 479437008221 trimer interface [polypeptide binding]; other site 479437008222 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 479437008223 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 479437008224 dimer interface [polypeptide binding]; other site 479437008225 putative functional site; other site 479437008226 putative MPT binding site; other site 479437008227 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 479437008228 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 479437008229 trimer interface [polypeptide binding]; other site 479437008230 putative metal binding site [ion binding]; other site 479437008231 enolase; Provisional; Region: eno; PRK00077 479437008232 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 479437008233 dimer interface [polypeptide binding]; other site 479437008234 metal binding site [ion binding]; metal-binding site 479437008235 substrate binding pocket [chemical binding]; other site 479437008236 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008237 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 479437008238 DNA binding residues [nucleotide binding] 479437008239 dimerization interface [polypeptide binding]; other site 479437008240 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008241 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437008242 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008243 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 479437008244 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437008245 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 479437008246 non-specific DNA binding site [nucleotide binding]; other site 479437008247 salt bridge; other site 479437008248 sequence-specific DNA binding site [nucleotide binding]; other site 479437008249 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 479437008250 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 479437008251 peptide binding site [polypeptide binding]; other site 479437008252 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 479437008253 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 479437008254 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437008255 putative substrate translocation pore; other site 479437008256 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 479437008257 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 479437008258 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 479437008259 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 479437008260 alphaNTD - beta interaction site [polypeptide binding]; other site 479437008261 alphaNTD homodimer interface [polypeptide binding]; other site 479437008262 alphaNTD - beta' interaction site [polypeptide binding]; other site 479437008263 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 479437008264 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 479437008265 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 479437008266 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 479437008267 RNA binding surface [nucleotide binding]; other site 479437008268 30S ribosomal protein S11; Validated; Region: PRK05309 479437008269 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 479437008270 30S ribosomal protein S13; Region: bact_S13; TIGR03631 479437008271 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 479437008272 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 479437008273 rRNA binding site [nucleotide binding]; other site 479437008274 predicted 30S ribosome binding site; other site 479437008275 Predicted membrane protein [Function unknown]; Region: COG3601 479437008276 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 479437008277 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008278 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 479437008279 DNA binding residues [nucleotide binding] 479437008280 dimerization interface [polypeptide binding]; other site 479437008281 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 479437008282 ApbE family; Region: ApbE; pfam02424 479437008283 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 479437008284 Ligand Binding Site [chemical binding]; other site 479437008285 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 479437008286 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437008287 putative substrate translocation pore; other site 479437008288 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 479437008289 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008290 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 479437008291 DNA binding residues [nucleotide binding] 479437008292 dimerization interface [polypeptide binding]; other site 479437008293 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008294 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008295 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 479437008296 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 479437008297 Protein of unknown function (DUF2899); Region: DUF2899; pfam11449 479437008298 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 479437008299 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 479437008300 ring oligomerisation interface [polypeptide binding]; other site 479437008301 ATP/Mg binding site [chemical binding]; other site 479437008302 stacking interactions; other site 479437008303 hinge regions; other site 479437008304 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 479437008305 oligomerisation interface [polypeptide binding]; other site 479437008306 mobile loop; other site 479437008307 roof hairpin; other site 479437008308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008309 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008310 active site 479437008311 phosphorylation site [posttranslational modification] 479437008312 intermolecular recognition site; other site 479437008313 dimerization interface [polypeptide binding]; other site 479437008314 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 479437008315 DNA binding residues [nucleotide binding] 479437008316 dimerization interface [polypeptide binding]; other site 479437008317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 479437008318 Histidine kinase; Region: HisKA_3; pfam07730 479437008319 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 479437008320 ATP binding site [chemical binding]; other site 479437008321 Mg2+ binding site [ion binding]; other site 479437008322 G-X-G motif; other site 479437008323 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008324 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 479437008325 DNA binding residues [nucleotide binding] 479437008326 dimerization interface [polypeptide binding]; other site 479437008327 hypothetical protein; Validated; Region: PRK07121 479437008328 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008329 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437008330 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008331 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437008332 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008333 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 479437008334 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 479437008335 homodimer interface [polypeptide binding]; other site 479437008336 NAD binding pocket [chemical binding]; other site 479437008337 ATP binding pocket [chemical binding]; other site 479437008338 Mg binding site [ion binding]; other site 479437008339 active-site