-- dump date 20140619_094250 -- class Genbank::misc_feature -- table misc_feature_note -- id note 717231000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 717231000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 717231000003 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 717231000004 Walker A motif; other site 717231000005 ATP binding site [chemical binding]; other site 717231000006 Walker B motif; other site 717231000007 arginine finger; other site 717231000008 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 717231000009 DnaA box-binding interface [nucleotide binding]; other site 717231000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 717231000011 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 717231000012 putative DNA binding surface [nucleotide binding]; other site 717231000013 dimer interface [polypeptide binding]; other site 717231000014 beta-clamp/translesion DNA polymerase binding surface; other site 717231000015 beta-clamp/clamp loader binding surface; other site 717231000016 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 717231000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231000018 Walker A/P-loop; other site 717231000019 ATP binding site [chemical binding]; other site 717231000020 Q-loop/lid; other site 717231000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231000022 ABC transporter signature motif; other site 717231000023 Walker B; other site 717231000024 D-loop; other site 717231000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 717231000026 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 717231000027 Mg2+ binding site [ion binding]; other site 717231000028 G-X-G motif; other site 717231000029 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 717231000030 anchoring element; other site 717231000031 dimer interface [polypeptide binding]; other site 717231000032 ATP binding site [chemical binding]; other site 717231000033 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 717231000034 active site 717231000035 putative metal-binding site [ion binding]; other site 717231000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 717231000037 DNA gyrase subunit A; Validated; Region: PRK05560 717231000038 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 717231000039 CAP-like domain; other site 717231000040 active site 717231000041 primary dimer interface [polypeptide binding]; other site 717231000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000047 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 717231000048 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 717231000049 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 717231000050 homodimer interface [polypeptide binding]; other site 717231000051 NADP binding site [chemical binding]; other site 717231000052 substrate binding site [chemical binding]; other site 717231000053 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 717231000054 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 717231000055 trmE is a tRNA modification GTPase; Region: trmE; cd04164 717231000056 G1 box; other site 717231000057 GTP/Mg2+ binding site [chemical binding]; other site 717231000058 Switch I region; other site 717231000059 G2 box; other site 717231000060 Switch II region; other site 717231000061 G3 box; other site 717231000062 G4 box; other site 717231000063 G5 box; other site 717231000064 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 717231000065 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 717231000066 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 717231000067 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 717231000068 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 717231000069 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 717231000070 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231000071 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 717231000072 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 717231000073 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 717231000074 putative FMN binding site [chemical binding]; other site 717231000075 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 717231000076 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231000077 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231000078 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 717231000079 RIP metalloprotease RseP; Region: TIGR00054 717231000080 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 717231000081 active site 717231000082 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 717231000083 protein binding site [polypeptide binding]; other site 717231000084 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 717231000085 putative substrate binding region [chemical binding]; other site 717231000086 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 717231000087 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 717231000088 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 717231000089 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 717231000090 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 717231000091 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 717231000092 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 717231000093 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 717231000094 catalytic residue [active] 717231000095 putative FPP diphosphate binding site; other site 717231000096 putative FPP binding hydrophobic cleft; other site 717231000097 dimer interface [polypeptide binding]; other site 717231000098 putative IPP diphosphate binding site; other site 717231000099 ribosome recycling factor; Reviewed; Region: frr; PRK00083 717231000100 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 717231000101 hinge region; other site 717231000102 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 717231000103 putative nucleotide binding site [chemical binding]; other site 717231000104 uridine monophosphate binding site [chemical binding]; other site 717231000105 homohexameric interface [polypeptide binding]; other site 717231000106 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 717231000107 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 717231000108 Catalytic site [active] 717231000109 GTP-binding protein LepA; Provisional; Region: PRK05433 717231000110 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 717231000111 G1 box; other site 717231000112 putative GEF interaction site [polypeptide binding]; other site 717231000113 GTP/Mg2+ binding site [chemical binding]; other site 717231000114 Switch I region; other site 717231000115 G2 box; other site 717231000116 G3 box; other site 717231000117 Switch II region; other site 717231000118 G4 box; other site 717231000119 G5 box; other site 717231000120 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 717231000121 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 717231000122 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 717231000123 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 717231000124 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 717231000125 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 717231000126 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 717231000127 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231000128 transposase/IS protein; Provisional; Region: PRK09183 717231000129 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 717231000130 Walker A motif; other site 717231000131 ATP binding site [chemical binding]; other site 717231000132 Walker B motif; other site 717231000133 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231000134 Integrase core domain; Region: rve; pfam00665 717231000135 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231000136 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 717231000137 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 717231000138 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 717231000139 dimer interface [polypeptide binding]; other site 717231000140 PYR/PP interface [polypeptide binding]; other site 717231000141 TPP binding site [chemical binding]; other site 717231000142 substrate binding site [chemical binding]; other site 717231000143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 717231000144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, beta subunit [Energy production and conversion]; Region: PorB; COG1013 717231000145 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 717231000146 TPP-binding site [chemical binding]; other site 717231000147 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231000148 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 717231000149 Acylphosphatase; Region: Acylphosphatase; pfam00708 717231000150 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 717231000151 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 717231000152 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 717231000153 thiamine phosphate binding site [chemical binding]; other site 717231000154 active site 717231000155 pyrophosphate binding site [ion binding]; other site 717231000156 thiamine-monophosphate kinase; Region: thiL; TIGR01379 717231000157 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 717231000158 ATP binding site [chemical binding]; other site 717231000159 dimerization interface [polypeptide binding]; other site 717231000160 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 717231000161 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231000162 Uncharacterized conserved protein [Function unknown]; Region: COG1739 717231000163 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 717231000164 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 717231000165 glycogen binding site [chemical binding]; other site 717231000166 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231000167 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231000168 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 717231000169 DNA binding residues [nucleotide binding] 717231000170 EamA-like transporter family; Region: EamA; pfam00892 717231000171 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000172 pyruvate phosphate dikinase; Provisional; Region: PRK09279 717231000173 InterPro IPR002379; KEGG: gur:Gura_0419 H+-transporting two-sector ATPase, C subunit; PFAM: ATPase, F0/V0 complex, subunit C; SPTR: H+-transporting two-sector ATPase, C subunit 717231000174 ATP synthase subunit C; Region: ATP-synt_C; pfam00137 717231000175 V-type ATP synthase subunit E; Provisional; Region: PRK03963; cl17074 717231000176 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; pfam01990 717231000177 ATP synthase archaeal, A subunit; Region: ATP_syn_A_arch; TIGR01043 717231000178 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 717231000179 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 717231000180 Walker A motif/ATP binding site; other site 717231000181 Walker B motif; other site 717231000182 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231000183 V-type ATP synthase subunit B; Provisional; Region: PRK04196 717231000184 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 717231000185 Walker A motif homologous position; other site 717231000186 Walker B motif; other site 717231000187 ATP synthase subunit D; Region: ATP-synt_D; pfam01813 717231000188 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 717231000189 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000190 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 717231000191 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 717231000192 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231000193 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231000194 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 717231000195 HlyD family secretion protein; Region: HlyD_3; pfam13437 717231000196 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231000197 Transposase domain (DUF772); Region: DUF772; pfam05598 717231000198 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231000199 COGs: COG2113 ABC-type proline/glycine betaine transport systems periplasmic components; InterPro IPR007210; KEGG: drt:Dret_1056 substrate-binding region of ABC-type glycine betaine transport system; PFAM: ABC-type glycine betaine transport system, substrate-binding region; SPTR: Substrate-binding region of ABC-type glycine betaine transport system 717231000200 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 717231000201 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 717231000202 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 717231000203 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 717231000204 active site 717231000205 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 717231000206 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000207 metal binding triad; other site 717231000208 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000209 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000210 metal binding triad; other site 717231000211 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000212 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 717231000213 thiamine phosphate binding site [chemical binding]; other site 717231000214 active site 717231000215 pyrophosphate binding site [ion binding]; other site 717231000216 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 717231000217 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231000218 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231000219 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 717231000220 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 717231000221 G1 box; other site 717231000222 GTP/Mg2+ binding site [chemical binding]; other site 717231000223 Switch I region; other site 717231000224 G2 box; other site 717231000225 G3 box; other site 717231000226 Switch II region; other site 717231000227 G4 box; other site 717231000228 G5 box; other site 717231000229 Nucleoside recognition; Region: Gate; pfam07670 717231000230 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 717231000231 Nucleoside recognition; Region: Gate; pfam07670 717231000232 FeoA domain; Region: FeoA; pfam04023 717231000233 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 717231000234 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 717231000235 ATP binding site [chemical binding]; other site 717231000236 active site 717231000237 substrate binding site [chemical binding]; other site 717231000238 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 717231000239 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231000240 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231000241 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 717231000242 active site residue [active] 717231000243 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 717231000244 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231000245 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 717231000246 FeS/SAM binding site; other site 717231000247 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000248 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 717231000249 metal binding triad; other site 717231000250 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000251 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231000252 Zn2+ binding site [ion binding]; other site 717231000253 Mg2+ binding site [ion binding]; other site 717231000254 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231000255 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 717231000256 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 717231000257 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 717231000258 Protein export membrane protein; Region: SecD_SecF; pfam02355 717231000259 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 717231000260 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 717231000261 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 717231000262 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 717231000263 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 717231000264 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 717231000265 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 717231000266 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 717231000267 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 717231000268 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000269 catalytic residue [active] 717231000270 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 717231000271 active site 717231000272 multimer interface [polypeptide binding]; other site 717231000273 Cupin domain; Region: Cupin_2; pfam07883 717231000274 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 717231000275 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 717231000276 homotrimer interaction site [polypeptide binding]; other site 717231000277 zinc binding site [ion binding]; other site 717231000278 CDP-binding sites; other site 717231000279 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 717231000280 pyruvate phosphate dikinase; Provisional; Region: PRK09279 717231000281 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231000282 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231000283 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 717231000284 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 717231000285 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 717231000286 dimer interface [polypeptide binding]; other site 717231000287 phosphorylation site [posttranslational modification] 717231000288 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 717231000289 ATP binding site [chemical binding]; other site 717231000290 Mg2+ binding site [ion binding]; other site 717231000291 G-X-G motif; other site 717231000292 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000293 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000294 active site 717231000295 phosphorylation site [posttranslational modification] 717231000296 intermolecular recognition site; other site 717231000297 dimerization interface [polypeptide binding]; other site 717231000298 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 717231000299 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 717231000300 S-adenosylmethionine binding site [chemical binding]; other site 717231000301 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 717231000302 feedback inhibition sensing region; other site 717231000303 homohexameric interface [polypeptide binding]; other site 717231000304 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 717231000305 nucleotide binding site [chemical binding]; other site 717231000306 N-acetyl-L-glutamate binding site [chemical binding]; other site 717231000307 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 717231000308 Ligand Binding Site [chemical binding]; other site 717231000309 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 717231000310 Ligand Binding Site [chemical binding]; other site 717231000311 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000313 active site 717231000314 phosphorylation site [posttranslational modification] 717231000315 intermolecular recognition site; other site 717231000316 dimerization interface [polypeptide binding]; other site 717231000317 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 717231000318 active site 717231000319 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 717231000320 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 717231000321 active site 717231000322 HIGH motif; other site 717231000323 KMSKS motif; other site 717231000324 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 717231000325 tRNA binding surface [nucleotide binding]; other site 717231000326 anticodon binding site; other site 717231000327 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 717231000328 dimer interface [polypeptide binding]; other site 717231000329 putative tRNA-binding site [nucleotide binding]; other site 717231000330 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 717231000331 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 717231000332 DNA polymerase III subunit delta'; Validated; Region: PRK08485 717231000333 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 717231000334 thymidylate kinase; Validated; Region: tmk; PRK00698 717231000335 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 717231000336 TMP-binding site; other site 717231000337 ATP-binding site [chemical binding]; other site 717231000338 MOSC domain; Region: MOSC; pfam03473 717231000339 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 717231000340 MPT binding site; other site 717231000341 trimer interface [polypeptide binding]; other site 717231000342 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 717231000343 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 717231000344 active site 717231000345 substrate binding site [chemical binding]; other site 717231000346 cosubstrate binding site; other site 717231000347 catalytic site [active] 717231000348 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 717231000349 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 717231000350 dimerization interface [polypeptide binding]; other site 717231000351 putative ATP binding site [chemical binding]; other site 717231000352 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000353 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000354 active site 717231000355 phosphorylation site [posttranslational modification] 717231000356 intermolecular recognition site; other site 717231000357 dimerization interface [polypeptide binding]; other site 717231000358 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 717231000359 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 717231000360 putative binding surface; other site 717231000361 active site 717231000362 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 717231000363 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 717231000364 ATP binding site [chemical binding]; other site 717231000365 Mg2+ binding site [ion binding]; other site 717231000366 G-X-G motif; other site 717231000367 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 717231000368 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000370 active site 717231000371 phosphorylation site [posttranslational modification] 717231000372 intermolecular recognition site; other site 717231000373 dimerization interface [polypeptide binding]; other site 717231000374 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 717231000375 dimerization interface [polypeptide binding]; other site 717231000376 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 717231000377 dimerization interface [polypeptide binding]; other site 717231000378 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 717231000379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 717231000380 dimer interface [polypeptide binding]; other site 717231000381 putative CheW interface [polypeptide binding]; other site 717231000382 CheW-like domain; Region: CheW; pfam01584 717231000383 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000384 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000385 active site 717231000386 phosphorylation site [posttranslational modification] 717231000387 intermolecular recognition site; other site 717231000388 dimerization interface [polypeptide binding]; other site 717231000389 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000391 active site 717231000392 phosphorylation site [posttranslational modification] 717231000393 intermolecular recognition site; other site 717231000394 dimerization interface [polypeptide binding]; other site 717231000395 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 717231000396 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 717231000397 active site 717231000398 (T/H)XGH motif; other site 717231000399 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 717231000400 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 717231000401 S-adenosylmethionine binding site [chemical binding]; other site 717231000402 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 717231000403 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231000404 FeS/SAM binding site; other site 717231000405 ribonuclease III; Reviewed; Region: rnc; PRK00102 717231000406 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 717231000407 dimerization interface [polypeptide binding]; other site 717231000408 active site 717231000409 metal binding site [ion binding]; metal-binding site 717231000410 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 717231000411 dsRNA binding site [nucleotide binding]; other site 717231000412 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 717231000413 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 717231000414 dimer interface [polypeptide binding]; other site 717231000415 active site 717231000416 acyl carrier protein; Provisional; Region: acpP; PRK00982 717231000417 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 717231000418 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 717231000419 NAD(P) binding site [chemical binding]; other site 717231000420 homotetramer interface [polypeptide binding]; other site 717231000421 homodimer interface [polypeptide binding]; other site 717231000422 active site 717231000423 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 717231000424 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 717231000425 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 717231000426 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 717231000427 dimer interface [polypeptide binding]; other site 717231000428 active site 717231000429 CoA binding pocket [chemical binding]; other site 717231000430 putative phosphate acyltransferase; Provisional; Region: PRK05331 717231000431 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 717231000432 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 717231000433 aminotransferase AlaT; Validated; Region: PRK09265 717231000434 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 717231000435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000436 homodimer interface [polypeptide binding]; other site 717231000437 catalytic residue [active] 717231000438 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 717231000439 putative hydrophobic ligand binding site [chemical binding]; other site 717231000440 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 717231000441 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 717231000442 Substrate binding site; other site 717231000443 Mg++ binding site; other site 717231000444 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 717231000445 active site 717231000446 substrate binding site [chemical binding]; other site 717231000447 CoA binding site [chemical binding]; other site 717231000448 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 717231000449 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 717231000450 glutaminase active site [active] 717231000451 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 717231000452 dimer interface [polypeptide binding]; other site 717231000453 active site 717231000454 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 717231000455 dimer interface [polypeptide binding]; other site 717231000456 active site 717231000457 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 717231000458 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 717231000459 Cl- selectivity filter; other site 717231000460 Cl- binding residues [ion binding]; other site 717231000461 pore gating glutamate residue; other site 717231000462 dimer interface [polypeptide binding]; other site 717231000463 FOG: CBS domain [General function prediction only]; Region: COG0517 717231000464 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 717231000465 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 717231000466 Part of AAA domain; Region: AAA_19; pfam13245 717231000467 Family description; Region: UvrD_C_2; pfam13538 717231000468 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 717231000469 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 717231000470 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 717231000471 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl15777 717231000472 putative active site pocket [active] 717231000473 dimerization interface [polypeptide binding]; other site 717231000474 putative catalytic residue [active] 717231000475 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 717231000476 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 717231000477 GatB domain; Region: GatB_Yqey; smart00845 717231000478 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 717231000479 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 717231000480 dimer interface [polypeptide binding]; other site 717231000481 substrate binding site [chemical binding]; other site 717231000482 metal binding site [ion binding]; metal-binding site 717231000483 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 717231000484 active site residue [active] 717231000485 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 717231000486 active site residue [active] 717231000487 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 717231000488 active site residue [active] 717231000489 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 717231000490 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 717231000491 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000492 KEGG: mtt:Ftrac_2057 hypothetical protein; SPTR: Putative uncharacterized protein 717231000493 peptide chain release factor 1; Provisional; Region: PRK04011 717231000494 COGs: COG5421 Transposase; KEGG: msv:Mesil_3173 transposase IS4 family protein; SPTR: Transposase IS4 family protein 717231000495 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000496 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000497 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 717231000498 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 717231000499 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 717231000500 Transposase domain (DUF772); Region: DUF772; pfam05598 717231000501 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231000502 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231000503 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231000504 Protein export membrane protein; Region: SecD_SecF; cl14618 717231000505 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231000506 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 717231000507 Outer membrane efflux protein; Region: OEP; pfam02321 717231000508 Outer membrane efflux protein; Region: OEP; pfam02321 717231000509 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 717231000510 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 717231000511 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 717231000512 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 717231000513 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231000514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231000515 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000516 EamA-like transporter family; Region: EamA; cl17759 717231000517 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000518 EamA-like transporter family; Region: EamA; pfam00892 717231000519 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 717231000520 FMN binding site [chemical binding]; other site 717231000521 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000522 Uncharacterized conserved protein [Function unknown]; Region: COG3189 717231000523 trigger factor; Provisional; Region: tig; PRK01490 717231000524 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 717231000525 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 717231000526 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 717231000527 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 717231000528 oligomer interface [polypeptide binding]; other site 717231000529 active site residues [active] 717231000530 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 717231000531 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 717231000532 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 717231000533 Walker A motif; other site 717231000534 ATP binding site [chemical binding]; other site 717231000535 Walker B motif; other site 717231000536 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 717231000537 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 717231000538 Found in ATP-dependent protease La (LON); Region: LON; smart00464 717231000539 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 717231000540 Walker A motif; other site 717231000541 ATP binding site [chemical binding]; other site 717231000542 Walker B motif; other site 717231000543 arginine finger; other site 717231000544 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 717231000545 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 717231000546 hypothetical protein; Provisional; Region: PRK04194 717231000547 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 717231000548 putative ADP-ribose binding site [chemical binding]; other site 717231000549 putative active site [active] 717231000550 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 717231000551 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 717231000552 Adenosylhomocysteinase; Provisional; Region: PTZ00075 717231000553 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 717231000554 homotetramer interface [polypeptide binding]; other site 717231000555 ligand binding site [chemical binding]; other site 717231000556 catalytic site [active] 717231000557 NAD binding site [chemical binding]; other site 717231000558 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 717231000559 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 717231000560 active site 717231000561 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231000562 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000563 KEGG: dap:Dacet_2898 hypothetical protein; SPTR: Putative uncharacterized protein 717231000564 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 717231000565 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 717231000566 hybrid cluster protein; Provisional; Region: PRK05290 717231000567 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 717231000568 ACS interaction site; other site 717231000569 CODH interaction site; other site 717231000570 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 717231000571 hybrid metal cluster; other site 717231000572 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 717231000573 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 717231000574 ligand binding site [chemical binding]; other site 717231000575 flexible hinge region; other site 717231000576 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 717231000577 non-specific DNA interactions [nucleotide binding]; other site 717231000578 DNA binding site [nucleotide binding] 717231000579 sequence specific DNA binding site [nucleotide binding]; other site 717231000580 putative cAMP binding site [chemical binding]; other site 717231000581 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 717231000582 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 717231000583 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 717231000584 intersubunit interface [polypeptide binding]; other site 717231000585 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 717231000586 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 717231000587 ABC-ATPase subunit interface; other site 717231000588 dimer interface [polypeptide binding]; other site 717231000589 putative PBP binding regions; other site 717231000590 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 717231000591 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 717231000592 Walker A/P-loop; other site 717231000593 ATP binding site [chemical binding]; other site 717231000594 Q-loop/lid; other site 717231000595 ABC transporter signature motif; other site 717231000596 Walker B; other site 717231000597 D-loop; other site 717231000598 H-loop/switch region; other site 717231000599 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 717231000600 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 717231000601 N-terminal plug; other site 717231000602 ligand-binding site [chemical binding]; other site 717231000603 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 717231000604 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 717231000605 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 717231000606 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 717231000607 CcmE; Region: CcmE; cl00994 717231000608 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231000609 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 717231000610 dimerization interface [polypeptide binding]; other site 717231000611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000612 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 717231000613 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 717231000614 DNA binding site [nucleotide binding] 717231000615 active site 717231000616 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cd00447 717231000617 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 717231000618 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 717231000619 S-adenosylmethionine binding site [chemical binding]; other site 717231000620 heat shock protein HtpX; Provisional; Region: PRK03982 717231000621 Protein of unknown function DUF116; Region: DUF116; pfam01976 717231000622 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 717231000623 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 717231000624 putative active site [active] 717231000625 substrate binding site [chemical binding]; other site 717231000626 putative cosubstrate binding site; other site 717231000627 catalytic site [active] 717231000628 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 717231000629 substrate binding site [chemical binding]; other site 717231000630 aspartate aminotransferase; Provisional; Region: PRK06290 717231000631 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 717231000632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000633 homodimer interface [polypeptide binding]; other site 717231000634 catalytic residue [active] 717231000635 