loop [active] 479437008340 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 479437008341 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 479437008342 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 479437008343 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 479437008344 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 479437008345 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 479437008346 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 479437008347 active site 479437008348 Part of AAA domain; Region: AAA_19; pfam13245 479437008349 Family description; Region: UvrD_C_2; pfam13538 479437008350 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 479437008351 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 479437008352 S-adenosylmethionine binding site [chemical binding]; other site 479437008353 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437008354 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 479437008355 non-specific DNA binding site [nucleotide binding]; other site 479437008356 salt bridge; other site 479437008357 sequence-specific DNA binding site [nucleotide binding]; other site 479437008358 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 479437008359 Divergent AAA domain; Region: AAA_4; pfam04326 479437008360 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 479437008361 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 479437008362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008363 active site 479437008364 phosphorylation site [posttranslational modification] 479437008365 intermolecular recognition site; other site 479437008366 dimerization interface [polypeptide binding]; other site 479437008367 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 479437008368 DNA binding site [nucleotide binding] 479437008369 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 479437008370 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 479437008371 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 479437008372 Ligand Binding Site [chemical binding]; other site 479437008373 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 479437008374 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 479437008375 dimer interface [polypeptide binding]; other site 479437008376 phosphorylation site [posttranslational modification] 479437008377 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 479437008378 ATP binding site [chemical binding]; other site 479437008379 Mg2+ binding site [ion binding]; other site 479437008380 G-X-G motif; other site 479437008381 potassium-transporting ATPase subunit C; Provisional; Region: PRK13996 479437008382 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 479437008383 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 479437008384 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 479437008385 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437008386 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437008387 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437008388 Leucine rich repeats (6 copies); Region: LRR_5; pfam13306 479437008389 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 479437008390 Glycoprotease family; Region: Peptidase_M22; pfam00814 479437008391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437008392 Coenzyme A binding pocket [chemical binding]; other site 479437008393 UGMP family protein; Validated; Region: PRK09604 479437008394 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 479437008395 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 479437008396 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 479437008397 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 479437008398 active site 479437008399 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 479437008400 4Fe-4S binding domain; Region: Fer4; cl02805 479437008401 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 479437008402 4Fe-4S binding domain; Region: Fer4; cl02805 479437008403 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 479437008404 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 479437008405 [4Fe-4S] binding site [ion binding]; other site 479437008406 molybdopterin cofactor binding site; other site 479437008407 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437008408 molybdopterin cofactor binding site; other site 479437008409 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437008410 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 479437008411 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 479437008412 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 479437008413 NAD(P) binding pocket [chemical binding]; other site 479437008414 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 479437008415 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 479437008416 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 479437008417 Potassium binding sites [ion binding]; other site 479437008418 Cesium cation binding sites [ion binding]; other site 479437008419 Type III pantothenate kinase; Region: Pan_kinase; cl17198 479437008420 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437008421 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008422 active site 479437008423 phosphorylation site [posttranslational modification] 479437008424 intermolecular recognition site; other site 479437008425 dimerization interface [polypeptide binding]; other site 479437008426 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 479437008427 DNA binding site [nucleotide binding] 479437008428 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437008429 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 479437008430 dimer interface [polypeptide binding]; other site 479437008431 phosphorylation site [posttranslational modification] 479437008432 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 479437008433 ATP binding site [chemical binding]; other site 479437008434 Mg2+ binding site [ion binding]; other site 479437008435 G-X-G motif; other site 479437008436 TIGR03987 family protein; Region: TIGR03987 479437008437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437008438 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437008439 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 479437008440 active site 479437008441 NTP binding site [chemical binding]; other site 479437008442 metal binding triad [ion binding]; metal-binding site 479437008443 antibiotic binding site [chemical binding]; other site 479437008444 Protein of unknown function DUF86; Region: DUF86; cl01031 479437008445 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 479437008446 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; cd01985 479437008447 Ligand binding site [chemical binding]; other site 479437008448 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 479437008449 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 479437008450 Ligand Binding Site [chemical binding]; other site 479437008451 Electron transfer flavoprotein domain; Region: ETF; pfam01012 479437008452 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 479437008453 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 479437008454 Walker A motif; other site 479437008455 ATP binding site [chemical binding]; other site 479437008456 Walker B motif; other site 479437008457 arginine finger; other site 479437008458 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 479437008459 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 479437008460 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 479437008461 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 479437008462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 479437008463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 479437008464 Coenzyme A binding pocket [chemical binding]; other site 479437008465 TIGR03084 family protein; Region: TIGR03084 479437008466 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 479437008467 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 479437008468 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437008469 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437008470 active site 479437008471 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 479437008472 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437008473 acyl-activating enzyme (AAE) consensus motif; other site 479437008474 AMP binding site [chemical binding]; other site 479437008475 active site 479437008476 CoA binding site [chemical binding]; other site 479437008477 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 479437008478 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 479437008479 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 479437008480 substrate binding site [chemical binding]; other site 479437008481 oxyanion hole (OAH) forming residues; other site 479437008482 trimer interface [polypeptide binding]; other site 479437008483 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 479437008484 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 479437008485 active site 479437008486 FMN binding site [chemical binding]; other site 479437008487 substrate binding site [chemical binding]; other site 479437008488 putative catalytic residue [active] 479437008489 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 479437008490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 479437008491 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 479437008492 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437008493 putative substrate translocation pore; other site 479437008494 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 479437008495 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437008496 Major Facilitator Superfamily; Region: MFS_1; pfam07690 479437008497 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 479437008498 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 479437008499 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437008500 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 479437008501 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 479437008502 conserved cys residue [active] 479437008503 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 479437008504 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 479437008505 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 479437008506 dimer interface [polypeptide binding]; other site 479437008507 active site 479437008508 CoA binding pocket [chemical binding]; other site 479437008509 BioY family; Region: BioY; pfam02632 479437008510 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437008511 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437008512 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 479437008513 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437008514 DNA binding residues [nucleotide binding] 479437008515 dimer interface [polypeptide binding]; other site 479437008516 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008517 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008518 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 479437008519 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 479437008520 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 479437008521 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 479437008522 dihydropteroate synthase; Region: DHPS; TIGR01496 479437008523 substrate binding pocket [chemical binding]; other site 479437008524 dimer interface [polypeptide binding]; other site 479437008525 inhibitor binding site; inhibition site 479437008526 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 479437008527 catalytic center binding site [active] 479437008528 ATP binding site [chemical binding]; other site 479437008529 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 479437008530 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 479437008531 Walker A motif; other site 479437008532 ATP binding site [chemical binding]; other site 479437008533 Walker B motif; other site 479437008534 arginine finger; other site 479437008535 Peptidase family M41; Region: Peptidase_M41; pfam01434 479437008536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437008537 active site 479437008538 Maf-like protein; Region: Maf; pfam02545 479437008539 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 479437008540 active site 479437008541 dimer interface [polypeptide binding]; other site 479437008542 Helix-turn-helix domain; Region: HTH_17; cl17695 479437008543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 479437008544 AAA domain; Region: AAA_33; pfam13671 479437008545 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 479437008546 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 479437008547 Ligand Binding Site [chemical binding]; other site 479437008548 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437008549 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437008550 metal binding site [ion binding]; metal-binding site 479437008551 active site 479437008552 I-site; other site 479437008553 PAS fold; Region: PAS_3; pfam08447 479437008554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437008555 metal binding site [ion binding]; metal-binding site 479437008556 active site 479437008557 I-site; other site 479437008558 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 479437008559 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 479437008560 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 479437008561 S-adenosylmethionine binding site [chemical binding]; other site 479437008562 Transcriptional regulators [Transcription]; Region: FadR; COG2186 479437008563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437008564 DNA-binding site [nucleotide binding]; DNA binding site 479437008565 FCD domain; Region: FCD; pfam07729 479437008566 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 479437008567 Amidinotransferase; Region: Amidinotransf; pfam02274 479437008568 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 479437008569 Membrane protein of unknown function; Region: DUF360; pfam04020 479437008570 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 479437008571 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 479437008572 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 479437008573 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 479437008574 dimer interface [polypeptide binding]; other site 479437008575 active site 479437008576 metal binding site [ion binding]; metal-binding site 479437008577 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 479437008578 ZIP Zinc transporter; Region: Zip; pfam02535 479437008579 putative transposase OrfB; Reviewed; Region: PHA02517 479437008580 HTH-like domain; Region: HTH_21; pfam13276 479437008581 Integrase core domain; Region: rve; pfam00665 479437008582 Integrase core domain; Region: rve_2; pfam13333 479437008583 Helix-turn-helix domain; Region: HTH_28; pfam13518 479437008584 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 