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 717231000636 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 717231000637 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 717231000638 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 717231000639 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 717231000640 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 717231000641 dimer interface [polypeptide binding]; other site 717231000642 ssDNA binding site [nucleotide binding]; other site 717231000643 tetramer (dimer of dimers) interface [polypeptide binding]; other site 717231000644 Ribosomal protein S6; Region: Ribosomal_S6; pfam01250 717231000645 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231000646 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 717231000647 RNA binding surface [nucleotide binding]; other site 717231000648 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 717231000649 active site 717231000650 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 717231000651 NADH dehydrogenase subunit B; Validated; Region: PRK06411 717231000652 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 717231000653 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 717231000654 NADH dehydrogenase subunit D; Validated; Region: PRK06075 717231000655 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 717231000656 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 717231000657 putative dimer interface [polypeptide binding]; other site 717231000658 [2Fe-2S] cluster binding site [ion binding]; other site 717231000659 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 717231000660 dimer interface [polypeptide binding]; other site 717231000661 [2Fe-2S] cluster binding site [ion binding]; other site 717231000662 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 717231000663 SLBB domain; Region: SLBB; pfam10531 717231000664 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 717231000665 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231000666 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231000667 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 717231000668 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 717231000669 catalytic loop [active] 717231000670 iron binding site [ion binding]; other site 717231000671 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 717231000672 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 717231000673 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 717231000674 molybdopterin cofactor binding site; other site 717231000675 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 717231000676 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 717231000677 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 717231000678 4Fe-4S binding domain; Region: Fer4; cl02805 717231000679 4Fe-4S binding domain; Region: Fer4; pfam00037 717231000680 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 717231000681 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 717231000682 NADH dehydrogenase subunit J; Provisional; Region: PRK06439 717231000683 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 717231000684 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 717231000685 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 717231000686 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231000687 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 717231000688 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231000689 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 717231000690 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231000691 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 717231000692 diiron binding motif [ion binding]; other site 717231000693 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 717231000694 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 717231000695 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 717231000696 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 717231000697 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 717231000698 Substrate binding site; other site 717231000699 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 717231000700 Cation transport protein; Region: TrkH; cl17365 717231000701 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 717231000702 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 717231000703 TrkA-N domain; Region: TrkA_N; pfam02254 717231000704 TrkA-C domain; Region: TrkA_C; pfam02080 717231000705 TrkA-N domain; Region: TrkA_N; pfam02254 717231000706 TrkA-C domain; Region: TrkA_C; pfam02080 717231000707 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 717231000708 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 717231000709 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 717231000710 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 717231000711 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 717231000712 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 717231000713 DNA-binding site [nucleotide binding]; DNA binding site 717231000714 RNA-binding motif; other site 717231000715 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 717231000716 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 717231000717 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 717231000718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 717231000719 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 717231000720 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 717231000721 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 717231000722 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 717231000723 G1 box; other site 717231000724 putative GEF interaction site [polypeptide binding]; other site 717231000725 GTP/Mg2+ binding site [chemical binding]; other site 717231000726 Switch I region; other site 717231000727 G2 box; other site 717231000728 G3 box; other site 717231000729 Switch II region; other site 717231000730 G4 box; other site 717231000731 G5 box; other site 717231000732 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 717231000733 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 717231000734 Predicted membrane protein [Function unknown]; Region: COG3671 717231000735 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 717231000736 Na binding site [ion binding]; other site 717231000737 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 717231000738 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 717231000739 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 717231000740 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 717231000741 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 717231000742 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 717231000743 Family description; Region: VCBS; pfam13517 717231000744 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 717231000745 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 717231000746 homodimer interface [polypeptide binding]; other site 717231000747 substrate-cofactor binding pocket; other site 717231000748 catalytic residue [active] 717231000749 Acylphosphatase; Region: Acylphosphatase; pfam00708 717231000750 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 717231000751 HypF finger; Region: zf-HYPF; pfam07503 717231000752 HypF finger; Region: zf-HYPF; pfam07503 717231000753 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 717231000754 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 717231000755 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 717231000756 S-adenosylmethionine binding site [chemical binding]; other site 717231000757 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 717231000758 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231000759 Zn2+ binding site [ion binding]; other site 717231000760 Mg2+ binding site [ion binding]; other site 717231000761 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 717231000762 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 717231000763 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000764 EamA-like transporter family; Region: EamA; pfam00892 717231000765 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 717231000766 EamA-like transporter family; Region: EamA; pfam00892 717231000767 EamA-like transporter family; Region: EamA; pfam00892 717231000768 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 717231000769 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 717231000770 propionate/acetate kinase; Provisional; Region: PRK12379 717231000771 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 717231000772 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 717231000773 Walker A/P-loop; other site 717231000774 ATP binding site [chemical binding]; other site 717231000775 Q-loop/lid; other site 717231000776 ABC transporter signature motif; other site 717231000777 Walker B; other site 717231000778 D-loop; other site 717231000779 H-loop/switch region; other site 717231000780 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 717231000781 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231000782 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 717231000783 Walker A/P-loop; other site 717231000784 ATP binding site [chemical binding]; other site 717231000785 Q-loop/lid; other site 717231000786 ABC transporter signature motif; other site 717231000787 Walker B; other site 717231000788 D-loop; other site 717231000789 H-loop/switch region; other site 717231000790 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 717231000791 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 717231000792 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 717231000793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231000794 dimer interface [polypeptide binding]; other site 717231000795 conserved gate region; other site 717231000796 putative PBP binding loops; other site 717231000797 ABC-ATPase subunit interface; other site 717231000798 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 717231000799 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231000800 dimer interface [polypeptide binding]; other site 717231000801 conserved gate region; other site 717231000802 putative PBP binding loops; other site 717231000803 ABC-ATPase subunit interface; other site 717231000804 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 717231000805 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 717231000806 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 717231000807 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 717231000808 dimer interface [polypeptide binding]; other site 717231000809 putative functional site; other site 717231000810 putative MPT binding site; other site 717231000811 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231000812 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 717231000813 active site 717231000814 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 717231000815 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 717231000816 FeS/SAM binding site; other site 717231000817 HemN C-terminal domain; Region: HemN_C; pfam06969 717231000818 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 717231000819 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 717231000820 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 717231000821 Walker A/P-loop; other site 717231000822 ATP binding site [chemical binding]; other site 717231000823 Q-loop/lid; other site 717231000824 ABC transporter signature motif; other site 717231000825 Walker B; other site 717231000826 D-loop; other site 717231000827 H-loop/switch region; other site 717231000828 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000829 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 717231000830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000831 active site 717231000832 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 717231000833 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 717231000834 putative metal binding site; other site 717231000835 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 717231000836 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 717231000837 substrate binding site; other site 717231000838 tetramer interface; other site 717231000839 COGs: COG2227 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1 4-benzoquinol methylase; InterPro IPR013217; KEGG: csc:Csac_1682 methyltransferase type 11; PFAM: Methyltransferase type 12; SPTR: 3-demethylubiquinone-9 3-methyltransferase 717231000840 Methyltransferase domain; Region: Methyltransf_23; pfam13489 717231000841 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 717231000842 S-adenosylmethionine binding site [chemical binding]; other site 717231000843 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000844 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 717231000845 putative ADP-binding pocket [chemical binding]; other site 717231000846 O-Antigen ligase; Region: Wzy_C; pfam04932 717231000847 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 717231000848 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 717231000849 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 717231000850 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000851 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 717231000852 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 717231000853 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000854 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 717231000855 putative ADP-binding pocket [chemical binding]; other site 717231000856 KEGG: ddf:DEFDS_0340 hypothetical protein; SPTR: Putative uncharacterized protein 717231000857 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 717231000858 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231000859 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 717231000860 putative active site [active] 717231000861 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231000862 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 717231000863 dimerization interface [polypeptide binding]; other site 717231000864 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 717231000865 dimer interface [polypeptide binding]; other site 717231000866 phosphorylation site [posttranslational modification] 717231000867 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 717231000868 ATP binding site [chemical binding]; other site 717231000869 Mg2+ binding site [ion binding]; other site 717231000870 G-X-G motif; other site 717231000871 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 717231000872 Ligand binding site; other site 717231000873 Putative Catalytic site; other site 717231000874 DXD motif; other site 717231000875 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 717231000876 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 717231000877 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 717231000878 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 717231000879 FMN binding site [chemical binding]; other site 717231000880 dimer interface [polypeptide binding]; other site 717231000881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231000882 DNA-binding site [nucleotide binding]; DNA binding site 717231000883 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 717231000884 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 717231000885 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 717231000886 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 717231000887 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 717231000888 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 717231000889 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231000890 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 717231000891 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 717231000892 DctM-like transporters; Region: DctM; pfam06808 717231000893 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231000894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231000895 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 717231000896 dimer interface [polypeptide binding]; other site 717231000897 phosphorylation site [posttranslational modification] 717231000898 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 717231000899 ATP binding site [chemical binding]; other site 717231000900 Mg2+ binding site [ion binding]; other site 717231000901 G-X-G motif; other site 717231000902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000903 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 717231000904 active site 717231000905 phosphorylation site [posttranslational modification] 717231000906 intermolecular recognition site; other site 717231000907 dimerization interface [polypeptide binding]; other site 717231000908 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 717231000909 DNA binding site [nucleotide binding] 717231000910 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231000911 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231000912 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 717231000913 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231000914 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 717231000915 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 717231000916 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 717231000917 [4Fe-4S] binding site [ion binding]; other site 717231000918 molybdopterin cofactor binding site; other site 717231000919 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 717231000920 molybdopterin cofactor binding site; other site 717231000921 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231000922 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 717231000923 heme-binding residues [chemical binding]; other site 717231000924 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 717231000925 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231000926 active site 717231000927 catalytic site [active] 717231000928 substrate binding site [chemical binding]; other site 717231000929 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 717231000930 AIR carboxylase; Region: AIRC; smart01001 717231000931 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 717231000932 FtsJ-like methyltransferase; Region: FtsJ; cl17430 717231000933 ribonuclease G; Provisional; Region: PRK11712 717231000934 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 717231000935 homodimer interface [polypeptide binding]; other site 717231000936 oligonucleotide binding site [chemical binding]; other site 717231000937 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 717231000938 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 717231000939 G1 box; other site 717231000940 GTP/Mg2+ binding site [chemical binding]; other site 717231000941 G2 box; other site 717231000942 Switch I region; other site 717231000943 G3 box; other site 717231000944 Switch II region; other site 717231000945 G4 box; other site 717231000946 G5 box; other site 717231000947 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 717231000948 recombination protein RecR; Reviewed; Region: recR; PRK00076 717231000949 RecR protein; Region: RecR; pfam02132 717231000950 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 717231000951 putative active site [active] 717231000952 putative metal-binding site [ion binding]; other site 717231000953 tetramer interface [polypeptide binding]; other site 717231000954 hypothetical protein; Validated; Region: PRK00153 717231000955 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 717231000956 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 717231000957 Walker A motif; other site 717231000958 ATP binding site [chemical binding]; other site 717231000959 Walker B motif; other site 717231000960 arginine finger; other site 717231000961 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231000962 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 717231000963 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231000964 substrate binding pocket [chemical binding]; other site 717231000965 membrane-bound complex binding site; other site 717231000966 hinge residues; other site 717231000967 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231000968 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231000969 dimer interface [polypeptide binding]; other site 717231000970 conserved gate region; other site 717231000971 putative PBP binding loops; other site 717231000972 ABC-ATPase subunit interface; other site 717231000973 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 717231000974 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 717231000975 Walker A/P-loop; other site 717231000976 ATP binding site [chemical binding]; other site 717231000977 Q-loop/lid; other site 717231000978 ABC transporter signature motif; other site 717231000979 Walker B; other site 717231000980 D-loop; other site 717231000981 H-loop/switch region; other site 717231000982 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 717231000983 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 717231000984 catalytic loop [active] 717231000985 iron binding site [ion binding]; other site 717231000986 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000988 active site 717231000989 phosphorylation site [posttranslational modification] 717231000990 intermolecular recognition site; other site 717231000991 dimerization interface [polypeptide binding]; other site 717231000992 Sm and related proteins; Region: Sm_like; cl00259 717231000993 heptamer interface [polypeptide binding]; other site 717231000994 Sm1 motif; other site 717231000995 hexamer interface [polypeptide binding]; other site 717231000996 RNA binding site [nucleotide binding]; other site 717231000997 Sm2 motif; other site 717231000998 bacterial Hfq-like; Region: Hfq; cd01716 717231000999 hexamer interface [polypeptide binding]; other site 717231001000 Sm1 motif; other site 717231001001 RNA binding site [nucleotide binding]; other site 717231001002 Sm2 motif; other site 717231001003 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231001004 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231001005 active site 717231001006 NTP binding site [chemical binding]; other site 717231001007 metal binding triad [ion binding]; metal-binding site 717231001008 antibiotic binding site [chemical binding]; other site 717231001009 Uncharacterized conserved protein [Function unknown]; Region: COG2361 717231001010 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 717231001011 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231001012 Walker A motif; other site 717231001013 ATP binding site [chemical binding]; other site 717231001014 Walker B motif; other site 717231001015 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 717231001016 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 717231001017 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 717231001018 transmembrane helices; other site 717231001019 TrkA-C domain; Region: TrkA_C; pfam02080 717231001020 TrkA-C domain; Region: TrkA_C; pfam02080 717231001021 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 717231001022 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 717231001023 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 717231001024 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 717231001025 active site 717231001026 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 717231001027 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 717231001028 Active Sites [active] 717231001029 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001030 four helix bundle protein; Region: TIGR02436 717231001031 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 717231001032 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 717231001033 CysD dimerization site [polypeptide binding]; other site 717231001034 G1 box; other site 717231001035 putative GEF interaction site [polypeptide binding]; other site 717231001036 GTP/Mg2+ binding site [chemical binding]; other site 717231001037 Switch I region; other site 717231001038 G2 box; other site 717231001039 G3 box; other site 717231001040 Switch II region; other site 717231001041 G4 box; other site 717231001042 G5 box; other site 717231001043 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 717231001044 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 717231001045 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 717231001046 ligand-binding site [chemical binding]; other site 717231001047 putative transposase OrfB; Reviewed; Region: PHA02517 717231001048 Integrase core domain; Region: rve; pfam00665 717231001049 Integrase core domain; Region: rve_3; pfam13683 717231001050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 717231001051 Transposase; Region: HTH_Tnp_1; pfam01527 717231001052 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231001053 active site 717231001054 NTP binding site [chemical binding]; other site 717231001055 metal binding triad [ion binding]; metal-binding site 717231001056 antibiotic binding site [chemical binding]; other site 717231001057 Protein of unknown function DUF86; Region: DUF86; cl01031 717231001058 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231001059 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 717231001060 putative substrate translocation pore; other site 717231001061 Major Facilitator Superfamily; Region: MFS_1; pfam07690 717231001062 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 717231001063 diiron binding motif [ion binding]; other site 717231001064 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 717231001065 FOG: CBS domain [General function prediction only]; Region: COG0517 717231001066 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 717231001067 Cupin domain; Region: Cupin_2; cl17218 717231001068 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 717231001069 Major Facilitator Superfamily; Region: MFS_1; pfam07690 717231001070 putative substrate translocation pore; other site 717231001071 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 717231001072 active site 1 [active] 717231001073 dimer interface [polypeptide binding]; other site 717231001074 hexamer interface [polypeptide binding]; other site 717231001075 active site 2 [active] 717231001076 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 717231001077 homodimer interaction site [polypeptide binding]; other site 717231001078 cofactor binding site; other site 717231001079 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 717231001080 dimerization interface [polypeptide binding]; other site 717231001081 putative DNA binding site [nucleotide binding]; other site 717231001082 putative Zn2+ binding site [ion binding]; other site 717231001083 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 717231001084 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231001085 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 717231001086 HlyD family secretion protein; Region: HlyD_3; pfam13437 717231001087 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231001088 Protein export membrane protein; Region: SecD_SecF; cl14618 717231001089 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 717231001090 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 717231001091 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 717231001092 putative substrate translocation pore; other site 717231001093 hypothetical protein; Provisional; Region: PRK10279 717231001094 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231001095 active site 717231001096 nucleophile elbow; other site 717231001097 Transcriptional regulators [Transcription]; Region: GntR; COG1802 717231001098 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231001099 DNA-binding site [nucleotide binding]; DNA binding site 717231001100 FCD domain; Region: FCD; pfam07729 717231001101 Transcriptional regulators [Transcription]; Region: FadR; COG2186 717231001102 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231001103 DNA-binding site [nucleotide binding]; DNA binding site 717231001104 FCD domain; Region: FCD; pfam07729 717231001105 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 717231001106 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 717231001107 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 717231001108 putative active site [active] 717231001109 catalytic triad [active] 717231001110 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 717231001111 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 717231001112 dimerization interface [polypeptide binding]; other site 717231001113 ATP binding site [chemical binding]; other site 717231001114 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 717231001115 dimerization interface [polypeptide binding]; other site 717231001116 ATP binding site [chemical binding]; other site 717231001117 amidophosphoribosyltransferase; Provisional; Region: PRK09123 717231001118 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 717231001119 active site 717231001120 tetramer interface [polypeptide binding]; other site 717231001121 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231001122 active site 717231001123 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 717231001124 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 717231001125 S-adenosylmethionine binding site [chemical binding]; other site 717231001126 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 717231001127 Peptidase family U32; Region: Peptidase_U32; pfam01136 717231001128 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 717231001129 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 717231001130 nucleotide binding pocket [chemical binding]; other site 717231001131 K-X-D-G motif; other site 717231001132 catalytic site [active] 717231001133 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 717231001134 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 717231001135 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 717231001136 Dimer interface [polypeptide binding]; other site 717231001137 Kinase/pyrophosphorylase; Region: Kinase-PPPase; pfam03618 717231001138 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231001140 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001141 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001142 KEGG: sus:Acid_4465 transposase IS116/IS110/IS902 family protein; SPTR: Transposase IS116/IS110/IS902 family protein; manually curated 717231001143 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231001145 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001146 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 717231001147 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 717231001148 Putative capsular polysaccharide synthesis protein; Region: NKWYS; pfam10364 717231001149 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231001150 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 717231001151 O-Antigen ligase; Region: Wzy_C; pfam04932 717231001152 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 717231001153 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 717231001154 active site 717231001155 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 717231001156 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 717231001157 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 717231001158 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 717231001159 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001160 four helix bundle protein; Region: TIGR02436 717231001161 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 717231001162 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 717231001163 NAD(P) binding site [chemical binding]; other site 717231001164 homodimer interface [polypeptide binding]; other site 717231001165 substrate binding site [chemical binding]; other site 717231001166 active site 717231001167 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 717231001168 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 717231001169 inhibitor-cofactor binding pocket; inhibition site 717231001170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001171 catalytic residue [active] 717231001172 Bacterial sugar transferase; Region: Bac_transf; pfam02397 717231001173 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 717231001174 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 717231001175 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 717231001176 metal-binding site 717231001177 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 717231001178 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 717231001179 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 717231001180 active site 717231001181 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 717231001182 metal-binding site 717231001183 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 717231001184 colanic acid exporter; Provisional; Region: PRK10459 717231001185 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 717231001186 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 717231001187 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 717231001188 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 717231001189 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 717231001190 inhibitor-cofactor binding pocket; inhibition site 717231001191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001192 catalytic residue [active] 717231001193 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 717231001194 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 717231001195 substrate binding site; other site 717231001196 tetramer interface; other site 717231001197 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001198 four helix bundle protein; Region: TIGR02436 717231001199 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001200 four helix bundle protein; Region: TIGR02436 717231001201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001202 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 717231001203 NAD(P) binding site [chemical binding]; other site 717231001204 active site 717231001205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001206 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001207 four helix bundle protein; Region: TIGR02436 717231001208 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 717231001209 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 717231001210 NADP-binding site; other site 717231001211 homotetramer interface [polypeptide binding]; other site 717231001212 substrate binding site [chemical binding]; other site 717231001213 homodimer interface [polypeptide binding]; other site 717231001214 active site 717231001215 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231001216 four helix bundle protein; Region: TIGR02436 717231001217 HEPN domain; Region: HEPN; pfam05168 717231001218 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231001219 active site 717231001220 NTP binding site [chemical binding]; other site 717231001221 metal binding triad [ion binding]; metal-binding site 717231001222 antibiotic binding site [chemical binding]; other site 717231001223 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 717231001224 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 717231001225 NAD binding site [chemical binding]; other site 717231001226 homodimer interface [polypeptide binding]; other site 717231001227 active site 717231001228 substrate binding site [chemical binding]; other site 717231001229 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231001230 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231001231 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231001232 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 717231001233 acyl-activating enzyme (AAE) consensus motif; other site 717231001234 putative AMP binding site [chemical binding]; other site 717231001235 putative active site [active] 717231001236 putative CoA binding site [chemical binding]; other site 717231001237 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 717231001238 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 717231001239 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 717231001240 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 717231001241 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 717231001242 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 717231001243 substrate binding site [chemical binding]; other site 717231001244 oxyanion hole (OAH) forming residues; other site 717231001245 trimer interface [polypeptide binding]; other site 717231001246 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 717231001247 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 717231001248 dimer interface [polypeptide binding]; other site 717231001249 active site 717231001250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 717231001251 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 717231001252 active site 717231001253 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231001254 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 717231001255 active site 717231001256 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 717231001257 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 717231001258 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 717231001259 substrate binding site [chemical binding]; other site 717231001260 oxyanion hole (OAH) forming residues; other site 717231001261 trimer interface [polypeptide binding]; other site 717231001262 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 717231001263 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 717231001264 FAD binding site [chemical binding]; other site 717231001265 homotetramer interface [polypeptide binding]; other site 717231001266 substrate binding pocket [chemical binding]; other site 717231001267 catalytic base [active] 717231001268 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 717231001269 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231001270 Cysteine-rich domain; Region: CCG; pfam02754 717231001271 Cysteine-rich domain; Region: CCG; pfam02754 717231001272 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 717231001273 Ligand binding site [chemical binding]; other site 717231001274 Electron transfer flavoprotein domain; Region: ETF; pfam01012 717231001275 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 717231001276 