479437008585 Ferritin-like domain; Region: Ferritin; pfam00210 479437008586 ferroxidase diiron center [ion binding]; other site 479437008587 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 479437008588 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 479437008589 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437008590 thiosulfate reductase PhsA; Provisional; Region: PRK15488 479437008591 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 479437008592 putative [Fe4-S4] binding site [ion binding]; other site 479437008593 putative molybdopterin cofactor binding site [chemical binding]; other site 479437008594 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 479437008595 putative molybdopterin cofactor binding site; other site 479437008596 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 479437008597 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 479437008598 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 479437008599 putative oxidoreductase; Provisional; Region: PRK09849 479437008600 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 479437008601 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 479437008602 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 479437008603 trimerization site [polypeptide binding]; other site 479437008604 active site 479437008605 hypothetical protein; Provisional; Region: PRK09947 479437008606 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008607 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 479437008608 DNA binding residues [nucleotide binding] 479437008609 dimerization interface [polypeptide binding]; other site 479437008610 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 479437008611 4Fe-4S binding domain; Region: Fer4; cl02805 479437008612 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 479437008613 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 479437008614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 479437008615 catalytic residue [active] 479437008616 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 479437008617 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008618 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 479437008619 DNA binding residues [nucleotide binding] 479437008620 dimerization interface [polypeptide binding]; other site 479437008621 hypothetical protein; Validated; Region: PRK07121 479437008622 Predicted oxidoreductase [General function prediction only]; Region: COG3573 479437008623 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 479437008624 Na2 binding site [ion binding]; other site 479437008625 putative substrate binding site 1 [chemical binding]; other site 479437008626 Na binding site 1 [ion binding]; other site 479437008627 putative substrate binding site 2 [chemical binding]; other site 479437008628 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008629 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 479437008630 DNA binding residues [nucleotide binding] 479437008631 dimerization interface [polypeptide binding]; other site 479437008632 L-aspartate oxidase; Provisional; Region: PRK06175 479437008633 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 479437008634 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 479437008635 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 479437008636 ATP binding site [chemical binding]; other site 479437008637 Mg2+ binding site [ion binding]; other site 479437008638 G-X-G motif; other site 479437008639 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 479437008640 anti sigma factor interaction site; other site 479437008641 regulatory phosphorylation site [posttranslational modification]; other site 479437008642 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 479437008643 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 479437008644 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 479437008645 active site 479437008646 catalytic residues [active] 479437008647 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 479437008648 catalytic residues [active] 479437008649 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 479437008650 Kelch domain; Region: Kelch; smart00612 479437008651 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 479437008652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437008653 Walker A/P-loop; other site 479437008654 ATP binding site [chemical binding]; other site 479437008655 Q-loop/lid; other site 479437008656 ABC transporter signature motif; other site 479437008657 Walker B; other site 479437008658 D-loop; other site 479437008659 H-loop/switch region; other site 479437008660 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 479437008661 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 bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 479437008662 putative active site [active] 479437008663 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437008664 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437008665 Walker A/P-loop; other site 479437008666 ATP binding site [chemical binding]; other site 479437008667 Q-loop/lid; other site 479437008668 ABC transporter signature motif; other site 479437008669 Walker B; other site 479437008670 D-loop; other site 479437008671 H-loop/switch region; other site 479437008672 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 479437008673 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 479437008674 LytTr DNA-binding domain; Region: LytTR; smart00850 479437008675 Nitrogen fixation protein of unknown function; Region: Nif11; cl06756 479437008676 nif11-like leader peptide domain; Region: ocin_TIGR03798 479437008677 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 479437008678 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 479437008679 FeS/SAM binding site; other site 479437008680 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 479437008681 non-specific DNA binding site [nucleotide binding]; other site 479437008682 salt bridge; other site 479437008683 sequence-specific DNA binding site [nucleotide binding]; other site 479437008684 MULE transposase domain; Region: MULE; pfam10551 479437008685 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 479437008686 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 479437008687 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 479437008688 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 479437008689 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 479437008690 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 479437008691 ring oligomerisation interface [polypeptide binding]; other site 479437008692 ATP/Mg binding site [chemical binding]; other site 479437008693 stacking interactions; other site 479437008694 hinge regions; other site 479437008695 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 479437008696 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 479437008697 active site 479437008698 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 479437008699 Domain of unknown function DUF21; Region: DUF21; pfam01595 479437008700 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 479437008701 Transporter associated domain; Region: CorC_HlyC; smart01091 479437008702 xanthine permease; Region: pbuX; TIGR03173 479437008703 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 479437008704 active site 479437008705 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 479437008706 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 