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 717231001277 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 717231001278 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 717231001279 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 717231001280 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 717231001281 Protein of unknown function (DUF342); Region: DUF342; pfam03961 717231001282 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 717231001283 DNA photolyase; Region: DNA_photolyase; pfam00875 717231001284 Transcriptional regulator; Region: Rrf2; pfam02082 717231001285 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231001286 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 717231001287 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 717231001288 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 717231001289 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 717231001290 DNA methylase; Region: N6_N4_Mtase; cl17433 717231001291 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 717231001292 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231001293 Zn2+ binding site [ion binding]; other site 717231001294 Mg2+ binding site [ion binding]; other site 717231001295 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 717231001296 HNH endonuclease; Region: HNH_2; pfam13391 717231001297 Integrase; Region: Integrase_1; pfam12835 717231001298 Helix-turn-helix domain; Region: HTH_17; cl17695 717231001299 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 717231001300 Phage integrase family; Region: Phage_integrase; pfam00589 717231001301 active site 717231001302 DNA binding site [nucleotide binding] 717231001303 Int/Topo IB signature motif; other site 717231001304 LigD_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: LigD_Pol_like; cd04861 717231001305 nucleotide binding site [chemical binding]; other site 717231001306 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 717231001307 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 717231001308 DNA binding site [nucleotide binding] 717231001309 catalytic residue [active] 717231001310 H2TH interface [polypeptide binding]; other site 717231001311 putative catalytic residues [active] 717231001312 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 717231001313 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 717231001314 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 717231001315 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 717231001316 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 717231001317 catalytic loop [active] 717231001318 iron binding site [ion binding]; other site 717231001319 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 717231001320 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 717231001321 molybdopterin cofactor binding site; other site 717231001322 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231001323 Transposase domain (DUF772); Region: DUF772; pfam05598 717231001324 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 717231001325 Amidohydrolase; Region: Amidohydro_5; pfam13594 717231001326 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 717231001327 active site 717231001328 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 717231001329 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 717231001330 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001331 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231001332 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001333 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 717231001334 KEGG: dat:HRM2_44020 hypothetical protein; SPTR: Putative uncharacterized protein 717231001335 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001336 DNA polymerase I; Provisional; Region: PRK05755 717231001337 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 717231001338 active site 717231001339 metal binding site 1 [ion binding]; metal-binding site 717231001340 putative 5' ssDNA interaction site; other site 717231001341 metal binding site 3; metal-binding site 717231001342 metal binding site 2 [ion binding]; metal-binding site 717231001343 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 717231001344 putative DNA binding site [nucleotide binding]; other site 717231001345 putative metal binding site [ion binding]; other site 717231001346 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 717231001347 active site 717231001348 DNA binding site [nucleotide binding] 717231001349 catalytic site [active] 717231001350 GAF domain; Region: GAF; cl17456 717231001351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231001352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231001353 metal binding site [ion binding]; metal-binding site 717231001354 active site 717231001355 I-site; other site 717231001356 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 717231001357 histidinol dehydrogenase; Region: hisD; TIGR00069 717231001358 NAD binding site [chemical binding]; other site 717231001359 dimerization interface [polypeptide binding]; other site 717231001360 product binding site; other site 717231001361 substrate binding site [chemical binding]; other site 717231001362 zinc binding site [ion binding]; other site 717231001363 catalytic residues [active] 717231001364 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 717231001365 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 717231001366 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231001367 catalytic residue [active] 717231001368 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 717231001369 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 717231001370 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 717231001371 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 717231001372 elongation factor Tu; Reviewed; Region: PRK00049 717231001373 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 717231001374 G1 box; other site 717231001375 GEF interaction site [polypeptide binding]; other site 717231001376 GTP/Mg2+ binding site [chemical binding]; other site 717231001377 Switch I region; other site 717231001378 G2 box; other site 717231001379 G3 box; other site 717231001380 Switch II region; other site 717231001381 G4 box; other site 717231001382 G5 box; other site 717231001383 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 717231001384 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 717231001385 Antibiotic Binding Site [chemical binding]; other site 717231001386 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 717231001387 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 717231001388 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 717231001389 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 717231001390 putative homodimer interface [polypeptide binding]; other site 717231001391 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 717231001392 heterodimer interface [polypeptide binding]; other site 717231001393 homodimer interface [polypeptide binding]; other site 717231001394 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 717231001395 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 717231001396 23S rRNA interface [nucleotide binding]; other site 717231001397 L7/L12 interface [polypeptide binding]; other site 717231001398 putative thiostrepton binding site; other site 717231001399 L25 interface [polypeptide binding]; other site 717231001400 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 717231001401 mRNA/rRNA interface [nucleotide binding]; other site 717231001402 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 717231001403 23S rRNA interface [nucleotide binding]; other site 717231001404 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 717231001405 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 717231001406 core dimer interface [polypeptide binding]; other site 717231001407 peripheral dimer interface [polypeptide binding]; other site 717231001408 L10 interface [polypeptide binding]; other site 717231001409 L11 interface [polypeptide binding]; other site 717231001410 putative EF-Tu interaction site [polypeptide binding]; other site 717231001411 putative EF-G interaction site [polypeptide binding]; other site 717231001412 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 717231001413 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 717231001414 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 717231001415 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 717231001416 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 717231001417 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 717231001418 RPB3 interaction site [polypeptide binding]; other site 717231001419 RPB1 interaction site [polypeptide binding]; other site 717231001420 RPB11 interaction site [polypeptide binding]; other site 717231001421 RPB10 interaction site [polypeptide binding]; other site 717231001422 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 717231001423 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 717231001424 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 717231001425 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 717231001426 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 717231001427 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 717231001428 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 717231001429 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 717231001430 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 717231001431 DNA binding site [nucleotide binding] 717231001432 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 717231001433 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 717231001434 S17 interaction site [polypeptide binding]; other site 717231001435 S8 interaction site; other site 717231001436 16S rRNA interaction site [nucleotide binding]; other site 717231001437 streptomycin interaction site [chemical binding]; other site 717231001438 23S rRNA interaction site [nucleotide binding]; other site 717231001439 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 717231001440 30S ribosomal protein S7; Validated; Region: PRK05302 717231001441 elongation factor G; Reviewed; Region: PRK00007 717231001442 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 717231001443 G1 box; other site 717231001444 putative GEF interaction site [polypeptide binding]; other site 717231001445 GTP/Mg2+ binding site [chemical binding]; other site 717231001446 Switch I region; other site 717231001447 G2 box; other site 717231001448 G3 box; other site 717231001449 Switch II region; other site 717231001450 G4 box; other site 717231001451 G5 box; other site 717231001452 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 717231001453 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 717231001454 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 717231001455 elongation factor Tu; Reviewed; Region: PRK00049 717231001456 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 717231001457 G1 box; other site 717231001458 GEF interaction site [polypeptide binding]; other site 717231001459 GTP/Mg2+ binding site [chemical binding]; other site 717231001460 Switch I region; other site 717231001461 G2 box; other site 717231001462 G3 box; other site 717231001463 Switch II region; other site 717231001464 G4 box; other site 717231001465 G5 box; other site 717231001466 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 717231001467 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 717231001468 Antibiotic Binding Site [chemical binding]; other site 717231001469 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 717231001470 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 717231001471 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 717231001472 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 717231001473 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 717231001474 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 717231001475 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 717231001476 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 717231001477 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 717231001478 putative translocon binding site; other site 717231001479 protein-rRNA interface [nucleotide binding]; other site 717231001480 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 717231001481 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 717231001482 G-X-X-G motif; other site 717231001483 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 717231001484 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 717231001485 23S rRNA interface [nucleotide binding]; other site 717231001486 5S rRNA interface [nucleotide binding]; other site 717231001487 putative antibiotic binding site [chemical binding]; other site 717231001488 L25 interface [polypeptide binding]; other site 717231001489 L27 interface [polypeptide binding]; other site 717231001490 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 717231001491 23S rRNA interface [nucleotide binding]; other site 717231001492 putative translocon interaction site; other site 717231001493 signal recognition particle (SRP54) interaction site; other site 717231001494 L23 interface [polypeptide binding]; other site 717231001495 trigger factor interaction site; other site 717231001496 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 717231001497 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 717231001498 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 717231001499 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 717231001500 RNA binding site [nucleotide binding]; other site 717231001501 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 717231001502 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 717231001503 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 717231001504 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 717231001505 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 717231001506 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 717231001507 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 717231001508 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 717231001509 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 717231001510 5S rRNA interface [nucleotide binding]; other site 717231001511 L27 interface [polypeptide binding]; other site 717231001512 23S rRNA interface [nucleotide binding]; other site 717231001513 L5 interface [polypeptide binding]; other site 717231001514 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 717231001515 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 717231001516 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 717231001517 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 717231001518 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 717231001519 SecY translocase; Region: SecY; pfam00344 717231001520 adenylate kinase; Reviewed; Region: adk; PRK00279 717231001521 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 717231001522 AMP-binding site [chemical binding]; other site 717231001523 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 717231001524 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 717231001525 active site 717231001526 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 717231001527 rRNA binding site [nucleotide binding]; other site 717231001528 predicted 30S ribosome binding site; other site 717231001529 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 717231001530 30S ribosomal protein S13; Region: bact_S13; TIGR03631 717231001531 30S ribosomal protein S11; Validated; Region: PRK05309 717231001532 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 717231001533 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 717231001534 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 717231001535 RNA binding surface [nucleotide binding]; other site 717231001536 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 717231001537 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 717231001538 alphaNTD homodimer interface [polypeptide binding]; other site 717231001539 alphaNTD - beta interaction site [polypeptide binding]; other site 717231001540 alphaNTD - beta' interaction site [polypeptide binding]; other site 717231001541 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 717231001542 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 717231001543 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 717231001544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231001545 Walker A/P-loop; other site 717231001546 ATP binding site [chemical binding]; other site 717231001547 ABC transporter signature motif; other site 717231001548 Walker B; other site 717231001549 D-loop; other site 717231001550 H-loop/switch region; other site 717231001551 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 717231001552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231001553 Walker A/P-loop; other site 717231001554 ATP binding site [chemical binding]; other site 717231001555 Q-loop/lid; other site 717231001556 ABC transporter signature motif; other site 717231001557 Walker B; other site 717231001558 D-loop; other site 717231001559 H-loop/switch region; other site 717231001560 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 717231001561 intersubunit interface [polypeptide binding]; other site 717231001562 active site 717231001563 Zn2+ binding site [ion binding]; other site 717231001564 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 717231001565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231001566 Walker A/P-loop; other site 717231001567 ATP binding site [chemical binding]; other site 717231001568 Q-loop/lid; other site 717231001569 ABC transporter signature motif; other site 717231001570 Walker B; other site 717231001571 D-loop; other site 717231001572 H-loop/switch region; other site 717231001573 ABC transporter; Region: ABC_tran_2; pfam12848 717231001574 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 717231001575 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 717231001576 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 717231001577 inhibitor-cofactor binding pocket; inhibition site 717231001578 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001579 catalytic residue [active] 717231001580 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231001581 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 717231001582 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 717231001583 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 717231001584 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 717231001585 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 717231001586 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 717231001587 heme-binding residues [chemical binding]; other site 717231001588 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 717231001589 heme-binding residues [chemical binding]; other site 717231001590 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 717231001591 HupF/HypC family; Region: HupF_HypC; pfam01455 717231001592 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 717231001593 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 717231001594 dimerization interface [polypeptide binding]; other site 717231001595 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 717231001596 ATP binding site [chemical binding]; other site 717231001597 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 717231001598 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 717231001599 Competence protein A; Region: Competence_A; pfam11104 717231001600 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 717231001601 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 717231001602 Pilus assembly protein, PilO; Region: PilO; cl01234 717231001603 Pilus assembly protein, PilP; Region: PilP; pfam04351 717231001604 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 717231001605 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 717231001606 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 717231001607 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 717231001608 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 717231001609 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 717231001610 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 717231001611 putative NAD(P) binding site [chemical binding]; other site 717231001612 putative active site [active] 717231001613 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 717231001614 hypothetical protein; Reviewed; Region: PRK09588 717231001615 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 717231001616 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 717231001617 Superoxide reductase-like (SORL) domain, class II; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_classII; cd03172 717231001618 non-heme iron binding site [ion binding]; other site 717231001619 tetramer interface [polypeptide binding]; other site 717231001620 COGs: COG1811 Uncharacterized membrane protein possible Na+ channel or pump; InterPro IPR007563; KEGG: ddf:DEFDS_1841 hypothetical protein; PFAM: Protein of unknown function DUF554; SPTR: Putative uncharacterized protein 717231001621 Protein of unknown function (DUF554); Region: DUF554; pfam04474 717231001622 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 717231001623 PLD-like domain; Region: PLDc_2; pfam13091 717231001624 putative active site [active] 717231001625 catalytic site [active] 717231001626 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 717231001627 G1 box; other site 717231001628 GTP/Mg2+ binding site [chemical binding]; other site 717231001629 Switch I region; other site 717231001630 G2 box; other site 717231001631 G3 box; other site 717231001632 Switch II region; other site 717231001633 G4 box; other site 717231001634 G5 box; other site 717231001635 DHH family; Region: DHH; pfam01368 717231001636 COGs: COG3400 conserved hypothetical protein; InterPro IPR003148:IPR006037; KEGG: TrkA-C domain-containing protein; PFAM: Regulator of K+ conductance, C-terminal; Regulator of K+ conductance, N-terminal; SPTR: TrkA-C domain protein 717231001637 TrkA-N domain; Region: TrkA_N; pfam02254 717231001638 TrkA-C domain; Region: TrkA_C; pfam02080 717231001639 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 717231001640 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 717231001641 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 717231001642 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 717231001643 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 717231001644 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 717231001645 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231001646 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 717231001647 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 717231001648 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 717231001649 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 717231001650 carboxyltransferase (CT) interaction site; other site 717231001651 biotinylation site [posttranslational modification]; other site 717231001652 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 717231001653 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 717231001654 active site 717231001655 substrate binding site [chemical binding]; other site 717231001656 coenzyme B12 binding site [chemical binding]; other site 717231001657 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 717231001658 B12 binding site [chemical binding]; other site 717231001659 cobalt ligand [ion binding]; other site 717231001660 membrane ATPase/protein kinase; Provisional; Region: PRK09435 717231001661 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 717231001662 Walker A; other site 717231001663 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 717231001664 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 717231001665 ATP binding site [chemical binding]; other site 717231001666 Mg2+ binding site [ion binding]; other site 717231001667 G-X-G motif; other site 717231001668 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 717231001669 anti sigma factor interaction site; other site 717231001670 regulatory phosphorylation site [posttranslational modification]; other site 717231001671 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 717231001672 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 717231001673 DRTGG domain; Region: DRTGG; pfam07085 717231001674 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 717231001675 DHH family; Region: DHH; pfam01368 717231001676 DHHA2 domain; Region: DHHA2; pfam02833 717231001677 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 717231001678 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 717231001679 active site 717231001680 Riboflavin kinase; Region: Flavokinase; pfam01687 717231001681 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 717231001682 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231001683 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 717231001684 FeS/SAM binding site; other site 717231001685 Outer membrane lipoprotein; Region: YfiO; pfam13525 717231001686 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 717231001687 binding surface 717231001688 TPR motif; other site 717231001689 TPR repeat; Region: TPR_11; pfam13414 717231001690 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 717231001691 binding surface 717231001692 TPR motif; other site 717231001693 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231001694 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231001695 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 717231001696 TPR motif; other site 717231001697 binding surface 717231001698 seryl-tRNA synthetase; Provisional; Region: PRK05431 717231001699 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 717231001700 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 717231001701 dimer interface [polypeptide binding]; other site 717231001702 active site 717231001703 motif 1; other site 717231001704 motif 2; other site 717231001705 motif 3; other site 717231001706 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 717231001707 homodimer interface [polypeptide binding]; other site 717231001708 active site 717231001709 SAM binding site [chemical binding]; other site 717231001710 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 717231001711 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 717231001712 MOFRL family; Region: MOFRL; pfam05161 717231001713 Protein of unknown function, DUF606; Region: DUF606; pfam04657 717231001714 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 717231001715 dimerization interface [polypeptide binding]; other site 717231001716 putative DNA binding site [nucleotide binding]; other site 717231001717 putative Zn2+ binding site [ion binding]; other site 717231001718 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 717231001719 dimerization interface [polypeptide binding]; other site 717231001720 putative DNA binding site [nucleotide binding]; other site 717231001721 putative Zn2+ binding site [ion binding]; other site 717231001722 manually curated 717231001723 manually curated 717231001725 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 717231001726 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 717231001727 Ligand Binding Site [chemical binding]; other site 717231001728 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 717231001729 Ligand Binding Site [chemical binding]; other site 717231001730 BCCT family transporter; Region: BCCT; pfam02028 717231001731 Hemerythrin; Region: Hemerythrin; cd12107 717231001732 Fe binding site [ion binding]; other site 717231001733 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 717231001734 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 717231001735 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 717231001736 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 717231001737 PAS domain S-box; Region: sensory_box; TIGR00229 717231001738 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 717231001739 PAS domain; Region: PAS_9; pfam13426 717231001740 putative active site [active] 717231001741 heme pocket [chemical binding]; other site 717231001742 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231001743 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231001744 metal binding site [ion binding]; metal-binding site 717231001745 active site 717231001746 I-site; other site 717231001747 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 717231001748 Transposase domain (DUF772); Region: DUF772; pfam05598 717231001749 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001750 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231001751 Transposase domain (DUF772); Region: DUF772; pfam05598 717231001752 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001753 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231001754 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001755 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 717231001756 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231001757 substrate binding pocket [chemical binding]; other site 717231001758 membrane-bound complex binding site; other site 717231001759 hinge residues; other site 717231001760 PAS domain; Region: PAS_9; pfam13426 717231001761 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 717231001762 putative active site [active] 717231001763 heme pocket [chemical binding]; other site 717231001764 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 717231001765 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 717231001766 putative active site [active] 717231001767 heme pocket [chemical binding]; other site 717231001768 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231001769 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 717231001770 putative active site [active] 717231001771 heme pocket [chemical binding]; other site 717231001772 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 717231001773 dimer interface [polypeptide binding]; other site 717231001774 phosphorylation site [posttranslational modification] 717231001775 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 717231001776 ATP binding site [chemical binding]; other site 717231001777 Mg2+ binding site [ion binding]; other site 717231001778 G-X-G motif; other site 717231001779 Response regulator receiver domain; Region: Response_reg; pfam00072 717231001780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001781 active site 717231001782 phosphorylation site [posttranslational modification] 717231001783 intermolecular recognition site; other site 717231001784 dimerization interface [polypeptide binding]; other site 717231001785 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231001786 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231001787 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 717231001788 Walker A/P-loop; other site 717231001789 ATP binding site [chemical binding]; other site 717231001790 Q-loop/lid; other site 717231001791 ABC transporter signature motif; other site 717231001792 Walker B; other site 717231001793 D-loop; other site 717231001794 H-loop/switch region; other site 717231001795 hypothetical protein; Provisional; Region: PRK08356 717231001796 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 717231001797 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 717231001798 putative FMN binding site [chemical binding]; other site 717231001799 COGs: COG1284 conserved hypothetical protein; InterPro IPR003740:IPR019264; KEGG: drt:Dret_2263 protein of unknown function DUF2179; PFAM: Protein of unknown function DUF161; Protein of unknown function DUF2179; SPTR: Putative uncharacterized protein 717231001800 Uncharacterized conserved protein [Function unknown]; Region: COG1284 717231001801 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 717231001802 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 717231001803 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 717231001804 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231001805 active site 717231001806 catalytic site [active] 717231001807 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 717231001808 COGs: COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system; InterPro IPR003661:IPR003594; KEGG: dap:Dacet_1968 integral membrane sensor signal transduction histidine kinase; PFAM: ATP-binding region, ATPase-like; Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor region; SMART: ATP-binding region, ATPase-like; Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor region; SPTR: Integral membrane sensor signal transduction histidine kinase 717231001809 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 717231001810 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 717231001811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231001812 dimer interface [polypeptide binding]; other site 717231001813 phosphorylation site [posttranslational modification] 717231001814 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 717231001815 ATP binding site [chemical binding]; other site 717231001816 Mg2+ binding site [ion binding]; other site 717231001817 G-X-G motif; other site 717231001818 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231001819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001820 active site 717231001821 phosphorylation site [posttranslational modification] 717231001822 intermolecular recognition site; other site 717231001823 dimerization interface [polypeptide binding]; other site 717231001824 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 717231001825 Walker A motif; other site 717231001826 ATP binding site [chemical binding]; other site 717231001827 Walker B motif; other site 717231001828 arginine finger; other site 717231001829 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 717231001830 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231001831 Transcriptional regulator; Region: Rrf2; pfam02082 717231001832 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 717231001833 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 717231001834 Active Sites [active] 717231001835 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 717231001836 thiS-thiF/thiG interaction site; other site 717231001837 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 717231001838 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 717231001839 homodimer interface [polypeptide binding]; other site 717231001840 substrate-cofactor binding pocket; other site 717231001841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001842 catalytic residue [active] 717231001843 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 717231001844 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 717231001845 ATP binding site [chemical binding]; other site 717231001846 substrate interface [chemical binding]; other site 717231001847 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 717231001848 MPN+ (JAMM) motif; other site 717231001849 Zinc-binding site [ion binding]; other site 717231001850 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 717231001851 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 717231001852 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 717231001853 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 717231001854 CPxP motif; other site 717231001855 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 717231001856 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]; Region: DPH5; COG1798 717231001857 homodimer interface [polypeptide binding]; other site 717231001858 active site 717231001859 SAM binding site [chemical binding]; other site 717231001860 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 717231001861 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 717231001862 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 717231001863 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 717231001864 catalytic residues [active] 717231001865 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 717231001866 Ligand Binding Site [chemical binding]; other site 717231001867 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 717231001868 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 717231001869 Ligand Binding Site [chemical binding]; other site 717231001870 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 717231001871 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 717231001872 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 717231001873 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231001874 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 717231001875 Cytochrome C biogenesis protein; Region: CcmH; cl01179 717231001876 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 717231001877 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231001878 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231001879 FtsX-like permease family; Region: FtsX; pfam02687 717231001880 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231001881 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 717231001882 Walker A/P-loop; other site 717231001883 ATP binding site [chemical binding]; other site 717231001884 Q-loop/lid; other site 717231001885 ABC transporter signature motif; other site 717231001886 Walker B; other site 717231001887 D-loop; other site 717231001888 H-loop/switch region; other site 717231001889 CHAD domain; Region: CHAD; cl10506 717231001890 FtsX-like permease family; Region: FtsX; pfam02687 717231001891 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 717231001892 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231001893 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231001894 COGs: COG0340 Biotin-(acetyl-CoA carboxylase) ligase; InterPro IPR013196:IPR004143; KEGG: mev:Metev_0528 biotin/acetyl-CoA-carboxylase ligase; SPTR: Biotin/acetyl-CoA-carboxylase ligase 717231001895 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 717231001896 dimerization interface [polypeptide binding]; other site 717231001897 putative DNA binding site [nucleotide binding]; other site 717231001898 putative Zn2+ binding site [ion binding]; other site 717231001899 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 717231001900 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 717231001901 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 717231001902 inhibitor-cofactor binding pocket; inhibition site 717231001903 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001904 catalytic residue [active] 717231001905 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 717231001906 AAA domain; Region: AAA_26; pfam13500 717231001907 biotin synthase; Region: bioB; TIGR00433 717231001908 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 717231001909 FeS/SAM binding site; other site 717231001910 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 717231001911 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 717231001912 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 717231001913 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231001914 catalytic residue [active] 717231001915 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 717231001916 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 717231001917 S-adenosylmethionine binding site [chemical binding]; other site 717231001918 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 717231001919 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 717231001920 homodimer interface [polypeptide binding]; other site 717231001921 substrate-cofactor binding pocket; other site 717231001922 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001923 catalytic residue [active] 717231001924 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 717231001925 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 717231001926 dimer interface [polypeptide binding]; other site 717231001927 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001928 catalytic residue [active] 717231001929 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231001930 Transposase domain (DUF772); Region: DUF772; pfam05598 717231001931 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001932 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231001933 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 717231001934 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 717231001935 Walker A motif; other site 717231001936 ATP binding site [chemical binding]; other site 717231001937 Walker B motif; other site 717231001938 arginine finger; other site 717231001939 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 717231001940 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 717231001941 Walker A/P-loop; other site 717231001942 ATP binding site [chemical binding]; other site 717231001943 Q-loop/lid; other site 717231001944 ABC transporter signature motif; other site 717231001945 Walker B; other site 717231001946 D-loop; other site 717231001947 H-loop/switch region; other site 717231001948 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 717231001949 allantoate amidohydrolase; Reviewed; Region: PRK09290 717231001950 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 717231001951 active site 717231001952 metal binding site [ion binding]; metal-binding site 717231001953 dimer interface [polypeptide binding]; other site 717231001954 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 717231001955 SmpB-tmRNA interface; other site 717231001956 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 717231001957 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 717231001958 GDP-binding site [chemical binding]; other site 717231001959 ACT binding site; other site 717231001960 IMP binding site; other site 717231001961 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 717231001962 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 717231001963 dimer interface [polypeptide binding]; other site 717231001964 motif 1; other site 717231001965 active site 717231001966 motif 2; other site 717231001967 motif 3; other site 717231001968 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 717231001969 homodimer interface [polypeptide binding]; other site 717231001970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001971 catalytic residue [active] 717231001972 Predicted membrane protein [Function unknown]; Region: COG3462 717231001973 Short C-terminal domain; Region: SHOCT; pfam09851 717231001974 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 717231001975 dimer interface [polypeptide binding]; other site 717231001976 phosphorylation site [posttranslational modification] 717231001977 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 717231001978 ATP binding site [chemical binding]; other site 717231001979 Mg2+ binding site [ion binding]; other site 717231001980 G-X-G motif; other site 717231001981 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231001982 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001983 active site 717231001984 phosphorylation site [posttranslational modification] 717231001985 intermolecular recognition site; other site 717231001986 dimerization interface [polypeptide binding]; other site 717231001987 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 717231001988 Walker A motif; other site 717231001989 ATP binding site [chemical binding]; other site 717231001990 Walker B motif; other site 717231001991 arginine finger; other site 717231001992 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 717231001993 argininosuccinate lyase; Provisional; Region: PRK00855 717231001994 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 717231001995 active sites [active] 717231001996 tetramer interface [polypeptide binding]; other site 717231001997 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 717231001998 binding surface 717231001999 TPR motif; other site 717231002000 putative GTP cyclohydrolase; Provisional; Region: PRK13674 717231002001 Conserved TM helix; Region: TM_helix; pfam05552 717231002002 Mechanosensitive ion channel; Region: MS_channel; pfam00924 717231002003 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 717231002004 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 717231002005 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 717231002006 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 717231002007 FeS/SAM binding site; other site 717231002008 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 717231002009 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 717231002010 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002011 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002012 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002013 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231002014 Protein of unknown function (DUF456); Region: DUF456; pfam04306 717231002015 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 717231002016 COGs: COG2956 N-acetylglucosaminyl transferase; KEGG: ddf:DEFDS_0191 hypothetical protein; SPTR: Putative uncharacterized protein 717231002017 tetratricopeptide repeat protein; Provisional; Region: PRK11788 717231002018 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 717231002019 binding surface 717231002020 TPR motif; other site 717231002021 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 717231002022 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 717231002023 nucleotide binding site/active site [active] 717231002024 HIT family signature motif; other site 717231002025 catalytic residue [active] 717231002026 NAD-dependent deacetylase; Provisional; Region: PRK00481 717231002027 SIR2 family 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-fam; cd01407 717231002028 NAD+ binding site [chemical binding]; other site 717231002029 substrate binding site [chemical binding]; other site 717231002030 Zn binding site [ion binding]; other site 717231002031 Predicted permeases [General function prediction only]; Region: COG0679 717231002032 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 717231002033 metal-binding site [ion binding] 717231002034 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 717231002035 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 717231002036 metal-binding site [ion binding] 717231002037 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 717231002038 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 717231002039 motif II; other site 717231002040 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 717231002041 metal-binding site [ion binding] 717231002042 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 717231002043 putative homotetramer interface [polypeptide binding]; other site 717231002044 putative homodimer interface [polypeptide binding]; other site 717231002045 putative allosteric switch controlling residues; other site 717231002046 putative metal binding site [ion binding]; other site 717231002047 putative homodimer-homodimer interface [polypeptide binding]; other site 717231002048 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 717231002049 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 717231002050 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 717231002051 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 717231002052 dihydrodipicolinate synthase; Region: dapA; TIGR00674 717231002053 dimer interface [polypeptide binding]; other site 717231002054 active site 717231002055 catalytic residue [active] 717231002056 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 717231002057 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 717231002058 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 717231002059 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 717231002060 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 717231002061 putative substrate-binding site; other site 717231002062 nickel binding site [ion binding]; other site 717231002063 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 717231002064 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 717231002065 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 717231002066 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 717231002067 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 717231002068 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 717231002069 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 717231002070 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 717231002071 S-adenosylmethionine binding site [chemical binding]; other site 717231002072 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 717231002073 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. 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_B; cd01571 717231002074 active site 717231002075 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 717231002076 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 717231002077 active site 717231002078 motif I; other site 717231002079 motif II; other site 717231002080 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 717231002081 fumarate hydratase; Reviewed; Region: fumC; PRK00485 717231002082 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 717231002083 active sites [active] 717231002084 tetramer interface [polypeptide binding]; other site 717231002085 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 717231002086 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 717231002087 putative active site [active] 717231002088 PhoH-like protein; Region: PhoH; pfam02562 717231002089 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 717231002090 dimer interface [polypeptide binding]; other site 717231002091 active site 717231002092 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 717231002093 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 717231002094 active site 717231002095 nucleotide binding site [chemical binding]; other site 717231002096 HIGH motif; other site 717231002097 KMSKS motif; other site 717231002098 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 717231002099 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 717231002100 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 717231002101 ATP binding site [chemical binding]; other site 717231002102 putative Mg++ binding site [ion binding]; other site 717231002103 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 717231002104 nucleotide binding region [chemical binding]; other site 717231002105 ATP-binding site [chemical binding]; other site 717231002106 TRCF domain; Region: TRCF; pfam03461 717231002107 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 717231002108 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 717231002109 SurA N-terminal domain; Region: SurA_N; pfam09312 717231002110 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 717231002111 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 717231002112 HflX GTPase family; Region: HflX; cd01878 717231002113 G1 box; other site 717231002114 GTP/Mg2+ binding site [chemical binding]; other site 717231002115 Switch I region; other site 717231002116 G2 box; other site 717231002117 G3 box; other site 717231002118 Switch II region; other site 717231002119 G4 box; other site 717231002120 G5 box; other site 717231002121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002122 active site 717231002123 phosphorylation site [posttranslational modification] 717231002124 intermolecular recognition site; other site 717231002125 dimerization interface [polypeptide binding]; other site 717231002126 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 717231002127 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 717231002128 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 717231002129 COGs: COG5421 Transposase; InterPro IPR002559; KEGG: msv:Mesil_3173 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002130 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231002131 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 717231002132 dinuclear metal binding motif [ion binding]; other site 717231002133 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 717231002134 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002135 Sulphur transport; Region: Sulf_transp; pfam04143 717231002136 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 717231002137 CPxP motif; other site 717231002138 PAS domain; Region: PAS; smart00091 717231002139 PAS domain; Region: PAS_9; pfam13426 717231002140 PAS domain S-box; Region: sensory_box; TIGR00229 717231002141 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 717231002142 putative active site [active] 717231002143 heme pocket [chemical binding]; other site 717231002144 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231002145 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 717231002146 ATP binding site [chemical binding]; other site 717231002147 Mg2+ binding site [ion binding]; other site 717231002148 G-X-G motif; other site 717231002149 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002150 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002151 active site 717231002152 phosphorylation site [posttranslational modification] 717231002153 intermolecular recognition site; other site 717231002154 dimerization interface [polypeptide binding]; other site 717231002155 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 717231002156 Fumarase C-terminus; Region: Fumerase_C; pfam05683 717231002157 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 717231002158 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 717231002159 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 717231002160 substrate binding site [chemical binding]; other site 717231002161 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 717231002162 substrate binding site [chemical binding]; other site 717231002163 ligand binding site [chemical binding]; other site 717231002164 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 717231002165 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 717231002166 malate dehydrogenase; Reviewed; Region: PRK06223 717231002167 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 717231002168 NAD(P) binding site [chemical binding]; other site 717231002169 dimer interface [polypeptide binding]; other site 717231002170 tetramer (dimer of dimers) interface [polypeptide binding]; other site 717231002171 substrate binding site [chemical binding]; other site 717231002172 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 717231002173 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 717231002174 CoA-ligase; Region: Ligase_CoA; pfam00549 717231002175 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 717231002176 CoA binding domain; Region: CoA_binding; smart00881 717231002177 CoA-ligase; Region: Ligase_CoA; pfam00549 717231002178 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231002179 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231002180 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 717231002181 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 717231002182 dimer interface [polypeptide binding]; other site 717231002183 PYR/PP interface [polypeptide binding]; other site 717231002184 TPP binding site [chemical binding]; other site 717231002185 substrate binding site [chemical binding]; other site 717231002186 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 717231002187 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 717231002188 TPP-binding site [chemical binding]; other site 717231002189 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231002190 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231002191 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 717231002192 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 717231002193 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 717231002194 L-aspartate oxidase; Provisional; Region: PRK06175 717231002195 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 717231002196 succinate dehydrogenase, cytochrome b556 subunit; Region: succ_dehyd_cytB; TIGR02970 717231002197 Iron-sulfur protein interface; other site 717231002198 proximal heme binding site [chemical binding]; other site 717231002199 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002200 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002201 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 717231002202 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 717231002203 ATP binding site [chemical binding]; other site 717231002204 Mg++ binding site [ion binding]; other site 717231002205 motif III; other site 717231002206 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 717231002207 nucleotide binding region [chemical binding]; other site 717231002208 ATP-binding site [chemical binding]; other site 717231002209 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 717231002210 RNA binding site [nucleotide binding]; other site 717231002211 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 717231002212 active site clefts [active] 717231002213 zinc binding site [ion binding]; other site 717231002214 dimer interface [polypeptide binding]; other site 717231002215 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 717231002216 active site 717231002217 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 717231002218 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231002219 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 717231002220 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 717231002221 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231002222 Cupin domain; Region: Cupin_2; cl17218 717231002223 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 717231002224 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 717231002225 Transcriptional regulators [Transcription]; Region: GntR; COG1802 717231002226 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002227 DNA-binding site [nucleotide binding]; DNA binding site 717231002228 FCD domain; Region: FCD; pfam07729 717231002229 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 717231002230 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 717231002231 FeS/SAM binding site; other site 717231002232 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 717231002233 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 717231002234 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 717231002235 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 717231002236 dihydroorotase; Validated; Region: pyrC; PRK09357 717231002237 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 717231002238 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 717231002239 active site 717231002240 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 717231002241 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 717231002242 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 717231002243 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 717231002244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231002245 active site 717231002246 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 717231002247 phosphate binding site [ion binding]; other site 717231002248 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002249 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231002250 2-isopropylmalate synthase; Validated; Region: PRK00915 717231002251 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 717231002252 active site 717231002253 catalytic residues [active] 717231002254 metal binding site [ion binding]; metal-binding site 717231002255 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 717231002256 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 717231002257 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 717231002258 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 717231002259 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002260 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002261 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002262 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002263 ketol-acid reductoisomerase; Provisional; Region: PRK05479 717231002264 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 717231002265 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 717231002266 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 717231002267 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 717231002268 putative valine binding site [chemical binding]; other site 717231002269 dimer interface [polypeptide binding]; other site 717231002270 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 717231002271 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 717231002272 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 717231002273 PYR/PP interface [polypeptide binding]; other site 717231002274 dimer interface [polypeptide binding]; other site 717231002275 TPP binding site [chemical binding]; other site 717231002276 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 717231002277 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 717231002278 TPP-binding site [chemical binding]; other site 717231002279 dimer interface [polypeptide binding]; other site 717231002280 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 717231002281 6-phosphogluconate dehydratase; Region: edd; TIGR01196 717231002282 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 717231002283 Transposase; Region: HTH_Tnp_1; pfam01527 717231002284 putative transposase OrfB; Reviewed; Region: PHA02517 717231002285 Integrase core domain; Region: rve; pfam00665 717231002286 Integrase core domain; Region: rve_3; pfam13683 717231002287 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 717231002288 glutaminase active site [active] 717231002289 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002290 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002291 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002292 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002294 Helix-turn-helix domain; Region: HTH_38; pfam13936 717231002295 Integrase core domain; Region: rve; pfam00665 717231002296 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002297 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002298 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002299 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002300 COGs: COG1484 DNA replication protein; InterPro IPR002611:IPR003593; KEGG: toc:Toce_0299 IstB domain protein ATP-binding protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core; SPTR: IstB domain protein ATP-binding protein 717231002301 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 717231002302 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231002303 Walker A motif; other site 717231002304 ATP binding site [chemical binding]; other site 717231002305 Walker B motif; other site 717231002306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002307 Integrase core domain; Region: rve; pfam00665 717231002308 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002309 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 717231002310 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002311 SLBB domain; Region: SLBB; pfam10531 717231002312 SLBB domain; Region: SLBB; pfam10531 717231002313 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002314 SLBB domain; Region: SLBB; pfam10531 717231002315 SLBB domain; Region: SLBB; pfam10531 717231002316 SLBB domain; Region: SLBB; pfam10531 717231002317 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002318 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 717231002319 Chain length determinant protein; Region: Wzz; pfam02706 717231002320 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 717231002321 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 717231002322 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 717231002323 putative catalytic motif [active] 717231002324 Membrane protein of unknown function; Region: DUF360; pfam04020 717231002325 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 717231002326 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 717231002327 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 717231002328 Predicted permeases [General function prediction only]; Region: COG0795 717231002329 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 717231002330 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 717231002331 tartrate dehydrogenase; Region: TTC; TIGR02089 717231002332 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 717231002333 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 717231002334 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231002335 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 717231002336 Cysteine-rich domain; Region: CCG; pfam02754 717231002337 Cysteine-rich domain; Region: CCG; pfam02754 717231002338 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 717231002339 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231002340 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231002341 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231002342 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 717231002343 DctM-like transporters; Region: DctM; pfam06808 717231002344 FAD binding domain; Region: FAD_binding_4; pfam01565 717231002345 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 717231002346 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231002347 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 717231002348 Cysteine-rich domain; Region: CCG; pfam02754 717231002349 Cysteine-rich domain; Region: CCG; pfam02754 717231002350 Transcriptional regulators [Transcription]; Region: FadR; COG2186 717231002351 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002352 DNA-binding site [nucleotide binding]; DNA binding site 717231002353 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 717231002354 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 717231002355 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 717231002356 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 717231002357 dimer interface [polypeptide binding]; other site 717231002358 PYR/PP interface [polypeptide binding]; other site 717231002359 TPP binding site [chemical binding]; other site 717231002360 substrate binding site [chemical binding]; other site 717231002361 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 717231002362 Domain of unknown function; Region: EKR; pfam10371 717231002363 4Fe-4S binding domain; Region: Fer4; pfam00037 717231002364 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 717231002365 TPP-binding site [chemical binding]; other site 717231002366 dimer interface [polypeptide binding]; other site 717231002367 AMP-binding domain protein; Validated; Region: PRK08315 717231002368 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231002369 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 717231002370 acyl-activating enzyme (AAE) consensus motif; other site 717231002371 putative AMP binding site [chemical binding]; other site 717231002372 putative active site [active] 717231002373 putative CoA binding site [chemical binding]; other site 717231002374 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 717231002375 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231002376 glutamine synthetase, type I; Region: GlnA; TIGR00653 717231002377 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 717231002378 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 717231002379 CheD chemotactic sensory transduction; Region: CheD; cl00810 717231002380 COGs: COG0642 Signal transduction histidine kinase; InterProIPR013656:IPR013655:IPR013767:IPR003661:IPR 003594:IPR001789:IPR008207:IPR000014:IPR001610; KEGG: dak:DaAHT2_0638 multi-sensor hybrid histidine kinase; PFAM: ATP-binding region, ATPase-like; Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor region; PAS fold; PAS fold-3; PAS fold-4; Signal transduction response regulator, receiver region; Signal transduction histidine kinase, phosphotransfer (Hpt) region; SMART: ATP-binding region, ATPase-like; Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor region; PAC motif; PAS; Signal transduction response regulator, receiver region; SPTR: Multi-sensor hybrid histidine kinase; TIGRFAM: PAS 717231002381 PAS fold; Region: PAS_7; pfam12860 717231002382 PAS domain S-box; Region: sensory_box; TIGR00229 717231002383 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 717231002384 putative active site [active] 717231002385 heme pocket [chemical binding]; other site 717231002386 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 717231002387 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 717231002388 putative active site [active] 717231002389 heme pocket [chemical binding]; other site 717231002390 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 717231002391 putative active site [active] 717231002392 heme pocket [chemical binding]; other site 717231002393 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 717231002394 NMT1-like family; Region: NMT1_2; pfam13379 717231002395 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 717231002396 dimer interface [polypeptide binding]; other site 717231002397 phosphorylation site [posttranslational modification] 717231002398 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 717231002399 ATP binding site [chemical binding]; other site 717231002400 Mg2+ binding site [ion binding]; other site 717231002401 G-X-G motif; other site 717231002402 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231002403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002404 active site 717231002405 phosphorylation site [posttranslational modification] 717231002406 intermolecular recognition site; other site 717231002407 dimerization interface [polypeptide binding]; other site 717231002408 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002409 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002410 active site 717231002411 phosphorylation site [posttranslational modification] 717231002412 intermolecular recognition site; other site 717231002413 dimerization interface [polypeptide binding]; other site 717231002414 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231002415 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002416 active site 717231002417 phosphorylation site [posttranslational modification] 717231002418 intermolecular recognition site; other site 717231002419 dimerization interface [polypeptide binding]; other site 717231002420 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231002421 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231002422 metal binding site [ion binding]; metal-binding site 717231002423 active site 717231002424 I-site; other site 717231002425 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231002426 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002427 active site 717231002428 phosphorylation site [posttranslational modification] 717231002429 intermolecular recognition site; other site 717231002430 dimerization interface [polypeptide binding]; other site 717231002431 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 717231002432 PAS domain; Region: PAS_9; pfam13426 717231002433 putative active site [active] 717231002434 heme pocket [chemical binding]; other site 717231002435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231002436 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 717231002437 dimer interface [polypeptide binding]; other site 717231002438 phosphorylation site [posttranslational modification] 717231002439 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 717231002440 ATP binding site [chemical binding]; other site 717231002441 Mg2+ binding site [ion binding]; other site 717231002442 G-X-G motif; other site 717231002443 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231002444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002445 active site 717231002446 phosphorylation site [posttranslational modification] 717231002447 intermolecular recognition site; other site 717231002448 dimerization interface [polypeptide binding]; other site 717231002449 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 717231002450 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002451 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002452 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002453 Transcriptional regulators [Transcription]; Region: FadR; COG2186 717231002454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002455 DNA-binding site [nucleotide binding]; DNA binding site 717231002456 FCD domain; Region: FCD; pfam07729 717231002457 choline dehydrogenase; Validated; Region: PRK02106 717231002458 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 717231002459 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 717231002460 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 717231002461 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231002462 tetramerization interface [polypeptide binding]; other site 717231002463 NAD(P) binding site [chemical binding]; other site 717231002464 catalytic residues [active] 717231002465 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 717231002466 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 717231002467 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 717231002468 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 717231002469 FeS/SAM binding site; other site 717231002470 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 717231002471 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 717231002472 ATP cone domain; Region: ATP-cone; pfam03477 717231002473 Class III ribonucleotide reductase; Region: RNR_III; cd01675 717231002474 effector binding site; other site 717231002475 active site 717231002476 Zn binding site [ion binding]; other site 717231002477 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 717231002478 dimerization interface [polypeptide binding]; other site 717231002479 putative DNA binding site [nucleotide binding]; other site 717231002480 putative Zn2+ binding site [ion binding]; other site 717231002481 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 717231002482 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002483 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 717231002484 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 717231002485 inhibitor-cofactor binding pocket; inhibition site 717231002486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002487 catalytic residue [active] 717231002488 AAA domain; Region: AAA_26; pfam13500 717231002489 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 717231002490 biotin synthase; Region: bioB; TIGR00433 717231002491 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 717231002492 FeS/SAM binding site; other site 717231002493 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 717231002494 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 717231002495 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 717231002496 substrate-cofactor binding pocket; other site 717231002497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002498 catalytic residue [active] 717231002499 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231002500 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 717231002501 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 717231002502 S-adenosylmethionine binding site [chemical binding]; other site 717231002503 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 717231002504 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 717231002505 phosphoglyceromutase; Provisional; Region: PRK05434 717231002506 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 717231002507 Double zinc ribbon; Region: DZR; pfam12773 717231002508 comF family protein; Region: comF; TIGR00201 717231002509 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231002510 active site 717231002511 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 717231002512 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 717231002513 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 717231002514 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 717231002515 Phosphoglycerate kinase; Region: PGK; pfam00162 717231002516 substrate binding site [chemical binding]; other site 717231002517 hinge regions; other site 717231002518 ADP binding site [chemical binding]; other site 717231002519 catalytic site [active] 717231002520 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 717231002521 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 717231002522 active site 717231002523 HIGH motif; other site 717231002524 nucleotide binding site [chemical binding]; other site 717231002525 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 717231002526 active site 717231002527 KMSKS motif; other site 717231002528 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 717231002529 tRNA