479437008707 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437008708 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437008709 acyl-activating enzyme (AAE) consensus motif; other site 479437008710 AMP binding site [chemical binding]; other site 479437008711 active site 479437008712 CoA binding site [chemical binding]; other site 479437008713 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 479437008714 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 479437008715 metal binding site [ion binding]; metal-binding site 479437008716 substrate binding pocket [chemical binding]; other site 479437008717 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 479437008718 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 479437008719 substrate binding site [chemical binding]; other site 479437008720 oxyanion hole (OAH) forming residues; other site 479437008721 trimer interface [polypeptide binding]; other site 479437008722 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 479437008723 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 479437008724 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 479437008725 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 479437008726 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 479437008727 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 479437008728 dimer interface [polypeptide binding]; other site 479437008729 tetramer interface [polypeptide binding]; other site 479437008730 PYR/PP interface [polypeptide binding]; other site 479437008731 TPP binding site [chemical binding]; other site 479437008732 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 479437008733 TPP-binding site; other site 479437008734 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 479437008735 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 479437008736 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 479437008737 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 479437008738 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 479437008739 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK14704 479437008740 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 479437008741 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 479437008742 non-specific DNA binding site [nucleotide binding]; other site 479437008743 salt bridge; other site 479437008744 sequence-specific DNA binding site [nucleotide binding]; other site 479437008745 aldolase; Validated; Region: PRK06852 479437008746 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 479437008747 catalytic residue [active] 479437008748 Uncharacterized conserved protein [Function unknown]; Region: COG0398 479437008749 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 479437008750 PRC-barrel domain containing protein [General function prediction only]; Region: COG3881 479437008751 YtxH-like protein; Region: YtxH; cl02079 479437008752 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 479437008753 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 479437008754 ATP-grasp domain; Region: ATP-grasp_4; cl17255 479437008755 seryl-tRNA synthetase; Provisional; Region: PRK05431 479437008756 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 479437008757 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 479437008758 dimer interface [polypeptide binding]; other site 479437008759 active site 479437008760 motif 1; other site 479437008761 motif 2; other site 479437008762 motif 3; other site 479437008763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437008764 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 479437008765 dimer interface [polypeptide binding]; other site 479437008766 phosphorylation site [posttranslational modification] 479437008767 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 479437008768 ATP binding site [chemical binding]; other site 479437008769 Mg2+ binding site [ion binding]; other site 479437008770 G-X-G motif; other site 479437008771 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 479437008772 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008773 active site 479437008774 phosphorylation site [posttranslational modification] 479437008775 intermolecular recognition site; other site 479437008776 dimerization interface [polypeptide binding]; other site 479437008777 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 479437008778 dimer interface [polypeptide binding]; other site 479437008779 pyridoxal binding site [chemical binding]; other site 479437008780 ATP binding site [chemical binding]; other site 479437008781 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 479437008782 Protein kinase domain; Region: Pkinase; pfam00069 479437008783 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 479437008784 active site 479437008785 ATP binding site [chemical binding]; other site 479437008786 substrate binding site [chemical binding]; other site 479437008787 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 479437008788 active site 479437008789 ATP binding site [chemical binding]; other site 479437008790 substrate binding site [chemical binding]; other site 479437008791 activation loop (A-loop); other site 479437008792 activation loop (A-loop); other site 479437008793 Uncharacterized conserved protein [Function unknown]; Region: COG1739 479437008794 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 479437008795 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 479437008796 CAAX protease self-immunity; Region: Abi; pfam02517 479437008797 TraX protein; Region: TraX; cl05434 479437008798 Transcriptional regulator [Transcription]; Region: LytR; COG1316 479437008799 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 479437008800 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 479437008801 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 479437008802 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 479437008803 catalytic triad [active] 479437008804 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 479437008805 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 479437008806 NodB motif; other site 479437008807 active site 479437008808 catalytic site [active] 479437008809 metal binding site [ion binding]; metal-binding site 479437008810 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 479437008811 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 479437008812 transmembrane helices; other site 479437008813 LytTr DNA-binding domain; Region: LytTR; smart00850 479437008814 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 479437008815 CAAX protease self-immunity; Region: Abi; pfam02517 479437008816 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 479437008817 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 479437008818 Ligand Binding Site [chemical binding]; other site 479437008819 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437008820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008821 active site 479437008822 phosphorylation site [posttranslational modification] 479437008823 intermolecular recognition site; other site 479437008824 dimerization interface [polypeptide binding]; other site 479437008825 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 479437008826 DNA binding site [nucleotide binding] 479437008827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437008828 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 479437008829 dimerization interface [polypeptide binding]; other site 479437008830 