binding surface [nucleotide binding]; other site 717231002530 anticodon binding site; other site 717231002531 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 717231002532 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 717231002533 lipoprotein signal peptidase; Provisional; Region: PRK14787 717231002534 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 717231002535 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 717231002536 purine monophosphate binding site [chemical binding]; other site 717231002537 dimer interface [polypeptide binding]; other site 717231002538 putative catalytic residues [active] 717231002539 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 717231002540 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 717231002541 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 717231002542 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 717231002543 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 717231002544 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 717231002545 AIR carboxylase; Region: AIRC; pfam00731 717231002546 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 717231002547 acetylornithine deacetylase; Provisional; Region: PRK08652 717231002548 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 717231002549 metal binding site [ion binding]; metal-binding site 717231002550 dimer interface [polypeptide binding]; other site 717231002551 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 717231002552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231002553 Coenzyme A binding pocket [chemical binding]; other site 717231002554 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 717231002555 Sel1-like repeats; Region: SEL1; smart00671 717231002556 Sel1-like repeats; Region: SEL1; smart00671 717231002557 Sel1-like repeats; Region: SEL1; smart00671 717231002558 Sel1-like repeats; Region: SEL1; smart00671 717231002559 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 717231002560 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 717231002561 NAD binding site [chemical binding]; other site 717231002562 substrate binding site [chemical binding]; other site 717231002563 homodimer interface [polypeptide binding]; other site 717231002564 active site 717231002565 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 717231002566 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 717231002567 NADP binding site [chemical binding]; other site 717231002568 active site 717231002569 putative substrate binding site [chemical binding]; other site 717231002570 manually curated 717231002571 COGs: COG0683 ABC-type branched-chain amino acid transport systems periplasmic component; InterPro IPR001828; KEGG: ssm:Spirs_0343 extracellular ligand-binding receptor; PFAM: Extracellular ligand-binding receptor; SPTR: Extracellular ligand-binding receptor 717231002572 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231002573 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 717231002574 dimerization interface [polypeptide binding]; other site 717231002575 ligand binding site [chemical binding]; other site 717231002576 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 717231002577 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 717231002578 TM-ABC transporter signature motif; other site 717231002579 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 717231002580 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 717231002581 TM-ABC transporter signature motif; other site 717231002582 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231002583 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 717231002584 Walker A/P-loop; other site 717231002585 ATP binding site [chemical binding]; other site 717231002586 Q-loop/lid; other site 717231002587 ABC transporter signature motif; other site 717231002588 Walker B; other site 717231002589 D-loop; other site 717231002590 H-loop/switch region; other site 717231002591 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231002592 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 717231002593 Walker A/P-loop; other site 717231002594 ATP binding site [chemical binding]; other site 717231002595 Q-loop/lid; other site 717231002596 ABC transporter signature motif; other site 717231002597 Walker B; other site 717231002598 D-loop; other site 717231002599 H-loop/switch region; other site 717231002600 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002601 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002602 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002603 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002604 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 717231002605 DHH family; Region: DHH; pfam01368 717231002606 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 717231002607 OstA-like protein; Region: OstA; cl00844 717231002608 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 717231002609 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 717231002610 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 717231002611 InterPro IPR002559; KEGG: cni:Calni_2037 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002612 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002613 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 717231002614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231002615 Coenzyme A binding pocket [chemical binding]; other site 717231002616 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 717231002617 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 717231002618 inhibitor-cofactor binding pocket; inhibition site 717231002619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002620 catalytic residue [active] 717231002621 Ectoine synthase; Region: Ectoine_synth; pfam06339 717231002622 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002623 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 717231002624 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231002625 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002626 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002627 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002628 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 717231002629 COGs: COG1484 DNA replication protein; InterPro IPR002611:IPR003593; KEGG: toc:Toce_0299 IstB domain protein ATP-binding protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core; SPTR: IstB domain protein ATP-binding protein 717231002630 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 717231002631 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231002632 Walker A motif; other site 717231002633 ATP binding site [chemical binding]; other site 717231002634 Walker B motif; other site 717231002636 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 717231002637 protein binding site [polypeptide binding]; other site 717231002638 type II secretion system protein D; Region: type_II_gspD; TIGR02517 717231002639 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 717231002640 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 717231002641 Type II/IV secretion system protein; Region: T2SE; pfam00437 717231002642 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 717231002643 Walker A motif; other site 717231002644 ATP binding site [chemical binding]; other site 717231002645 Walker B motif; other site 717231002646 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 717231002647 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 717231002648 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 717231002649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002650 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002651 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 717231002653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002654 active site 717231002655 phosphorylation site [posttranslational modification] 717231002656 intermolecular recognition site; other site 717231002657 dimerization interface [polypeptide binding]; other site 717231002658 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 717231002659 DNA binding site [nucleotide binding] 717231002660 adaptive-response sensory kinase; Validated; Region: PRK09303 717231002661 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 717231002662 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 717231002663 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 717231002664 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 717231002665 transposase/IS protein; Provisional; Region: PRK09183 717231002666 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 717231002667 Walker A motif; other site 717231002668 ATP binding site [chemical binding]; other site 717231002669 Walker B motif; other site 717231002670 arginine finger; other site 717231002671 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002672 Helix-turn-helix domain; Region: HTH_38; pfam13936 717231002673 Integrase core domain; Region: rve; pfam00665 717231002674 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002675 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002676 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231002677 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 717231002678 non-specific DNA binding site [nucleotide binding]; other site 717231002679 salt bridge; other site 717231002680 sequence-specific DNA binding site [nucleotide binding]; other site 717231002681 HipA N-terminal domain; Region: Couple_hipA; cl11853 717231002682 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 717231002683 HipA-like N-terminal domain; Region: HipA_N; pfam07805 717231002684 HipA-like C-terminal domain; Region: HipA_C; pfam07804 717231002685 Transcriptional regulators [Transcription]; Region: MarR; COG1846 717231002686 MarR family; Region: MarR; pfam01047 717231002687 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 717231002688 Malic enzyme, N-terminal domain; Region: malic; pfam00390 717231002689 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 717231002690 putative NAD(P) binding site [chemical binding]; other site 717231002691 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 717231002692 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 717231002693 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 717231002694 active site 717231002695 Int/Topo IB signature motif; other site 717231002696 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 717231002697 DHH family; Region: DHH; pfam01368 717231002698 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 717231002699 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002700 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with an upstream DHH domain which performs a phosphoesterase function and a downstream polyA polymerase domain. CBS is a small domain originally...; Region: CBS_pair_DHH_polyA_Pol_assoc; cd04595 717231002701 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 717231002702 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 717231002703 active site 717231002704 NTP binding site [chemical binding]; other site 717231002705 metal binding triad [ion binding]; metal-binding site 717231002706 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 717231002707 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 717231002708 PhoH-like protein; Region: PhoH; pfam02562 717231002709 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 717231002710 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 717231002711 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 717231002712 active site 717231002713 Domain of unknown function DUF21; Region: DUF21; pfam01595 717231002714 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 717231002715 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 717231002716 Transporter associated domain; Region: CorC_HlyC; smart01091 717231002717 GTPase Era; Reviewed; Region: era; PRK00089 717231002718 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 717231002719 G1 box; other site 717231002720 GTP/Mg2+ binding site [chemical binding]; other site 717231002721 Switch I region; other site 717231002722 G2 box; other site 717231002723 Switch II region; other site 717231002724 G3 box; other site 717231002725 G4 box; other site 717231002726 G5 box; other site 717231002727 KH domain; Region: KH_2; pfam07650 717231002728 Recombination protein O N terminal; Region: RecO_N; pfam11967 717231002729 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 717231002730 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002731 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231002732 manually curated 717231002733 COGs: COG3180 Putative ammonia monooxygenase; InterPro IPR007820:IPR017516; KEGG: opr:Ocepr_1263 membrane protein AbrB duplication; PFAM: Putative ammonia monooxygenase; SPTR: Membrane protein AbrB duplication; TIGRFAM: AbrB duplication, membrane protein 717231002734 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 717231002735 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231002736 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 717231002737 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231002738 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 717231002739 PAS domain; Region: PAS; smart00091 717231002740 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 717231002741 ATP binding site [chemical binding]; other site 717231002742 Mg2+ binding site [ion binding]; other site 717231002743 G-X-G motif; other site 717231002744 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 717231002745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002746 active site 717231002747 phosphorylation site [posttranslational modification] 717231002748 intermolecular recognition site; other site 717231002749 dimerization interface [polypeptide binding]; other site 717231002750 Transcriptional regulator; Region: CitT; pfam12431 717231002751 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 717231002752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 717231002753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 717231002754 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 717231002755 active site 717231002756 substrate binding site [chemical binding]; other site 717231002757 cosubstrate binding site; other site 717231002758 catalytic site [active] 717231002759 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 717231002760 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 717231002761 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 717231002762 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 717231002763 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 717231002764 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 717231002765 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 717231002766 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 717231002767 dimer interface [polypeptide binding]; other site 717231002768 PYR/PP interface [polypeptide binding]; other site 717231002769 TPP binding site [chemical binding]; other site 717231002770 substrate binding site [chemical binding]; other site 717231002771 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 717231002772 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 717231002773 TPP-binding site [chemical binding]; other site 717231002774 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 717231002775 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 717231002776 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231002777 acyl-activating enzyme (AAE) consensus motif; other site 717231002778 AMP binding site [chemical binding]; other site 717231002779 active site 717231002780 CoA binding site [chemical binding]; other site 717231002781 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002782 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 717231002783 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 717231002784 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 717231002785 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 717231002786 dimer interface [polypeptide binding]; other site 717231002787 putative anticodon binding site; other site 717231002788 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 717231002789 motif 1; other site 717231002790 active site 717231002791 motif 2; other site 717231002792 motif 3; other site 717231002793 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 717231002794 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 717231002795 active site 717231002796 metal binding site [ion binding]; metal-binding site 717231002797 homotetramer interface [polypeptide binding]; other site 717231002798 rod shape-determining protein MreB; Provisional; Region: PRK13927 717231002799 MreB and similar proteins; Region: MreB_like; cd10225 717231002800 nucleotide binding site [chemical binding]; other site 717231002801 Mg binding site [ion binding]; other site 717231002802 putative protofilament interaction site [polypeptide binding]; other site 717231002803 RodZ interaction site [polypeptide binding]; other site 717231002804 rod shape-determining protein MreC; Provisional; Region: PRK13922 717231002805 rod shape-determining protein MreC; Region: MreC; pfam04085 717231002806 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 717231002807 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 717231002808 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 717231002809 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 717231002810 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 717231002811 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 717231002812 FeS/SAM binding site; other site 717231002813 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 717231002814 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 717231002815 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 717231002816 metal binding site 2 [ion binding]; metal-binding site 717231002817 putative DNA binding helix; other site 717231002818 metal binding site 1 [ion binding]; metal-binding site 717231002819 dimer interface [polypeptide binding]; other site 717231002820 structural Zn2+ binding site [ion binding]; other site 717231002821 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 717231002822 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 717231002823 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 717231002824 catalytic residues [active] 717231002825 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 717231002826 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 717231002827 IHF - DNA interface [nucleotide binding]; other site 717231002828 IHF dimer interface [polypeptide binding]; other site 717231002829 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 717231002830 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 717231002831 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 717231002832 putative active site [active] 717231002833 dimerization interface [polypeptide binding]; other site 717231002834 putative tRNAtyr binding site [nucleotide binding]; other site 717231002835 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 717231002836 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 717231002837 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 717231002838 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 717231002839 Active_site [active] 717231002840 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 717231002841 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231002842 nucleophile elbow; other site 717231002843 BioY family; Region: BioY; pfam02632 717231002844 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 717231002845 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 717231002846 motif II; other site 717231002847 Fe-S oxidoreductase [Energy production and conversion]; Region: COG1032 717231002848 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 717231002849 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 717231002850 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231002851 catalytic residue [active] 717231002852 YGGT family; Region: YGGT; pfam02325 717231002853 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 717231002854 putative active site [active] 717231002855 TRAM domain; Region: TRAM; cl01282 717231002856 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 717231002857 substrate binding site; other site 717231002858 dimer interface; other site 717231002859 COGs: COG2070 Dioxygenase related to 2-nitropropane dioxygenase; InterPro IPR004136; KEGG: ddf:DEFDS_1829 2-nitropropane dioxygenase; PFAM: 2-nitropropane dioxygenase, NPD; SPTR: 2-nitropropane dioxygenase 717231002860 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 717231002861 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 717231002862 FMN binding site [chemical binding]; other site 717231002863 substrate binding site [chemical binding]; other site 717231002864 putative catalytic residue [active] 717231002865 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231002866 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002867 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002868 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002869 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 717231002870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002871 NAD(P) binding site [chemical binding]; other site 717231002872 active site 717231002873 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 717231002874 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231002875 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231002876 metal binding site [ion binding]; metal-binding site 717231002877 active site 717231002878 I-site; other site 717231002879 B12 binding domain; Region: B12-binding_2; pfam02607 717231002880 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; cd02065 717231002881 B12 binding site [chemical binding]; other site 717231002882 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 717231002883 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 717231002884 P loop; other site 717231002885 Nucleotide binding site [chemical binding]; other site 717231002886 DTAP/Switch II; other site 717231002887 Switch I; other site 717231002888 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 717231002889 Transposase domain (DUF772); Region: DUF772; pfam05598 717231002890 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231002891 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 717231002892 Na2 binding site [ion binding]; other site 717231002893 putative substrate binding site 1 [chemical binding]; other site 717231002894 Na binding site 1 [ion binding]; other site 717231002895 putative substrate binding site 2 [chemical binding]; other site 717231002896 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 717231002897 P-loop containing region of AAA domain; Region: AAA_29; cl17516 717231002898 chromosome segregation protein; Provisional; Region: PRK03918 717231002899 Herpes virus tegument protein U30; Region: Herpes_U30; pfam04523 717231002901 Transcriptional regulators [Transcription]; Region: MarR; COG1846 717231002902 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 717231002903 putative Zn2+ binding site [ion binding]; other site 717231002904 putative DNA binding site [nucleotide binding]; other site 717231002905 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231002906 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 717231002907 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231002908 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231002909 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 717231002910 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 717231002911 G1 box; other site 717231002912 putative GEF interaction site [polypeptide binding]; other site 717231002913 GTP/Mg2+ binding site [chemical binding]; other site 717231002914 Switch I region; other site 717231002915 G2 box; other site 717231002916 G3 box; other site 717231002917 Switch II region; other site 717231002918 G4 box; other site 717231002919 G5 box; other site 717231002920 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 717231002921 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 717231002922 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 717231002923 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 717231002924 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231002925 dimer interface [polypeptide binding]; other site 717231002926 conserved gate region; other site 717231002927 putative PBP binding loops; other site 717231002928 ABC-ATPase subunit interface; other site 717231002929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231002930 dimer interface [polypeptide binding]; other site 717231002931 conserved gate region; other site 717231002932 putative PBP binding loops; other site 717231002933 ABC-ATPase subunit interface; other site 717231002934 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 717231002935 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 717231002936 Walker A/P-loop; other site 717231002937 ATP binding site [chemical binding]; other site 717231002938 Q-loop/lid; other site 717231002939 ABC transporter signature motif; other site 717231002940 Walker B; other site 717231002941 D-loop; other site 717231002942 H-loop/switch region; other site 717231002943 TOBE domain; Region: TOBE_2; pfam08402 717231002944 KEGG: ddf:DEFDS_1305 4-amino-4-deoxychorismate lyase; SPTR: 4-amino-4-deoxychorismate lyase 717231002945 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 717231002946 substrate-cofactor binding pocket; other site 717231002947 chorismate binding enzyme; Region: Chorismate_bind; cl10555 717231002948 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 717231002949 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 717231002950 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231002951 Archaeal ATPase; Region: Arch_ATPase; pfam01637 717231002952 AAA domain; Region: AAA_14; pfam13173 717231002953 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 717231002954 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231002955 Uncharacterized conserved protein [Function unknown]; Region: COG1479 717231002956 Protein of unknown function DUF262; Region: DUF262; pfam03235 717231002957 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 717231002958 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231002959 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 717231002960 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 717231002961 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 717231002962 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 717231002963 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 717231002964 CRISPR-associated protein Cas5, subtype I-B/TNEAP; Region: cas_Cas5t; TIGR01895 717231002965 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 717231002966 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 717231002967 CRISPR-associated autoregulator DevR family; Region: cas_MJ0381; TIGR01875 717231002968 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 717231002969 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 717231002970 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 717231002971 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 717231002972 putative substrate-binding site; other site 717231002973 nickel binding site [ion binding]; other site 717231002974 hydrogenase 2 large subunit; Provisional; Region: PRK10467 717231002975 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 717231002976 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 717231002977 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 717231002978 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 717231002979 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 717231002980 hydrogenase 2 small subunit; Provisional; Region: PRK10468 717231002981 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 717231002982 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 717231002983 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231002984 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 717231002985 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 717231002986 ATP binding site [chemical binding]; other site 717231002987 Walker A motif; other site 717231002988 Walker B motif; other site 717231002989 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 717231002990 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 717231002991 ATP binding site [chemical binding]; other site 717231002992 DEAD_2; Region: DEAD_2; pfam06733 717231002993 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 717231002994 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 717231002995 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 717231002996 active site 717231002997 dimer interface [polypeptide binding]; other site 717231002998 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 717231002999 dimer interface [polypeptide binding]; other site 717231003000 active site 717231003001 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 717231003002 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 717231003003 Ligand Binding Site [chemical binding]; other site 717231003004 TilS substrate C-terminal domain; Region: TilS_C; smart00977 717231003005 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 717231003006 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231003007 active site 717231003008 FtsH Extracellular; Region: FtsH_ext; pfam06480 717231003009 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 717231003010 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 717231003011 Walker A motif; other site 717231003012 ATP binding site [chemical binding]; other site 717231003013 Walker B motif; other site 717231003014 arginine finger; other site 717231003015 Peptidase family M41; Region: Peptidase_M41; pfam01434 717231003016 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 717231003017 dihydropteroate synthase; Region: DHPS; TIGR01496 717231003018 substrate binding pocket [chemical binding]; other site 717231003019 dimer interface [polypeptide binding]; other site 717231003020 inhibitor binding site; inhibition site 717231003021 TIGR00159 family protein; Region: TIGR00159 717231003022 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 717231003023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 717231003024 YbbR-like protein; Region: YbbR; pfam07949 717231003025 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 717231003026 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 717231003027 active site 717231003028 substrate binding site [chemical binding]; other site 717231003029 metal binding site [ion binding]; metal-binding site 717231003030 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 717231003031 active site 717231003032 hydrophilic channel; other site 717231003033 dimerization interface [polypeptide binding]; other site 717231003034 catalytic residues [active] 717231003035 active site lid [active] 717231003036 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 717231003037 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 717231003038 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 717231003039 Ligand binding site; other site 717231003040 oligomer interface; other site 717231003041 CTP synthetase; Validated; Region: pyrG; PRK05380 717231003042 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 717231003043 Catalytic site [active] 717231003044 active site 717231003045 UTP binding site [chemical binding]; other site 717231003046 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 717231003047 active site 717231003048 putative oxyanion hole; other site 717231003049 catalytic triad [active] 717231003050 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 717231003051 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 717231003052 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 717231003053 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 717231003054 putative active site [active] 717231003055 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 717231003056 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 717231003057 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 717231003058 active site 717231003059 motif I; other site 717231003060 motif II; other site 717231003061 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 717231003062 OstA-like protein; Region: OstA; pfam03968 717231003063 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 717231003064 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 717231003065 Walker A/P-loop; other site 717231003066 ATP binding site [chemical binding]; other site 717231003067 Q-loop/lid; other site 717231003068 ABC transporter signature motif; other site 717231003069 Walker B; other site 717231003070 D-loop; other site 717231003071 H-loop/switch region; other site 717231003072 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 717231003073 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 717231003074 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 717231003075 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 717231003076 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 717231003077 30S subunit binding site; other site 717231003078 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 717231003079 active site 717231003080 phosphorylation site [posttranslational modification] 717231003081 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 717231003082 Hpr(Ser) kinase/phosphatase; Region: hpr-ser; TIGR00679 717231003083 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 717231003084 Hpr binding site; other site 717231003085 active site 717231003086 homohexamer subunit interaction site [polypeptide binding]; other site 717231003087 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 717231003088 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 717231003089 active pocket/dimerization site; other site 717231003090 active site 717231003091 phosphorylation site [posttranslational modification] 717231003092 PTS system sorbose subfamily IIB component; Region: PTSIIB_sorb; pfam03830 717231003093 active site 717231003094 phosphorylation site [posttranslational modification] 717231003095 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 717231003096 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 717231003097 dimerization domain swap beta strand [polypeptide binding]; other site 717231003098 regulatory protein interface [polypeptide binding]; other site 717231003099 active site 717231003100 regulatory phosphorylation site [posttranslational modification]; other site 717231003101 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 717231003102 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 717231003103 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 717231003104 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 717231003105 Predicted permease; Region: DUF318; cl17795 717231003106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231003107 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003108 active site 717231003109 phosphorylation site [posttranslational modification] 717231003110 intermolecular recognition site; other site 717231003111 dimerization interface [polypeptide binding]; other site 717231003112 Uncharacterized conserved protein [Function unknown]; Region: COG0327 717231003113 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 717231003114 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 717231003115 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 717231003116 Uncharacterized conserved protein [Function unknown]; Region: COG0327 717231003117 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 717231003118 Putative zinc ribbon domain; Region: DUF164; pfam02591 717231003119 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 717231003120 RNA/DNA hybrid binding site [nucleotide binding]; other site 717231003121 active site 717231003122 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 717231003123 ZIP Zinc transporter; Region: Zip; pfam02535 717231003124 Predicted methyltransferases [General function prediction only]; Region: COG0313 717231003125 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 717231003126 putative SAM binding site [chemical binding]; other site 717231003127 putative homodimer interface [polypeptide binding]; other site 717231003128 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 717231003129 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 717231003130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231003131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231003132 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 717231003133 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 717231003134 dimerization interface [polypeptide binding]; other site 717231003135 active site 717231003136 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 717231003137 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 717231003138 HIGH motif; other site 717231003139 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 717231003140 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 717231003141 active site 717231003142 KMSKS motif; other site 717231003143 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 717231003144 tRNA binding surface [nucleotide binding]; other site 717231003145 anticodon binding site; other site 717231003146 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 717231003147 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 717231003148 Uncharacterized conserved protein [Function unknown]; Region: COG0062 717231003149 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 717231003150 putative substrate binding site [chemical binding]; other site 717231003151 putative ATP binding site [chemical binding]; other site 717231003152 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 717231003153 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 717231003154 putative ribose interaction site [chemical binding]; other site 717231003155 putative ADP binding site [chemical binding]; other site 717231003156 Trm112p-like protein; Region: Trm112p; cl01066 717231003157 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003158 DctM-like transporters; Region: DctM; pfam06808 717231003159 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 717231003160 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 717231003161 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 717231003162 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 717231003163 COGs: COG1121 ABC-type Mn/Zn transport systems ATPase component; InterPro IPR003439:IPR003593; KEGG: drt:Dret_0026 ABC transporter related; PFAM: ABC transporter-like; PRIAM: Phosphonate-transporting ATPase; SMART: ATPase, AAA+ type, core; SPTR: ABC transporter related protein 717231003164 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 717231003165 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 717231003166 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 717231003167 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 717231003168 ABC-ATPase subunit interface; other site 717231003169 dimer interface [polypeptide binding]; other site 717231003170 putative PBP binding regions; other site 717231003171 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 717231003172 PAS fold; Region: PAS_4; pfam08448 717231003173 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231003174 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 717231003175 phosphorylation site [posttranslational modification] 717231003176 dimer interface [polypeptide binding]; other site 717231003177 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 717231003178 ATP binding site [chemical binding]; other site 717231003179 Mg2+ binding site [ion binding]; other site 717231003180 G-X-G motif; other site 717231003181 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003182 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003183 active site 717231003184 phosphorylation site [posttranslational modification] 717231003185 intermolecular recognition site; other site 717231003186 dimerization interface [polypeptide binding]; other site 717231003187 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 717231003188 Walker A motif; other site 717231003189 ATP binding site [chemical binding]; other site 717231003190 Walker B motif; other site 717231003191 arginine finger; other site 717231003192 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 717231003193 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 717231003194 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 717231003195 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 717231003196 S-adenosylmethionine binding site [chemical binding]; other site 717231003197 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 717231003198 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 717231003199 active site 717231003200 metal binding site [ion binding]; metal-binding site 717231003201 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 717231003202 RNA methyltransferase, RsmE family; Region: TIGR00046 717231003203 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 717231003204 nucleoside/Zn binding site; other site 717231003205 dimer interface [polypeptide binding]; other site 717231003206 catalytic motif [active] 717231003207 Transposase; Region: HTH_Tnp_1; pfam01527 717231003208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 717231003209 putative transposase OrfB; Reviewed; Region: PHA02517 717231003210 HTH-like domain; Region: HTH_21; pfam13276 717231003211 Integrase core domain; Region: rve; pfam00665 717231003212 Integrase core domain; Region: rve_3; pfam13683 717231003213 Thioredoxin; Region: Thioredoxin_4; cl17273 717231003214 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 717231003215 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 717231003216 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 717231003217 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 717231003218 ATP binding site [chemical binding]; other site 717231003219 Mg2+ binding site [ion binding]; other site 717231003220 G-X-G motif; other site 717231003221 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 717231003222 ATP binding site [chemical binding]; other site 717231003223 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 717231003224 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 717231003225 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 717231003226 bacterial Hfq-like; Region: Hfq; cd01716 717231003227 hexamer interface [polypeptide binding]; other site 717231003228 Sm1 motif; other site 717231003229 RNA binding site [nucleotide binding]; other site 717231003230 Sm2 motif; other site 717231003231 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 717231003232 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 717231003233 Septum formation initiator; Region: DivIC; pfam04977 717231003234 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 717231003235 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 717231003236 generic binding surface II; other site 717231003237 generic binding surface I; other site 717231003238 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 717231003239 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 717231003240 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 717231003241 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231003242 Transposase domain (DUF772); Region: DUF772; pfam05598 717231003243 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231003244 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231003245 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 717231003246 Uncharacterized conserved protein [Function unknown]; Region: COG2006 717231003247 Domain of unknown function (DUF362); Region: DUF362; pfam04015 717231003248 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 717231003249 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 717231003250 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 717231003251 catalytic motif [active] 717231003252 Zn binding site [ion binding]; other site 717231003253 RibD C-terminal domain; Region: RibD_C; cl17279 717231003254 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 717231003255 Lumazine binding domain; Region: Lum_binding; pfam00677 717231003256 Lumazine binding domain; Region: Lum_binding; pfam00677 717231003257 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 717231003258 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 717231003259 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 717231003260 dimerization interface [polypeptide binding]; other site 717231003261 active site 717231003262 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 717231003263 homopentamer interface [polypeptide binding]; other site 717231003264 active site 717231003265 NusB family; Region: NusB; pfam01029 717231003266 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 717231003267 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 717231003268 generic binding surface I; other site 717231003269 generic binding surface II; other site 717231003270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231003271 Zn2+ binding site [ion binding]; other site 717231003272 Mg2+ binding site [ion binding]; other site 717231003273 Permease family; Region: Xan_ur_permease; pfam00860 717231003274 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231003275 active site 717231003276 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 717231003277 Major Facilitator Superfamily; Region: MFS_1; pfam07690 717231003278 putative substrate translocation pore; other site 717231003279 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 717231003280 Na2 binding site [ion binding]; other site 717231003281 putative substrate binding site 1 [chemical binding]; other site 717231003282 Na binding site 1 [ion binding]; other site 717231003283 putative substrate binding site 2 [chemical binding]; other site 717231003284 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 717231003285 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 717231003286 ligand binding site [chemical binding]; other site 717231003287 NAD binding site [chemical binding]; other site 717231003288 dimerization interface [polypeptide binding]; other site 717231003289 catalytic site [active] 717231003290 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 717231003291 putative L-serine binding site [chemical binding]; other site 717231003292 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 717231003293 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 717231003294 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 717231003295 nucleotide binding site [chemical binding]; other site 717231003296 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 717231003297 putative cation:proton antiport protein; Provisional; Region: PRK10669 717231003298 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 717231003299 TrkA-N domain; Region: TrkA_N; pfam02254 717231003300 TrkA-C domain; Region: TrkA_C; pfam02080 717231003301 threonine dehydratase; Provisional; Region: PRK08198 717231003302 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 717231003303 tetramer interface [polypeptide binding]; other site 717231003304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231003305 catalytic residue [active] 717231003306 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 717231003307 Transposase domain (DUF772); Region: DUF772; pfam05598 717231003308 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231003309 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 717231003310 LexA repressor; Validated; Region: PRK00215 717231003311 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 717231003312 Catalytic site [active] 717231003313 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 717231003314 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 717231003315 active site 717231003316 DNA binding site [nucleotide binding] 717231003317 4Fe-4S binding domain; Region: Fer4; pfam00037 717231003318 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231003319 4Fe-4S binding domain; Region: Fer4; pfam00037 717231003320 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231003321 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 717231003322 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 717231003323 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 717231003324 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 717231003325 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_Formate-Dh-Na-like; cd02752 717231003326 [4Fe-4S] binding site [ion binding]; other site 717231003327 molybdopterin cofactor binding site; other site 717231003328 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 717231003329 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 717231003330 molybdopterin cofactor binding site; other site 717231003331 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 717231003332 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 717231003333 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 717231003334 Transposase domain (DUF772); Region: DUF772; pfam05598 717231003335 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231003336 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 717231003337 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 717231003338 active site 717231003339 Zn binding site [ion binding]; other site 717231003340 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 717231003341 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 717231003342 dimerization interface [polypeptide binding]; other site 717231003343 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 717231003344 ATP binding site [chemical binding]; other site 717231003345 Mg2+ binding site [ion binding]; other site 717231003346 G-X-G motif; other site 717231003347 Chemotaxis phosphatase CheX; Region: CheX; cl15816 717231003348 Response regulator receiver domain; Region: Response_reg; pfam00072 717231003349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003350 active site 717231003351 phosphorylation site [posttranslational modification] 717231003352 intermolecular recognition site; other site 717231003353 dimerization interface [polypeptide binding]; other site 717231003354 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231003355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231003356 metal binding site [ion binding]; metal-binding site 717231003357 active site 717231003358 I-site; other site 717231003359 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231003360 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231003361 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 717231003362 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 717231003363 Ligand Binding Site [chemical binding]; other site 717231003364 6-phosphofructokinase; Provisional; Region: PRK03202 717231003365 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 717231003366 active site 717231003367 ADP/pyrophosphate binding site [chemical binding]; other site 717231003368 dimerization interface [polypeptide binding]; other site 717231003369 allosteric effector site; other site 717231003370 fructose-1,6-bisphosphate binding site; other site 717231003371 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 717231003372 Yqey-like protein; Region: YqeY; pfam09424 717231003373 Colicin V production protein; Region: Colicin_V; pfam02674 717231003374 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 717231003375 MutS domain III; Region: MutS_III; pfam05192 717231003376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231003377 Walker A/P-loop; other site 717231003378 ATP binding site [chemical binding]; other site 717231003379 Q-loop/lid; other site 717231003380 ABC transporter signature motif; other site 717231003381 Walker B; other site 717231003382 D-loop; other site 717231003383 H-loop/switch region; other site 717231003384 Smr domain; Region: Smr; pfam01713 717231003385 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 717231003386 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 717231003387 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 717231003388 Esterase/lipase [General function prediction only]; Region: COG1647 717231003389 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 717231003390 pyrroline-5-carboxylate reductase; Region: PLN02688 717231003391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 717231003392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 717231003393 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 717231003394 Predicted permease [General function prediction only]; Region: COG2985 717231003395 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 717231003396 TrkA-C domain; Region: TrkA_C; pfam02080 717231003397 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 717231003398 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231003399 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003400 COGs: COG1280 Putative threonine efflux protein; InterPro IPR001123; KEGG: pca:Pcar_0784 amino acid efflux/transport protein; PFAM: Lysine exporter protein (LYSE/YGGA); SPTR: Amino acid efflux/transport protein 717231003401 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 717231003402 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 717231003403 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 717231003404 Cl binding site [ion binding]; other site 717231003405 oligomer interface [polypeptide binding]; other site 717231003406 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 717231003407 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 717231003408 Walker A/P-loop; other site 717231003409 ATP binding site [chemical binding]; other site 717231003410 Q-loop/lid; other site 717231003411 ABC transporter signature motif; other site 717231003412 Walker B; other site 717231003413 D-loop; other site 717231003414 H-loop/switch region; other site 717231003415 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 717231003416 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 717231003417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231003418 dimer interface [polypeptide binding]; other site 717231003419 conserved gate region; other site 717231003420 ABC-ATPase subunit interface; other site 717231003421 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 717231003422 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 717231003423 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 717231003424 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231003425 Walker A/P-loop; other site 717231003426 ATP binding site [chemical binding]; other site 717231003427 Q-loop/lid; other site 717231003428 ABC transporter signature motif; other site 717231003429 Walker B; other site 717231003430 D-loop; other site 717231003431 H-loop/switch region; other site 717231003432 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231003433 DNA primase; Validated; Region: dnaG; PRK05667 717231003434 CHC2 zinc finger; Region: zf-CHC2; pfam01807 717231003435 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 717231003436 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 717231003437 active site 717231003438 metal binding site [ion binding]; metal-binding site 717231003439 interdomain interaction site; other site 717231003440 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 717231003441 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 717231003442 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231003443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231003444 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231003445 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 717231003446 DNA binding residues [nucleotide binding] 717231003447 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 717231003448 active site 717231003449 dimer interface [polypeptide binding]; other site 717231003450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231003451 active site 717231003452 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231003453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003454 active site 717231003455 phosphorylation site [posttranslational modification] 717231003456 intermolecular recognition site; other site 717231003457 dimerization interface [polypeptide binding]; other site 717231003458 PAS domain; Region: PAS; smart00091 717231003459 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 717231003460 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 717231003461 dimer interface [polypeptide binding]; other site 717231003462 phosphorylation site [posttranslational modification] 717231003463 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 717231003464 ATP binding site [chemical binding]; other site 717231003465 Mg2+ binding site [ion binding]; other site 717231003466 G-X-G motif; other site 717231003467 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231003468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231003469 metal binding site [ion binding]; metal-binding site 717231003470 active site 717231003471 I-site; other site 717231003472 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 717231003473 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 717231003474 FeS/SAM binding site; other site 717231003475 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 717231003476 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 717231003477 DNA binding residues [nucleotide binding] 717231003478 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 717231003479 IHF - DNA interface [nucleotide binding]; other site 717231003480 IHF dimer interface [polypeptide binding]; other site 717231003481 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 717231003482 elongation factor G; Reviewed; Region: PRK12740 717231003483 G1 box; other site 717231003484 putative GEF interaction site [polypeptide binding]; other site 717231003485 GTP/Mg2+ binding site [chemical binding]; other site 717231003486 Switch I region; other site 717231003487 G2 box; other site 717231003488 G3 box; other site 717231003489 Switch II region; other site 717231003490 G4 box; other site 717231003491 G5 box; other site 717231003492 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 717231003493 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 717231003494 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 717231003495 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 717231003496 HflK protein; Region: hflK; TIGR01933 717231003497 HflC protein; Region: hflC; TIGR01932 717231003498 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 717231003499 homoserine dehydrogenase; Provisional; Region: PRK06349 717231003500 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 717231003501 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 717231003502 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 717231003503 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 717231003504 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: PhosphMutase; cl17294 717231003505 aspartate kinase; Reviewed; Region: PRK06635 717231003506 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 717231003507 putative catalytic residues [active] 717231003508 putative nucleotide binding site [chemical binding]; other site 717231003509 putative aspartate binding site [chemical binding]; other site 717231003510 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 717231003511 putative allosteric regulatory site; other site 717231003512 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 717231003513 putative allosteric regulatory residue; other site 717231003514 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 717231003515 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 717231003516 active site 717231003517 catalytic residues [active] 717231003518 metal binding site [ion binding]; metal-binding site 717231003519 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 717231003520 glutamate racemase; Provisional; Region: PRK00865 717231003521 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 717231003522 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 717231003523 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 717231003524 active site 717231003525 dimer interface [polypeptide binding]; other site 717231003526 effector binding site; other site 717231003527 TSCPD domain; Region: TSCPD; pfam12637 717231003528 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 717231003529 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 717231003530 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; Region: PHP_HisPPase; cd07432 717231003531 active site 717231003532 hypothetical protein; Provisional; Region: PRK06361 717231003533 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 717231003534 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 717231003535 dimer interface [polypeptide binding]; other site 717231003536 PYR/PP interface [polypeptide binding]; other site 717231003537 TPP binding site [chemical binding]; other site 717231003538 substrate binding site [chemical binding]; other site 717231003539 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 717231003540 TPP-binding site; other site 717231003541 4Fe-4S binding domain; Region: Fer4; pfam00037 717231003542 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 717231003543 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231003544 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 717231003545 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 717231003546 active site 717231003547 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 717231003548 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 717231003549 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 717231003550 GTP binding site; other site 717231003551 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 717231003552 excinuclease ABC subunit B; Provisional; Region: PRK05298 717231003553 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 717231003554 ATP binding site [chemical binding]; other site 717231003555 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 717231003556 nucleotide binding region [chemical binding]; other site 717231003557 ATP-binding site [chemical binding]; other site 717231003558 Ultra-violet resistance protein B; Region: UvrB; pfam12344 717231003559 UvrB/uvrC motif; Region: UVR; pfam02151 717231003560 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 717231003561 Transglycosylase; Region: Transgly; pfam00912 717231003562 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 717231003563 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 717231003564 phosphorylation site [posttranslational modification] 717231003565 dimer interface [polypeptide binding]; other site 717231003566 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 717231003567 ATP binding site [chemical binding]; other site 717231003568 Mg2+ binding site [ion binding]; other site 717231003569 G-X-G motif; other site 717231003570 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003571 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003572 active site 717231003573 phosphorylation site [posttranslational modification] 717231003574 intermolecular recognition site; other site 717231003575 dimerization interface [polypeptide binding]; other site 717231003576 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 717231003577 Walker A motif; other site 717231003578 ATP binding site [chemical binding]; other site 717231003579 Walker B motif; other site 717231003580 arginine finger; other site 717231003581 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 717231003582 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003583 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 717231003584 non-specific DNA binding site [nucleotide binding]; other site 717231003585 salt bridge; other site 717231003586 sequence-specific DNA binding site [nucleotide binding]; other site 717231003587 Cupin domain; Region: Cupin_2; pfam07883 717231003588 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 717231003589 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 717231003590 trimer interface [polypeptide binding]; other site 717231003591 putative metal binding site [ion binding]; other site 717231003592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231003593 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 717231003594 dimer interface [polypeptide binding]; other site 717231003595 phosphorylation site [posttranslational modification] 717231003596 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003597 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 717231003598 non-specific DNA binding site [nucleotide binding]; other site 717231003599 salt bridge; other site 717231003600 sequence-specific DNA binding site [nucleotide binding]; other site 717231003601 Cupin domain; Region: Cupin_2; pfam07883 717231003602 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 717231003603 oligomerization interface [polypeptide binding]; other site 717231003604 active site 717231003605 metal binding site [ion binding]; metal-binding site 717231003606 pantoate--beta-alanine ligase; Region: panC; TIGR00018 717231003607 Pantoate-beta-alanine ligase; Region: PanC; cd00560 717231003608 active site 717231003609 ATP-binding site [chemical binding]; other site 717231003610 pantoate-binding site; other site 717231003611 HXXH motif; other site 717231003612 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 717231003613 tetramerization interface [polypeptide binding]; other site 717231003614 active site 717231003615 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 717231003616 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 717231003617 ssDNA binding site; other site 717231003618 generic binding surface II; other site 717231003619 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 717231003620 ATP binding site [chemical binding]; other site 717231003621 putative Mg++ binding site [ion binding]; other site 717231003622 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 717231003623 nucleotide binding region [chemical binding]; other site 717231003624 ATP-binding site [chemical binding]; other site 717231003625 Uncharacterized conserved protein [Function unknown]; Region: COG4715 717231003626 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 717231003627 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 717231003628 ATP binding site [chemical binding]; other site 717231003629 putative Mg++ binding site [ion binding]; other site 717231003630 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 717231003631 nucleotide binding region [chemical binding]; other site 717231003632 ATP-binding site [chemical binding]; other site 717231003633 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 717231003634 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 717231003635 active site 717231003636 substrate binding site [chemical binding]; other site 717231003637 catalytic site [active] 717231003638 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231003639 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 717231003640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231003641 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231003642 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 717231003643 DNA binding residues [nucleotide binding] 717231003644 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 717231003645 Clp amino terminal domain; Region: Clp_N; pfam02861 717231003646 Clp amino terminal domain; Region: Clp_N; pfam02861 717231003647 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 717231003648 Walker A motif; other site 717231003649 ATP binding site [chemical binding]; other site 717231003650 Walker B motif; other site 717231003651 arginine finger; other site 717231003652 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 717231003653 Walker A motif; other site 717231003654 ATP binding site [chemical binding]; other site 717231003655 Walker B motif; other site 717231003656 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 717231003657 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 717231003658 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 717231003659 DNA binding residues [nucleotide binding] 717231003660 putative dimer interface [polypeptide binding]; other site 717231003661 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 717231003662 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 717231003663 HSP70 interaction site [polypeptide binding]; other site 717231003664 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 717231003665 Zn binding sites [ion binding]; other site 717231003666 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 717231003667 dimer interface [polypeptide binding]; other site 717231003668 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 717231003669 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 717231003670 putative dimer interface [polypeptide binding]; other site 717231003671 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 717231003672 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 717231003673 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 717231003674 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 717231003675 heme-binding residues [chemical binding]; other site 717231003676 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003677 COGs: COG1198 Primosomal protein N' (replication factor Y) - superfamily II helicase; InterPro IPR011545:IPR001650:IPR014001:IPR005259; KEGG: dap:Dacet_1190 primosomal protein N'; PFAM: DNA/RNA helicase, DEAD/DEAH box type, N-terminal; DNA/RNA helicase, C-terminal; SMART: DEAD-like helicase, N-terminal; DNA/RNA helicase, C-terminal; SPTR: Primosomal protein N'; TIGRFAM: Primosomal protein n 717231003678 primosome assembly protein PriA; Validated; Region: PRK05580 717231003679 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 717231003680 ATP binding site [chemical binding]; other site 717231003681 putative Mg++ binding site [ion binding]; other site 717231003682 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 717231003683 ATP-binding site [chemical binding]; other site 717231003684 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 717231003685 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 717231003686 substrate binding site [chemical binding]; other site 717231003687 active site 717231003688 Ferrochelatase; Region: Ferrochelatase; pfam00762 717231003689 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 717231003690 C-terminal domain interface [polypeptide binding]; other site 717231003691 active site 717231003692 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 717231003693 active site 717231003694 N-terminal domain interface [polypeptide binding]; other site 717231003695 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 717231003696 UbiA prenyltransferase family; Region: UbiA; pfam01040 717231003697 aromatic acid decarboxylase; Validated; Region: PRK05920 717231003698 Flavoprotein; Region: Flavoprotein; pfam02441 717231003699 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 717231003700 Protein of unknown function (DUF3753); Region: DUF3753; cl17242 717231003701 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 717231003702 L-aspartate oxidase; Provisional; Region: PRK06175 717231003703 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 717231003704 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 717231003705 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231003706 enolase; Provisional; Region: eno; PRK00077 717231003707 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 717231003708 dimer interface [polypeptide binding]; other site 717231003709 metal binding site [ion binding]; metal-binding site 717231003710 substrate binding pocket [chemical binding]; other site 717231003711 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 717231003712 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 717231003713 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 717231003714 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 717231003715 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 717231003716 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231003717 Transcriptional regulator; Region: Rrf2; pfam02082 717231003718 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 717231003719 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 717231003720 putative acyl-acceptor binding pocket; other site 717231003721 hypothetical protein; Provisional; Region: PRK08960 717231003722 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 717231003723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231003724 homodimer interface [polypeptide binding]; other site 717231003725 catalytic residue [active] 717231003726 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 717231003727 Response regulator receiver domain; Region: Response_reg; pfam00072 717231003728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003729 active site 717231003730 phosphorylation site [posttranslational modification] 717231003731 intermolecular recognition site; other site 717231003732 dimerization interface [polypeptide binding]; other site 717231003733 GAF domain; Region: GAF_3; pfam13492 717231003734 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 717231003735 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231003736 Zn2+ binding site [ion binding]; other site 717231003737 Mg2+ binding site [ion binding]; other site 717231003738 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 717231003739 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 717231003740 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 717231003741 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 717231003742 NADP binding site [chemical binding]; other site 717231003743 homopentamer interface [polypeptide binding]; other site 717231003744 substrate binding site [chemical binding]; other site 717231003745 active site 717231003746 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 717231003747 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 717231003748 spermidine synthase; Provisional; Region: PRK00811 717231003749 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 717231003750 S-adenosylmethionine binding site [chemical binding]; other site 717231003751 agmatinase; Region: agmatinase; TIGR01230 717231003752 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 717231003753 putative active site [active] 717231003754 Mn binding site [ion binding]; other site 717231003755 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 717231003756 IHF dimer interface [polypeptide binding]; other site 717231003757 IHF - DNA interface [nucleotide binding]; other site 717231003758 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003759 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 717231003760 non-specific DNA binding site [nucleotide binding]; other site 717231003761 salt bridge; other site 717231003762 sequence-specific DNA binding site [nucleotide binding]; other site 717231003763 Cupin domain; Region: Cupin_2; pfam07883 717231003764 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231003765 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 717231003766 acyl-activating enzyme (AAE) consensus motif; other site 717231003767 AMP binding site [chemical binding]; other site 717231003768 active site 717231003769 CoA binding site [chemical binding]; other site 717231003770 ACT domain-containing protein [General function prediction only]; Region: COG4747 717231003771 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 717231003772 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 717231003773 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231003774 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 717231003775 putative ligand binding site [chemical binding]; other site 717231003776 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231003777 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 717231003778 putative ligand binding site [chemical binding]; other site 717231003779 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 717231003780 TM-ABC transporter signature motif; other site 717231003781 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 717231003782 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 717231003783 TM-ABC transporter signature motif; other site 717231003784 