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 479437008831 dimer interface [polypeptide binding]; other site 479437008832 phosphorylation site [posttranslational modification] 479437008833 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 479437008834 ATP binding site [chemical binding]; other site 479437008835 Mg2+ binding site [ion binding]; other site 479437008836 G-X-G motif; other site 479437008837 Uncharacterized conserved protein [Function unknown]; Region: COG0398 479437008838 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 479437008839 putative UV damage endonuclease; Provisional; Region: uvsE; PRK02308 479437008840 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 479437008841 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 479437008842 tetramerization interface [polypeptide binding]; other site 479437008843 active site 479437008844 pantoate--beta-alanine ligase; Region: panC; TIGR00018 479437008845 Pantoate-beta-alanine ligase; Region: PanC; cd00560 479437008846 active site 479437008847 ATP-binding site [chemical binding]; other site 479437008848 pantoate-binding site; other site 479437008849 HXXH motif; other site 479437008850 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 479437008851 oligomerization interface [polypeptide binding]; other site 479437008852 active site 479437008853 metal binding site [ion binding]; metal-binding site 479437008854 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 479437008855 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 479437008856 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 479437008857 dinuclear metal binding motif [ion binding]; other site 479437008858 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 479437008859 Fic family protein [Function unknown]; Region: COG3177 479437008860 Fic/DOC family; Region: Fic; pfam02661 479437008861 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 479437008862 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 479437008863 ABC1 family; Region: ABC1; cl17513 479437008864 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 479437008865 active site 479437008866 substrate binding site [chemical binding]; other site 479437008867 ATP binding site [chemical binding]; other site 479437008868 hypothetical protein; Validated; Region: PRK07121 479437008869 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 479437008870 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008871 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 479437008872 DNA binding residues [nucleotide binding] 479437008873 dimerization interface [polypeptide binding]; other site 479437008874 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 479437008875 EamA-like transporter family; Region: EamA; pfam00892 479437008876 EamA-like transporter family; Region: EamA; pfam00892 479437008877 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437008878 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 479437008879 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 479437008880 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 479437008881 4Fe-4S binding domain; Region: Fer4; pfam00037 479437008882 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437008883 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 479437008884 4Fe-4S binding domain; Region: Fer4_5; pfam12801 479437008885 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 479437008886 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 479437008887 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 479437008888 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 479437008889 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 479437008890 4Fe-4S binding domain; Region: Fer4; cl02805 479437008891 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437008892 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008893 molybdopterin cofactor binding site; other site 479437008894 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008895 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437008896 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008897 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008898 The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This...; Region: MopB_CT_Acetylene-hydratase; cd02781 479437008899 putative molybdopterin cofactor binding site; other site 479437008900 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 479437008901 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 479437008902 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 479437008903 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 479437008904 DNA binding residues [nucleotide binding] 479437008905 dimerization interface [polypeptide binding]; other site 479437008906 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 479437008907 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 479437008908 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 479437008909 phosphopeptide binding site; other site 479437008910 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 479437008911 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 479437008912 phosphopeptide binding site; other site 479437008913 Protein phosphatase 2C; Region: PP2C; pfam00481 479437008914 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 479437008915 active site 479437008916 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 479437008917 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 479437008918 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 479437008919 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 479437008920 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 479437008921 Catalytic domain of Protein Kinases; Region: PKc; cd00180 479437008922 active site 479437008923 ATP binding site [chemical binding]; other site 479437008924 substrate binding site [chemical binding]; other site 479437008925 activation loop (A-loop); other site 479437008926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 479437008927 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437008928 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437008929 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 479437008930 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 479437008931 Histidine kinase; Region: His_kinase; pfam06580 479437008932 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 479437008933 ATP binding site [chemical binding]; other site 479437008934 Mg2+ binding site [ion binding]; other site 479437008935 G-X-G motif; other site 479437008936 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 479437008937 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 479437008938 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 479437008939 QueT transporter; Region: QueT; cl01932 479437008940 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 479437008941 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 479437008942 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 479437008943 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437008944 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 479437008945 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 479437008946 molybdopterin cofactor binding site; other site 479437008947 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 479437008948 molybdopterin cofactor binding site; other site 479437008949 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 479437008950 