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231003785 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 717231003786 Walker A/P-loop; other site 717231003787 ATP binding site [chemical binding]; other site 717231003788 Q-loop/lid; other site 717231003789 ABC transporter signature motif; other site 717231003790 Walker B; other site 717231003791 D-loop; other site 717231003792 H-loop/switch region; other site 717231003793 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231003794 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 717231003795 Walker A/P-loop; other site 717231003796 ATP binding site [chemical binding]; other site 717231003797 Q-loop/lid; other site 717231003798 ABC transporter signature motif; other site 717231003799 Walker B; other site 717231003800 D-loop; other site 717231003801 H-loop/switch region; other site 717231003802 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 717231003803 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231003804 acyl-activating enzyme (AAE) consensus motif; other site 717231003805 AMP binding site [chemical binding]; other site 717231003806 active site 717231003807 CoA binding site [chemical binding]; other site 717231003808 HD domain; Region: HD_3; pfam13023 717231003809 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 717231003810 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 717231003811 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 717231003812 PhoU domain; Region: PhoU; pfam01895 717231003813 PhoU domain; Region: PhoU; pfam01895 717231003814 exopolyphosphatase; Region: exo_poly_only; TIGR03706 717231003815 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 717231003816 nucleotide binding site [chemical binding]; other site 717231003817 Protein of unknown function (DUF445); Region: DUF445; pfam04286 717231003818 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 717231003819 Peptidase family M50; Region: Peptidase_M50; pfam02163 717231003820 active site 717231003821 putative substrate binding region [chemical binding]; other site 717231003822 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 717231003823 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 717231003824 active site 717231003825 HIGH motif; other site 717231003826 dimer interface [polypeptide binding]; other site 717231003827 KMSKS motif; other site 717231003828 ScpA/B protein; Region: ScpA_ScpB; cl00598 717231003829 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 717231003830 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 717231003831 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 717231003832 RNA binding surface [nucleotide binding]; other site 717231003833 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 717231003834 active site 717231003835 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 717231003836 active site 717231003837 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 717231003838 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 717231003839 FeS/SAM binding site; other site 717231003840 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 717231003841 binding surface 717231003842 TPR motif; other site 717231003843 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 717231003844 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231003845 binding surface 717231003846 TPR motif; other site 717231003847 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231003848 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 717231003849 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 717231003850 Walker A motif; other site 717231003851 ATP binding site [chemical binding]; other site 717231003852 Walker B motif; other site 717231003853 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 717231003854 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 717231003855 dimerization interface [polypeptide binding]; other site 717231003856 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 717231003857 dimer interface [polypeptide binding]; other site 717231003858 phosphorylation site [posttranslational modification] 717231003859 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 717231003860 ATP binding site [chemical binding]; other site 717231003861 Mg2+ binding site [ion binding]; other site 717231003862 G-X-G motif; other site 717231003863 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003865 active site 717231003866 phosphorylation site [posttranslational modification] 717231003867 intermolecular recognition site; other site 717231003868 dimerization interface [polypeptide binding]; other site 717231003869 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 717231003870 Walker A motif; other site 717231003871 ATP binding site [chemical binding]; other site 717231003872 Walker B motif; other site 717231003873 arginine finger; other site 717231003874 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 717231003875 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 717231003876 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 717231003877 heterodimer interface [polypeptide binding]; other site 717231003878 active site 717231003879 FMN binding site [chemical binding]; other site 717231003880 homodimer interface [polypeptide binding]; other site 717231003881 substrate binding site [chemical binding]; other site 717231003882 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 717231003883 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 717231003884 FAD binding pocket [chemical binding]; other site 717231003885 FAD binding motif [chemical binding]; other site 717231003886 phosphate binding motif [ion binding]; other site 717231003887 beta-alpha-beta structure motif; other site 717231003888 NAD binding pocket [chemical binding]; other site 717231003889 Iron coordination center [ion binding]; other site 717231003890 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 717231003891 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231003892 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 717231003893 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 717231003894 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231003895 ATP-grasp domain; Region: ATP-grasp_4; cl17255 717231003896 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 717231003897 IMP binding site; other site 717231003898 dimer interface [polypeptide binding]; other site 717231003899 interdomain contacts; other site 717231003900 partial ornithine binding site; other site 717231003901 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 717231003902 PAS domain; Region: PAS; smart00091 717231003903 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 717231003904 dimer interface [polypeptide binding]; other site 717231003905 phosphorylation site [posttranslational modification] 717231003906 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 717231003907 ATP binding site [chemical binding]; other site 717231003908 Mg2+ binding site [ion binding]; other site 717231003909 G-X-G motif; other site 717231003910 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 717231003911 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 717231003912 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 717231003913 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 717231003914 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 717231003915 Walker A motif; other site 717231003916 ATP binding site [chemical binding]; other site 717231003917 Walker B motif; other site 717231003918 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 717231003919 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231003920 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 717231003921 Walker A motif; other site 717231003922 ATP binding site [chemical binding]; other site 717231003923 Walker B motif; other site 717231003924 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 717231003925 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 717231003926 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 717231003927 shikimate binding site; other site 717231003928 NAD(P) binding site [chemical binding]; other site 717231003929 Uncharacterized conserved protein [Function unknown]; Region: COG2928 717231003930 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 717231003931 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 717231003932 Ferredoxin [Energy production and conversion]; Region: COG1146 717231003933 4Fe-4S binding domain; Region: Fer4; pfam00037 717231003934 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 717231003935 phosphate binding site [ion binding]; other site 717231003936 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 717231003937 domain_subunit interface; other site 717231003938 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 717231003939 active site 717231003940 NADPH-dependent glutamate synthase beta chain and related oxidoreductases [Amino acid transport and metabolism / General function prediction only]; Region: GltD; COG0493 717231003941 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231003942 hypothetical protein; Provisional; Region: PRK08609 717231003943 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 717231003944 active site 717231003945 primer binding site [nucleotide binding]; other site 717231003946 NTP binding site [chemical binding]; other site 717231003947 metal binding triad [ion binding]; metal-binding site 717231003948 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 717231003949 active site 717231003950 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 717231003951 HD domain; Region: HD_3; pfam13023 717231003952 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 717231003953 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231003954 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003955 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 717231003956 DctM-like transporters; Region: DctM; pfam06808 717231003957 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231003958 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231003959 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003960 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 717231003961 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 717231003962 catalytic residues [active] 717231003963 FOG: CBS domain [General function prediction only]; Region: COG0517 717231003964 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 717231003965 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231003966 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 717231003967 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231003968 acyl-activating enzyme (AAE) consensus motif; other site 717231003969 active site 717231003970 AMP binding site [chemical binding]; other site 717231003971 CoA binding site [chemical binding]; other site 717231003972 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231003973 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 717231003974 Walker A/P-loop; other site 717231003975 ATP binding site [chemical binding]; other site 717231003976 Q-loop/lid; other site 717231003977 ABC transporter signature motif; other site 717231003978 Walker B; other site 717231003979 D-loop; other site 717231003980 H-loop/switch region; other site 717231003981 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 717231003982 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231003983 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 717231003984 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 717231003985 TM-ABC transporter signature motif; other site 717231003986 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 717231003987 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 717231003988 TM-ABC transporter signature motif; other site 717231003989 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231003990 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 717231003991 acyl-activating enzyme (AAE) consensus motif; other site 717231003992 putative AMP binding site [chemical binding]; other site 717231003993 putative active site [active] 717231003994 putative CoA binding site [chemical binding]; other site 717231003995 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231003996 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 717231003997 Walker A/P-loop; other site 717231003998 ATP binding site [chemical binding]; other site 717231003999 Q-loop/lid; other site 717231004000 ABC transporter signature motif; other site 717231004001 Walker B; other site 717231004002 D-loop; other site 717231004003 H-loop/switch region; other site 717231004004 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 717231004005 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 717231004006 catalytic residues [active] 717231004007 Membrane protein of unknown function (DUF340); Region: DUF340; pfam03956 717231004008 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 717231004009 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 717231004010 FeS/SAM binding site; other site 717231004011 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 717231004012 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; pfam01258 717231004013 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231004014 dimer interface [polypeptide binding]; other site 717231004015 conserved gate region; other site 717231004016 ABC-ATPase subunit interface; other site 717231004017 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 717231004018 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 717231004019 Walker A/P-loop; other site 717231004020 ATP binding site [chemical binding]; other site 717231004021 Q-loop/lid; other site 717231004022 ABC transporter signature motif; other site 717231004023 Walker B; other site 717231004024 D-loop; other site 717231004025 H-loop/switch region; other site 717231004026 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 717231004027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231004028 dimer interface [polypeptide binding]; other site 717231004029 conserved gate region; other site 717231004030 ABC-ATPase subunit interface; other site 717231004031 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 717231004032 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 717231004033 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231004034 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231004035 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231004036 metal binding site [ion binding]; metal-binding site 717231004037 active site 717231004038 I-site; other site 717231004039 EamA-like transporter family; Region: EamA; pfam00892 717231004040 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 717231004041 EamA-like transporter family; Region: EamA; pfam00892 717231004042 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004043 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004044 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231004045 KEGG: cni:Calni_0838 hypothetical protein; SPTR: Putative uncharacterized protein 717231004046 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 717231004047 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231004048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231004049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231004050 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231004051 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004052 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231004053 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 717231004054 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 717231004055 S-adenosylmethionine binding site [chemical binding]; other site 717231004056 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231004057 PAS domain; Region: PAS; smart00091 717231004058 PAS domain; Region: PAS_9; pfam13426 717231004059 PAS domain S-box; Region: sensory_box; TIGR00229 717231004060 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 717231004061 putative active site [active] 717231004062 heme pocket [chemical binding]; other site 717231004063 PAS domain S-box; Region: sensory_box; TIGR00229 717231004064 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 717231004065 putative active site [active] 717231004066 heme pocket [chemical binding]; other site 717231004067 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 717231004068 dimer interface [polypeptide binding]; other site 717231004069 phosphorylation site [posttranslational modification] 717231004070 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 717231004071 ATP binding site [chemical binding]; other site 717231004072 Mg2+ binding site [ion binding]; other site 717231004073 G-X-G motif; other site 717231004074 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004075 active site 717231004076 phosphorylation site [posttranslational modification] 717231004077 intermolecular recognition site; other site 717231004078 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 717231004079 putative peptidase; Provisional; Region: PRK11649 717231004080 Peptidase family M23; Region: Peptidase_M23; pfam01551 717231004081 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 717231004082 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231004083 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 717231004084 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 717231004085 Walker A/P-loop; other site 717231004086 ATP binding site [chemical binding]; other site 717231004087 Q-loop/lid; other site 717231004088 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 717231004089 Q-loop/lid; other site 717231004090 ABC transporter signature motif; other site 717231004091 Walker B; other site 717231004092 D-loop; other site 717231004093 H-loop/switch region; other site 717231004094 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 717231004095 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 717231004096 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 717231004097 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 717231004098 RNA binding surface [nucleotide binding]; other site 717231004099 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 717231004100 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 717231004101 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 717231004102 TPP-binding site; other site 717231004103 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 717231004104 PYR/PP interface [polypeptide binding]; other site 717231004105 dimer interface [polypeptide binding]; other site 717231004106 TPP binding site [chemical binding]; other site 717231004107 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 717231004108 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 717231004109 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 717231004110 substrate binding pocket [chemical binding]; other site 717231004111 chain length determination region; other site 717231004112 substrate-Mg2+ binding site; other site 717231004113 catalytic residues [active] 717231004114 aspartate-rich region 1; other site 717231004115 active site lid residues [active] 717231004116 aspartate-rich region 2; other site 717231004117 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 717231004118 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004119 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004120 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231004121 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 717231004122 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 717231004123 metal-binding site [ion binding] 717231004124 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 717231004125 Soluble P-type ATPase [General function prediction only]; Region: COG4087 717231004126 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 717231004127 dimerization interface [polypeptide binding]; other site 717231004128 putative DNA binding site [nucleotide binding]; other site 717231004129 putative Zn2+ binding site [ion binding]; other site 717231004130 COGs: COG1136 ABC-type antimicrobial peptide transport system ATPase component; InterPro IPR003439; KEGG: ddf:DEFDS_1877 ABC transporter ATP-binding subunit; PFAM: ABC transporter-like; SPTR: ABC transporter, ATP-binding subunit 717231004131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231004132 Walker A/P-loop; other site 717231004133 ATP binding site [chemical binding]; other site 717231004134 Q-loop/lid; other site 717231004135 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004136 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004137 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004138 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231004139 COGs: COG4591 ABC-type transport system involved in lipoprotein release permease component; InterPro IPR003838; KEGG: ddf:DEFDS_1876 ABC transporter permease; PFAM: Protein of unknown function DUF214, permase predicted; SPTR: ABC transporter, permease 717231004140 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231004141 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231004142 FtsX-like permease family; Region: FtsX; pfam02687 717231004143 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231004144 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231004145 FtsX-like permease family; Region: FtsX; pfam02687 717231004146 transketolase; Reviewed; Region: PRK05899 717231004147 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 717231004148 TPP-binding site [chemical binding]; other site 717231004149 dimer interface [polypeptide binding]; other site 717231004150 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 717231004151 PYR/PP interface [polypeptide binding]; other site 717231004152 dimer interface [polypeptide binding]; other site 717231004153 TPP binding site [chemical binding]; other site 717231004154 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 717231004155 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231004156 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 717231004157 Walker A/P-loop; other site 717231004158 ATP binding site [chemical binding]; other site 717231004159 Q-loop/lid; other site 717231004160 ABC transporter signature motif; other site 717231004161 Walker B; other site 717231004162 D-loop; other site 717231004163 H-loop/switch region; other site 717231004164 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231004165 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 717231004166 Walker A/P-loop; other site 717231004167 ATP binding site [chemical binding]; other site 717231004168 Q-loop/lid; other site 717231004169 ABC transporter signature motif; other site 717231004170 Walker B; other site 717231004171 D-loop; other site 717231004172 H-loop/switch region; other site 717231004173 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 717231004174 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 717231004175 TM-ABC transporter signature motif; other site 717231004176 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 717231004177 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 717231004178 TM-ABC transporter signature motif; other site 717231004179 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231004180 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 717231004181 dimerization interface [polypeptide binding]; other site 717231004182 ligand binding site [chemical binding]; other site 717231004183 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 717231004184 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231004185 catalytic residue [active] 717231004186 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 717231004187 Ligand Binding Site [chemical binding]; other site 717231004188 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 717231004189 DNA-binding site [nucleotide binding]; DNA binding site 717231004190 RNA-binding motif; other site 717231004191 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cl00399 717231004192 active site residues [active] 717231004193 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 717231004194 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 717231004195 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 717231004196 COGs: COG0714 MoxR-like ATPase; InterPro IPR011703:IPR003593; KEGG: cni:Calni_0552 atpase associated with various cellular activities aaa_3; PFAM: ATPase associated with various cellular activities, AAA-3; SMART: ATPase, AAA+ type, core; SPTR: ATPase associated with various cellular activities AAA_3 717231004197 MoxR-like ATPases [General function prediction only]; Region: COG0714 717231004198 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 717231004199 Walker A motif; other site 717231004200 ATP binding site [chemical binding]; other site 717231004201 Walker B motif; other site 717231004202 arginine finger; other site 717231004203 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 717231004204 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 717231004205 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 717231004206 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 717231004207 Na binding site [ion binding]; other site 717231004208 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 717231004209 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 717231004210 ligand binding site [chemical binding]; other site 717231004211 flexible hinge region; other site 717231004212 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 717231004213 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231004214 metal binding triad; other site 717231004215 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 717231004216 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 717231004217 HIGH motif; other site 717231004218 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 717231004219 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 717231004220 active site 717231004221 KMSKS motif; other site 717231004222 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 717231004223 tRNA binding surface [nucleotide binding]; other site 717231004224 Lipopolysaccharide-assembly; Region: LptE; cl01125 717231004225 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 717231004226 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 717231004227 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 717231004228 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 717231004229 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 717231004230 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231004231 catalytic residue [active] 717231004232 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 717231004233 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004234 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 717231004235 Coenzyme A binding pocket [chemical binding]; other site 717231004236 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 717231004237 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 717231004238 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 717231004239 substrate binding pocket [chemical binding]; other site 717231004240 membrane-bound complex binding site; other site 717231004241 hinge residues; other site 717231004242 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231004243 dimer interface [polypeptide binding]; other site 717231004244 conserved gate region; other site 717231004245 putative PBP binding loops; other site 717231004246 ABC-ATPase subunit interface; other site 717231004247 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 717231004248 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 717231004249 Walker A/P-loop; other site 717231004250 ATP binding site [chemical binding]; other site 717231004251 Q-loop/lid; other site 717231004252 ABC transporter signature motif; other site 717231004253 Walker B; other site 717231004254 D-loop; other site 717231004255 H-loop/switch region; other site 717231004256 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231004257 glutamate dehydrogenase; Provisional; Region: PRK09414 717231004258 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 717231004259 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 717231004260 NAD(P) binding site [chemical binding]; other site 717231004261 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231004262 NRDE protein; Region: NRDE; cl01315 717231004263 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231004264 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 717231004265 NAD(P) binding site [chemical binding]; other site 717231004266 catalytic residues [active] 717231004267 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 717231004268 FAD binding domain; Region: FAD_binding_4; pfam01565 717231004269 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 717231004270 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 717231004271 Cysteine-rich domain; Region: CCG; pfam02754 717231004272 Cysteine-rich domain; Region: CCG; pfam02754 717231004273 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 717231004274 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231004275 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 717231004276 FeS/SAM binding site; other site 717231004277 TRAM domain; Region: TRAM; pfam01938 717231004278 Bifunctional nuclease; Region: DNase-RNase; pfam02577 717231004279 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 717231004280 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 717231004281 active site 717231004282 metal binding site [ion binding]; metal-binding site 717231004283 DNA binding site [nucleotide binding] 717231004284 AAA domain; Region: AAA_23; pfam13476 717231004285 hypothetical protein; Provisional; Region: PRK09609 717231004286 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231004287 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231004288 active site 717231004289 catalytic triad [active] 717231004290 dimer interface [polypeptide binding]; other site 717231004291 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231004292 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 717231004293 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004294 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004295 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 717231004296 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 717231004297 active site 717231004298 FMN binding site [chemical binding]; other site 717231004299 substrate binding site [chemical binding]; other site 717231004300 putative catalytic residue [active] 717231004301 Isochorismatase family; Region: Isochorismatase; pfam00857 717231004302 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 717231004303 catalytic triad [active] 717231004304 dimer interface [polypeptide binding]; other site 717231004305 conserved cis-peptide bond; other site 717231004306 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 717231004307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231004308 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 717231004309 Sporulation related domain; Region: SPOR; pfam05036 717231004310 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 717231004311 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 717231004312 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 717231004313 active site 717231004314 HIGH motif; other site 717231004315 KMSK motif region; other site 717231004316 tRNA binding surface [nucleotide binding]; other site 717231004317 DALR anticodon binding domain; Region: DALR_1; smart00836 717231004318 anticodon binding site; other site 717231004319 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 717231004320 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004321 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231004322 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 717231004323 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 717231004324 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 717231004325 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 717231004326 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231004327 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004328 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231004329 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 717231004330 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 717231004331 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 717231004332 binding surface 717231004333 TPR motif; other site 717231004334 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 717231004335 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231004336 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 717231004337 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 717231004338 binding surface 717231004339 TPR motif; other site 717231004340 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 717231004341 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231004342 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 717231004343 EamA-like transporter family; Region: EamA; pfam00892 717231004344 EamA-like transporter family; Region: EamA; pfam00892 717231004345 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004346 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 717231004347 Walker A/P-loop; other site 717231004348 ATP binding site [chemical binding]; other site 717231004349 Q-loop/lid; other site 717231004350 ABC transporter signature motif; other site 717231004351 Walker B; other site 717231004352 D-loop; other site 717231004353 H-loop/switch region; other site 717231004354 TOBE domain; Region: TOBE; cl01440 717231004355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231004356 dimer interface [polypeptide binding]; other site 717231004357 conserved gate region; other site 717231004358 putative PBP binding loops; other site 717231004359 ABC-ATPase subunit interface; other site 717231004360 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 717231004361 PBP superfamily domain; Region: PBP_like_2; pfam12849 717231004362 Helix-turn-helix domain; Region: HTH_17; pfam12728 717231004363 PBP superfamily domain; Region: PBP_like; pfam12727 717231004364 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 717231004365 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 717231004366 Response regulator receiver domain; Region: Response_reg; pfam00072 717231004367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004368 active site 717231004369 phosphorylation site [posttranslational modification] 717231004370 intermolecular recognition site; other site 717231004371 dimerization interface [polypeptide binding]; other site 717231004372 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 717231004373 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 717231004374 Walker A/P-loop; other site 717231004375 ATP binding site [chemical binding]; other site 717231004376 Q-loop/lid; other site 717231004377 ABC transporter signature motif; other site 717231004378 Walker B; other site 717231004379 D-loop; other site 717231004380 H-loop/switch region; other site 717231004381 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 717231004382 FtsX-like permease family; Region: FtsX; pfam02687 717231004383 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 717231004384 Peptidase family M23; Region: Peptidase_M23; pfam01551 717231004385 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 717231004386 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 717231004387 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 717231004388 protein binding site [polypeptide binding]; other site 717231004389 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 717231004390 Catalytic dyad [active] 717231004391 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 717231004392 NodB motif; other site 717231004393 putative active site [active] 717231004394 putative catalytic site [active] 717231004395 Zn binding site [ion binding]; other site 717231004396 UGMP family protein; Validated; Region: PRK09604 717231004397 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 717231004398 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 717231004399 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 717231004400 FMN binding site [chemical binding]; other site 717231004401 active site 717231004402 catalytic residues [active] 717231004403 substrate binding site [chemical binding]; other site 717231004404 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 717231004405 Domain of unknown function (DUF814); Region: DUF814; pfam05670 717231004406 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 717231004407 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 717231004408 Walker A motif; other site 717231004409 ATP binding site [chemical binding]; other site 717231004410 Walker B motif; other site 717231004411 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231004412 TPR repeat; Region: TPR_11; pfam13414 717231004413 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 717231004414 binding surface 717231004415 TPR motif; other site 717231004416 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 717231004417 binding surface 717231004418 TPR motif; other site 717231004419 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 717231004420 CoenzymeA binding site [chemical binding]; other site 717231004421 subunit interaction site [polypeptide binding]; other site 717231004422 PHB binding site; other site 717231004423 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004424 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231004425 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 717231004426 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 717231004427 HlyD family secretion protein; Region: HlyD_3; pfam13437 717231004428 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004429 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 717231004430 Walker A/P-loop; other site 717231004431 ATP binding site [chemical binding]; other site 717231004432 Q-loop/lid; other site 717231004433 ABC transporter signature motif; other site 717231004434 Walker B; other site 717231004435 D-loop; other site 717231004436 H-loop/switch region; other site 717231004437 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004438 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231004439 