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 479437008951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 479437008952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437008953 active site 479437008954 phosphorylation site [posttranslational modification] 479437008955 intermolecular recognition site; other site 479437008956 dimerization interface [polypeptide binding]; other site 479437008957 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 479437008958 DNA binding site [nucleotide binding] 479437008959 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 479437008960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 479437008961 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 479437008962 dimer interface [polypeptide binding]; other site 479437008963 phosphorylation site [posttranslational modification] 479437008964 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 479437008965 ATP binding site [chemical binding]; other site 479437008966 Mg2+ binding site [ion binding]; other site 479437008967 G-X-G motif; other site 479437008968 Predicted GTPases [General function prediction only]; Region: COG1162 479437008969 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 479437008970 RNA binding site [nucleotide binding]; other site 479437008971 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 479437008972 GTPase/Zn-binding domain interface [polypeptide binding]; other site 479437008973 GTP/Mg2+ binding site [chemical binding]; other site 479437008974 G4 box; other site 479437008975 G5 box; other site 479437008976 G1 box; other site 479437008977 Switch I region; other site 479437008978 G2 box; other site 479437008979 G3 box; other site 479437008980 Switch II region; other site 479437008981 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 479437008982 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 479437008983 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 479437008984 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 479437008985 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 479437008986 Na binding site [ion binding]; other site 479437008987 Protein of unknown function DUF86; Region: DUF86; cl01031 479437008988 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 479437008989 active site 479437008990 NTP binding site [chemical binding]; other site 479437008991 metal binding triad [ion binding]; metal-binding site 479437008992 antibiotic binding site [chemical binding]; other site 479437008993 Predicted amidohydrolase [General function prediction only]; Region: COG0388 479437008994 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_6; cd07584 479437008995 putative active site [active] 479437008996 catalytic triad [active] 479437008997 putative dimer interface [polypeptide binding]; other site 479437008998 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 479437008999 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 479437009000 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 479437009001 Protein of unknown function (DUF917); Region: DUF917; pfam06032 479437009002 Protein of unknown function (DUF1177); Region: DUF1177; pfam06675 479437009003 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 479437009004 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 479437009005 Clp amino terminal domain; Region: Clp_N; pfam02861 479437009006 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 479437009007 Walker A motif; other site 479437009008 ATP binding site [chemical binding]; other site 479437009009 Walker B motif; other site 479437009010 arginine finger; other site 479437009011 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 479437009012 Walker A motif; other site 479437009013 ATP binding site [chemical binding]; other site 479437009014 Walker B motif; other site 479437009015 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 479437009016 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 479437009017 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 479437009018 DNA binding residues [nucleotide binding] 479437009019 putative dimer interface [polypeptide binding]; other site 479437009020 chaperone protein DnaJ; Provisional; Region: PRK14299 479437009021 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 479437009022 HSP70 interaction site [polypeptide binding]; other site 479437009023 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 479437009024 substrate binding site [polypeptide binding]; other site 479437009025 dimer interface [polypeptide binding]; other site 479437009026 GrpE; Region: GrpE; pfam01025 479437009027 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 479437009028 dimer interface [polypeptide binding]; other site 479437009029 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 479437009030 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 479437009031 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 479437009032 nucleotide binding site [chemical binding]; other site 479437009033 NEF interaction site [polypeptide binding]; other site 479437009034 SBD interface [polypeptide binding]; other site 479437009035 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 479437009036 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 479437009037 dimerization interface [polypeptide binding]; other site 479437009038 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 479437009039 ATP binding site [chemical binding]; other site 479437009040 nickel responsive regulator; Provisional; Region: PRK04460 479437009041 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 479437009042 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 479437009043 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 479437009044 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 479437009045 active site 479437009046 substrate binding site [chemical binding]; other site 479437009047 metal binding site [ion binding]; metal-binding site 479437009048 UDP-glucose 4-epimerase; Region: PLN02240 479437009049 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 479437009050 NAD binding site [chemical binding]; other site 479437009051 homodimer interface [polypeptide binding]; other site 479437009052 active site 479437009053 substrate binding site [chemical binding]; other site 479437009054 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 479437009055 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 479437009056 metal binding site [ion binding]; metal-binding site 479437009057 active site 479437009058 I-site; other site 479437009059 Transcriptional regulator [Transcription]; Region: LytR; COG1316 479437009060 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 479437009061 non-specific DNA binding site [nucleotide binding]; other site 479437009062 salt bridge; other site 479437009063 sequence-specific DNA binding site [nucleotide binding]; other site 479437009064 Predicted integral membrane protein [Function unknown]; Region: COG5652 479437009065 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 479437009066 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 479437009067 motif II; other site 479437009068 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 479437009069 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 479437009070 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 479437009071 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 479437009072 Walker A/P-loop; other site 479437009073 ATP binding site [chemical binding]; other site 479437009074 Q-loop/lid; other site 479437009075 ABC transporter signature motif; other site 479437009076 Walker B; other site 479437009077 D-loop; other site 479437009078 H-loop/switch region; other site 479437009079 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 479437009080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437009081 Walker A/P-loop; other site 479437009082 ATP binding site [chemical binding]; other site 479437009083 Q-loop/lid; other site 479437009084 ABC transporter signature motif; other site 479437009085 Walker B; other site 479437009086 D-loop; other site 479437009087 H-loop/switch region; other site 479437009088 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 479437009089 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437009090 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 479437009091 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437009092 Walker A/P-loop; other site 479437009093 ATP binding site [chemical binding]; other site 479437009094 Q-loop/lid; other site 479437009095 ABC transporter signature motif; other site 479437009096 Walker B; other site 479437009097 D-loop; other site 479437009098 H-loop/switch region; other site 479437009099 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 479437009100 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 479437009101 Walker A/P-loop; other site 479437009102 ATP binding site [chemical binding]; other site 479437009103 Q-loop/lid; other site 479437009104 ABC transporter signature motif; other site 479437009105 Walker B; other site 479437009106 D-loop; other site 479437009107 H-loop/switch region; other site 479437009108 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 479437009109 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 479437009110 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 479437009111 dimer interface [polypeptide binding]; other site 479437009112 phosphorylation site [posttranslational modification] 479437009113 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 479437009114 ATP binding site [chemical binding]; other site 479437009115 Mg2+ binding site [ion binding]; other site 479437009116 G-X-G motif; other site 479437009117 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 479437009118 active site 479437009119 phosphorylation site [posttranslational modification] 479437009120 intermolecular recognition site; other site 479437009121 dimerization interface [polypeptide binding]; other site 479437009122 Transcriptional regulators [Transcription]; Region: FadR; COG2186 479437009123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437009124 DNA-binding site [nucleotide binding]; DNA binding site 479437009125 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 479437009126 DNA-binding site [nucleotide binding]; DNA binding site 479437009127 D-xylulose kinase; Region: XylB; TIGR01312 479437009128 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 479437009129 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 479437009130 putative substrate translocation pore; other site 479437009131 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 479437009132 putative substrate translocation pore; other site 479437009133 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 479437009134 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437009135 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 479437009136 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 479437009137 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 479437009138 active site 479437009139 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 479437009140 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 479437009141 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 479437009142 putative AMP binding site [chemical binding]; other site 479437009143 putative active site [active] 479437009144 acyl-activating enzyme (AAE) consensus motif; other site 479437009145 putative CoA binding site [chemical binding]; other site 479437009146 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 479437009147 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 479437009148 substrate binding site [chemical binding]; other site 479437009149 oxyanion hole (OAH) forming residues; other site 479437009150 trimer interface [polypeptide binding]; other site 479437009151 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 479437009152 CoA-transferase family III; Region: CoA_transf_3; pfam02515 479437009153 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 479437009154 active site 2 [active] 479437009155 active site 1 [active] 479437009156 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 479437009157 active site 2 [active] 479437009158 active site 1 [active] 479437009159 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 479437009160 Ligand Binding Site [chemical binding]; other site 479437009161 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 479437009162 Electron transfer flavoprotein domain; Region: ETF; smart00893 479437009163 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 479437009164 oxidoreductase; Provisional; Region: PRK10015 479437009165 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 479437009166 Transcriptional regulators [Transcription]; Region: MarR; COG1846 479437009167 MarR family; Region: MarR; pfam01047 479437009168 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 479437009169 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 479437009170 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK08074 479437009171 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 479437009172 active site 479437009173 catalytic site [active] 479437009174 substrate binding site [chemical binding]; other site 479437009175 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 479437009176 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 479437009177 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 479437009178 ATP-grasp domain; Region: ATP-grasp_4; cl17255 479437009179 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 479437009180 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 479437009181 FeS/SAM binding site; other site 479437009182 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 479437009183 ParB-like nuclease domain; Region: ParBc; pfam02195 479437009184 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 479437009185 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 479437009186 P-loop; other site 479437009187 Magnesium ion binding site [ion binding]; other site 479437009188 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 479437009189 Magnesium ion binding site [ion binding]; other site 479437009190 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 479437009191 putative active site [active] 479437009192 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 479437009193 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 479437009194 S-adenosylmethionine binding site [chemical binding]; other site 479437009195 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 479437009196 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 479437009197 G-X-X-G motif; other site 479437009198 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 479437009199 RxxxH motif; other site 479437009200 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 479437009201 Haemolytic domain; Region: Haemolytic; pfam01809 479437009202 Ribonuclease P; Region: Ribonuclease_P; pfam00825