Walker A/P-loop; other site 717231004440 ATP binding site [chemical binding]; other site 717231004441 Q-loop/lid; other site 717231004442 ABC transporter signature motif; other site 717231004443 Walker B; other site 717231004444 D-loop; other site 717231004445 H-loop/switch region; other site 717231004446 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 717231004447 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 717231004448 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 717231004449 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 717231004450 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 717231004451 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 717231004452 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 717231004453 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231004454 catalytic residue [active] 717231004455 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231004456 active site 717231004457 catalytic site [active] 717231004458 substrate binding site [chemical binding]; other site 717231004459 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 717231004460 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 717231004461 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 717231004462 active site 717231004463 (T/H)XGH motif; other site 717231004464 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 717231004465 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 717231004466 putative catalytic cysteine [active] 717231004467 gamma-glutamyl kinase; Provisional; Region: PRK05429 717231004468 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 717231004469 homotetrameric interface [polypeptide binding]; other site 717231004470 putative phosphate binding site [ion binding]; other site 717231004471 putative allosteric binding site; other site 717231004472 nucleotide binding site [chemical binding]; other site 717231004473 PUA domain; Region: PUA; pfam01472 717231004474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004475 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231004476 active site 717231004477 phosphorylation site [posttranslational modification] 717231004478 intermolecular recognition site; other site 717231004479 dimerization interface [polypeptide binding]; other site 717231004480 phosphoglycolate phosphatase; Provisional; Region: PRK13222 717231004481 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 717231004482 motif II; other site 717231004483 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 717231004484 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004485 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004486 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231004487 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231004488 PAS fold; Region: PAS_3; pfam08447 717231004489 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231004490 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 717231004491 putative active site [active] 717231004492 heme pocket [chemical binding]; other site 717231004493 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 717231004494 dimer interface [polypeptide binding]; other site 717231004495 phosphorylation site [posttranslational modification] 717231004496 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 717231004497 ATP binding site [chemical binding]; other site 717231004498 Mg2+ binding site [ion binding]; other site 717231004499 G-X-G motif; other site 717231004500 Response regulator receiver domain; Region: Response_reg; pfam00072 717231004501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004502 active site 717231004503 phosphorylation site [posttranslational modification] 717231004504 intermolecular recognition site; other site 717231004505 dimerization interface [polypeptide binding]; other site 717231004506 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231004507 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 717231004508 active site 717231004509 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 717231004510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004511 Ubiquitin-like proteins; Region: UBQ; cl00155 717231004512 charged pocket; other site 717231004513 hydrophobic patch; other site 717231004514 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 717231004515 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 717231004516 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 717231004517 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 717231004518 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 717231004519 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 717231004520 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004521 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; cl00397 717231004522 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 717231004523 PDGLE domain; Region: PDGLE; pfam13190 717231004524 Cobalt transport protein; Region: CbiQ; cl00463 717231004525 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 717231004526 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 717231004527 Walker A/P-loop; other site 717231004528 ATP binding site [chemical binding]; other site 717231004529 Q-loop/lid; other site 717231004530 ABC transporter signature motif; other site 717231004531 Walker B; other site 717231004532 D-loop; other site 717231004533 H-loop/switch region; other site 717231004534 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 717231004535 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 717231004536 motif II; other site 717231004537 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231004538 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 717231004539 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 717231004540 homodimer interface [polypeptide binding]; other site 717231004541 metal binding site [ion binding]; metal-binding site 717231004542 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 717231004543 homodimer interface [polypeptide binding]; other site 717231004544 active site 717231004545 putative chemical substrate binding site [chemical binding]; other site 717231004546 metal binding site [ion binding]; metal-binding site 717231004547 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 717231004548 homotrimer interaction site [polypeptide binding]; other site 717231004549 putative active site [active] 717231004550 Amidinotransferase; Region: Amidinotransf; cl12043 717231004551 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 717231004552 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 717231004553 substrate binding pocket [chemical binding]; other site 717231004554 chain length determination region; other site 717231004555 substrate-Mg2+ binding site; other site 717231004556 catalytic residues [active] 717231004557 aspartate-rich region 1; other site 717231004558 active site lid residues [active] 717231004559 aspartate-rich region 2; other site 717231004560 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 717231004561 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 717231004562 FeS/SAM binding site; other site 717231004563 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 717231004564 ApbE family; Region: ApbE; pfam02424 717231004565 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 717231004566 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 717231004567 Maf-like protein; Region: Maf; pfam02545 717231004568 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 717231004569 active site 717231004570 dimer interface [polypeptide binding]; other site 717231004571 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 717231004572 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 717231004573 acyl-activating enzyme (AAE) consensus motif; other site 717231004574 putative AMP binding site [chemical binding]; other site 717231004575 putative active site [active] 717231004576 putative CoA binding site [chemical binding]; other site 717231004577 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231004578 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 717231004579 Walker A/P-loop; other site 717231004580 ATP binding site [chemical binding]; other site 717231004581 Q-loop/lid; other site 717231004582 ABC transporter signature motif; other site 717231004583 Walker B; other site 717231004584 D-loop; other site 717231004585 H-loop/switch region; other site 717231004586 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 717231004587 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 717231004588 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 717231004589 active site 717231004590 HIGH motif; other site 717231004591 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 717231004592 KMSKS motif; other site 717231004593 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 717231004594 tRNA binding surface [nucleotide binding]; other site 717231004595 anticodon binding site; other site 717231004596 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 717231004597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004598 NAD(P) binding site [chemical binding]; other site 717231004599 active site 717231004600 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231004601 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231004602 active site 717231004603 catalytic triad [active] 717231004604 dimer interface [polypeptide binding]; other site 717231004605 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 717231004606 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 717231004607 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 717231004608 futalosine nucleosidase; Region: fut_nucase; TIGR03664 717231004609 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 717231004610 FAD binding site [chemical binding]; other site 717231004611 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 717231004612 metal binding site 2 [ion binding]; metal-binding site 717231004613 putative DNA binding helix; other site 717231004614 metal binding site 1 [ion binding]; metal-binding site 717231004615 dimer interface [polypeptide binding]; other site 717231004616 structural Zn2+ binding site [ion binding]; other site 717231004617 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 717231004618 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 717231004619 tetramer interface [polypeptide binding]; other site 717231004620 heme binding pocket [chemical binding]; other site 717231004621 NADPH binding site [chemical binding]; other site 717231004622 Proline dehydrogenase; Region: Pro_dh; cl03282 717231004623 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 717231004624 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 717231004625 Glutamate binding site [chemical binding]; other site 717231004626 NAD binding site [chemical binding]; other site 717231004627 catalytic residues [active] 717231004628 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 717231004629 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 717231004630 active site 717231004631 putative substrate binding pocket [chemical binding]; other site 717231004632 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231004633 four helix bundle protein; Region: TIGR02436 717231004634 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 717231004635 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 717231004636 tetramer interface [polypeptide binding]; other site 717231004637 active site 717231004638 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 717231004639 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 717231004640 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 717231004641 dimer interface [polypeptide binding]; other site 717231004642 active site 717231004643 glycine-pyridoxal phosphate binding site [chemical binding]; other site 717231004644 folate binding site [chemical binding]; other site 717231004645 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 717231004646 catalytic motif [active] 717231004647 Zn binding site [ion binding]; other site 717231004648 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 717231004649 SLBB domain; Region: SLBB; pfam10531 717231004650 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 717231004651 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 717231004652 FMN-binding domain; Region: FMN_bind; cl01081 717231004653 electron transport complex RsxE subunit; Provisional; Region: PRK12405 717231004654 electron transport complex protein RsxA; Provisional; Region: PRK05151 717231004655 ferredoxin; Validated; Region: PRK07118 717231004656 Putative Fe-S cluster; Region: FeS; cl17515 717231004657 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231004658 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231004659 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 717231004660 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII; cd09992 717231004661 active site 717231004662 Zn binding site [ion binding]; other site 717231004663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231004664 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231004665 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231004666 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 717231004667 Malic enzyme, N-terminal domain; Region: malic; pfam00390 717231004668 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 717231004669 putative NAD(P) binding site [chemical binding]; other site 717231004670 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 717231004671 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 717231004672 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 717231004673 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231004674 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 717231004675 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 717231004676 Predicted membrane protein [Function unknown]; Region: COG1971 717231004677 Domain of unknown function DUF; Region: DUF204; pfam02659 717231004678 Domain of unknown function DUF; Region: DUF204; pfam02659 717231004679 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 717231004680 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 717231004681 Mechanosensitive ion channel; Region: MS_channel; pfam00924 717231004682 Stringent starvation protein B; Region: SspB; cl01120 717231004683 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 717231004684 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 717231004685 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 717231004686 dimer interface [polypeptide binding]; other site 717231004687 anticodon binding site; other site 717231004688 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 717231004689 homodimer interface [polypeptide binding]; other site 717231004690 motif 1; other site 717231004691 active site 717231004692 motif 2; other site 717231004693 GAD domain; Region: GAD; pfam02938 717231004694 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 717231004695 motif 3; other site 717231004696 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 717231004697 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 717231004698 dimer interface [polypeptide binding]; other site 717231004699 motif 1; other site 717231004700 active site 717231004701 motif 2; other site 717231004702 motif 3; other site 717231004703 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 717231004704 anticodon binding site; other site 717231004705 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 717231004706 trimer interface [polypeptide binding]; other site 717231004707 putative Zn binding site [ion binding]; other site 717231004708 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 717231004709 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 717231004710 catalytic center binding site [active] 717231004711 ATP binding site [chemical binding]; other site 717231004712 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231004713 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 717231004714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004715 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004716 S-adenosylmethionine synthetase; Validated; Region: PRK05250 717231004717 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 717231004718 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 717231004719 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 717231004720 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 717231004721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004722 Coenzyme A binding pocket [chemical binding]; other site 717231004723 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 717231004724 Glycoprotease family; Region: Peptidase_M22; pfam00814 717231004725 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 717231004726 trimer interface [polypeptide binding]; other site 717231004727 active site 717231004728 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 717231004729 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 717231004730 RNase E interface [polypeptide binding]; other site 717231004731 trimer interface [polypeptide binding]; other site 717231004732 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 717231004733 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 717231004734 RNase E interface [polypeptide binding]; other site 717231004735 trimer interface [polypeptide binding]; other site 717231004736 active site 717231004737 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 717231004738 putative nucleic acid binding region [nucleotide binding]; other site 717231004739 G-X-X-G motif; other site 717231004740 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 717231004741 RNA binding site [nucleotide binding]; other site 717231004742 domain interface; other site 717231004743 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 717231004744 16S/18S rRNA binding site [nucleotide binding]; other site 717231004745 S13e-L30e interaction site [polypeptide binding]; other site 717231004746 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 717231004747 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 717231004748 RNA binding site [nucleotide binding]; other site 717231004749 active site 717231004750 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 717231004751 Protein of unknown function (DUF503); Region: DUF503; pfam04456 717231004752 translation initiation factor IF-2; Region: IF-2; TIGR00487 717231004753 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 717231004754 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 717231004755 G1 box; other site 717231004756 putative GEF interaction site [polypeptide binding]; other site 717231004757 GTP/Mg2+ binding site [chemical binding]; other site 717231004758 Switch I region; other site 717231004759 G2 box; other site 717231004760 G3 box; other site 717231004761 Switch II region; other site 717231004762 G4 box; other site 717231004763 G5 box; other site 717231004764 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 717231004765 Translation-initiation factor 2; Region: IF-2; pfam11987 717231004766 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 717231004767 Protein of unknown function (DUF448); Region: DUF448; pfam04296 717231004768 putative RNA binding cleft [nucleotide binding]; other site 717231004769 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 717231004770 NusA N-terminal domain; Region: NusA_N; pfam08529 717231004771 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 717231004772 RNA binding site [nucleotide binding]; other site 717231004773 homodimer interface [polypeptide binding]; other site 717231004774 NusA-like KH domain; Region: KH_5; pfam13184 717231004775 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 717231004776 G-X-X-G motif; other site 717231004777 Sm and related proteins; Region: Sm_like; cl00259 717231004778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 717231004779 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 717231004780 putative oligomer interface [polypeptide binding]; other site 717231004781 putative RNA binding site [nucleotide binding]; other site 717231004782 LPP20 lipoprotein; Region: LPP20; pfam02169 717231004783 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 717231004784 AMP binding site [chemical binding]; other site 717231004785 metal binding site [ion binding]; metal-binding site 717231004786 active site 717231004787 endonuclease IV; Provisional; Region: PRK01060 717231004788 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 717231004789 AP (apurinic/apyrimidinic) site pocket; other site 717231004790 DNA interaction; other site 717231004791 Metal-binding active site; metal-binding site 717231004792 Isochorismatase family; Region: Isochorismatase; pfam00857 717231004793 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 717231004794 catalytic triad [active] 717231004795 conserved cis-peptide bond; other site 717231004796 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 717231004797 AAA domain; Region: AAA_33; pfam13671 717231004798 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231004799 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 717231004800 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 717231004801 metal binding site [ion binding]; metal-binding site 717231004802 dimer interface [polypeptide binding]; other site 717231004803 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 717231004804 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 717231004805 putative dimer interface [polypeptide binding]; other site 717231004806 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 717231004807 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 717231004808 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 717231004809 putative active site [active] 717231004810 catalytic site [active] 717231004811 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 717231004812 putative active site [active] 717231004813 catalytic site [active] 717231004814 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 717231004815 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 717231004816 Uncharacterized conserved protein [Function unknown]; Region: COG1565 717231004817 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 717231004818 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 717231004819 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 717231004820 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 717231004821 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 717231004822 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 717231004823 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 717231004824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004825 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004826 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231004827 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 717231004828 DNA binding residues [nucleotide binding] 717231004829 thiosulfate reductase PhsA; Provisional; Region: PRK15488 717231004830 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 717231004831 putative [Fe4-S4] binding site [ion binding]; other site 717231004832 putative molybdopterin cofactor binding site [chemical binding]; other site 717231004833 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 717231004834 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 717231004835 putative molybdopterin cofactor binding site; other site 717231004836 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 717231004837 4Fe-4S binding domain; Region: Fer4; cl02805 717231004838 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 717231004839 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 717231004840 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 717231004841 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 717231004842 DNA binding residues [nucleotide binding] 717231004843 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 717231004844 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 717231004845 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231004846 4Fe-4S binding domain; Region: Fer4; cl02805 717231004847 thiosulfate reductase PhsA; Provisional; Region: PRK15488 717231004848 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 717231004849 putative [Fe4-S4] binding site [ion binding]; other site 717231004850 putative molybdopterin cofactor binding site [chemical binding]; other site 717231004851 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 717231004852 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 717231004853 putative molybdopterin cofactor binding site; other site 717231004854 Transposase domain (DUF772); Region: DUF772; pfam05598 717231004855 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004856 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231004857 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 717231004858 Radical SAM superfamily; Region: Radical_SAM; pfam04055 717231004859 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 717231004860 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 717231004861 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 717231004862 P loop; other site 717231004863 GTP binding site [chemical binding]; other site 717231004864 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 717231004865 RecF/RecN/SMC N terminal domain; Region: SMC_N; pfam02463 717231004866 Walker A/P-loop; other site 717231004867 ATP binding site [chemical binding]; other site 717231004868 Q-loop/lid; other site 717231004869 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 717231004870 Q-loop/lid; other site 717231004871 ABC transporter signature motif; other site 717231004872 Walker B; other site 717231004873 D-loop; other site 717231004874 H-loop/switch region; other site 717231004875 aconitate hydratase; Validated; Region: PRK09277 717231004876 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 717231004877 substrate binding site [chemical binding]; other site 717231004878 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 717231004879 ligand binding site [chemical binding]; other site 717231004880 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 717231004881 substrate binding site [chemical binding]; other site 717231004882 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 717231004883 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 717231004884 HSP70 interaction site [polypeptide binding]; other site 717231004885 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 717231004886 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 717231004887 active site 717231004888 dimerization interface [polypeptide binding]; other site 717231004889 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 717231004890 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 717231004891 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 717231004892 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 717231004893 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 717231004894 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231004895 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 717231004896 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 717231004897 tRNA; other site 717231004898 putative tRNA binding site [nucleotide binding]; other site 717231004899 putative NADP binding site [chemical binding]; other site 717231004900 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 717231004901 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 717231004902 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 717231004903 domain interfaces; other site 717231004904 active site 717231004905 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 717231004906 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 717231004907 active site 717231004908 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 717231004909 dimer interface [polypeptide binding]; other site 717231004910 active site 717231004911 Schiff base residues; other site 717231004912 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 717231004913 Walker A motif; other site 717231004914 ATP binding site [chemical binding]; other site 717231004915 Walker B motif; other site 717231004916 arginine finger; other site 717231004917 FOG: CBS domain [General function prediction only]; Region: COG0517 717231004918 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 717231004919 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231004920 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231004921 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 717231004922 Walker A/P-loop; other site 717231004923 ATP binding site [chemical binding]; other site 717231004924 Q-loop/lid; other site 717231004925 ABC transporter signature motif; other site 717231004926 Walker B; other site 717231004927 D-loop; other site 717231004928 H-loop/switch region; other site 717231004929 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231004930 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 717231004931 Walker A/P-loop; other site 717231004932 ATP binding site [chemical binding]; other site 717231004933 Q-loop/lid; other site 717231004934 ABC transporter signature motif; other site 717231004935 Walker B; other site 717231004936 D-loop; other site 717231004937 H-loop/switch region; other site 717231004938 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 717231004939 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 717231004940 TM-ABC transporter signature motif; other site 717231004941 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 717231004942 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 717231004943 TM-ABC transporter signature motif; other site 717231004944 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231004945 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 717231004946 putative ligand binding site [chemical binding]; other site 717231004947 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 717231004948 Domain of unknown function DUF20; Region: UPF0118; pfam01594 717231004949 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 717231004950 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 717231004951 NAD(P) binding site [chemical binding]; other site 717231004952 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 717231004953 Phospholipid methyltransferase; Region: PEMT; cl17370 717231004954 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 717231004955 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 717231004956 mce related protein; Region: MCE; pfam02470 717231004957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 717231004958 dimer interface [polypeptide binding]; other site 717231004959 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 717231004960 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 717231004961 Walker A/P-loop; other site 717231004962 ATP binding site [chemical binding]; other site 717231004963 Q-loop/lid; other site 717231004964 ABC transporter signature motif; other site 717231004965 Walker B; other site 717231004966 D-loop; other site 717231004967 H-loop/switch region; other site 717231004968 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 717231004969 Permease; Region: Permease; pfam02405 717231004970 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 717231004971 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 717231004972 active site 717231004973 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231004974 dimer interface [polypeptide binding]; other site 717231004975 substrate binding site [chemical binding]; other site 717231004976 catalytic residues [active] 717231004977 peptide chain release factor 2; Validated; Region: prfB; PRK00578 717231004978 PCRF domain; Region: PCRF; pfam03462 717231004979 RF-1 domain; Region: RF-1; pfam00472 717231004980 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 717231004981 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004982 Coenzyme A binding pocket [chemical binding]; other site 717231004983 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 717231004984 type I citrate synthase; Reviewed; Region: PRK09569 717231004985 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 717231004986 oxalacetate binding site [chemical binding]; other site 717231004987 citrylCoA binding site [chemical binding]; other site 717231004988 coenzyme A binding site [chemical binding]; other site 717231004989 catalytic triad [active] 717231004990 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 717231004991 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 717231004992 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 717231004993 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 717231004994 active site 717231004995 substrate binding site [chemical binding]; other site 717231004996 metal binding site [ion binding]; metal-binding site 717231004997 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 717231004998 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 717231004999 active site 717231005000 substrate-binding site [chemical binding]; other site 717231005001 metal-binding site [ion binding] 717231005002 ATP binding site [chemical binding]; other site 717231005003 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 717231005004 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 717231005005 active site 717231005006 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 717231005007 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 717231005008 motif 1; other site 717231005009 active site 717231005010 motif 2; other site 717231005011 motif 3; other site 717231005012 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 717231005013 DHHA1 domain; Region: DHHA1; pfam02272 717231005014 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 717231005015 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 717231005016 putative active site [active] 717231005017 putative CoA binding site [chemical binding]; other site 717231005018 nudix motif; other site 717231005019 metal binding site [ion binding]; metal-binding site 717231005020 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 717231005021 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 717231005022 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 717231005023 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 717231005024 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 717231005025 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 717231005026 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 717231005027 conserved cys residue [active] 717231005028 LPP20 lipoprotein; Region: LPP20; cl15824 717231005029 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 717231005030 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 717231005031 Fe-S cluster binding site [ion binding]; other site 717231005032 active site 717231005033 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 717231005034 Flavoprotein; Region: Flavoprotein; pfam02441 717231005035 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 717231005036 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 717231005037 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 717231005038 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 717231005039 catalytic site [active] 717231005040 G-X2-G-X-G-K; other site 717231005041 hypothetical protein; Provisional; Region: PRK11820 717231005042 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 717231005043 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 717231005044 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 717231005045 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 717231005046 SurA N-terminal domain; Region: SurA_N_3; cl07813 717231005047 periplasmic folding chaperone; Provisional; Region: PRK10788 717231005048 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 717231005049 LrgA family; Region: LrgA; pfam03788 717231005050 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 717231005051 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231005052 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 717231005053 RNA binding surface [nucleotide binding]; other site 717231005054 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 717231005055 active site 717231005056 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 717231005057 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 717231005058 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231005059 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231005060 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 717231005061 Ligand Binding Site [chemical binding]; other site 717231005062 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 717231005063 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 717231005064 active site 717231005065 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231005066 substrate binding site [chemical binding]; other site 717231005067 catalytic residues [active] 717231005068 dimer interface [polypeptide binding]; other site 717231005069 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 717231005070 IHF dimer interface [polypeptide binding]; other site 717231005071 IHF - DNA interface [nucleotide binding]; other site 717231005072 glycerol kinase; Provisional; Region: glpK; PRK00047 717231005073 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 717231005074 N- and C-terminal domain interface [polypeptide binding]; other site 717231005075 active site 717231005076 MgATP binding site [chemical binding]; other site 717231005077 catalytic site [active] 717231005078 metal binding site [ion binding]; metal-binding site 717231005079 glycerol binding site [chemical binding]; other site 717231005080 homotetramer interface [polypeptide binding]; other site 717231005081 homodimer interface [polypeptide binding]; other site 717231005082 FBP binding site [chemical binding]; other site 717231005083 protein IIAGlc interface [polypeptide binding]; other site 717231005084 YrhK-like protein; Region: YrhK; pfam14145 717231005085 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 717231005086 DHH family; Region: DHH; pfam01368 717231005087 DHHA1 domain; Region: DHHA1; pfam02272 717231005088 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 717231005089 DNA-binding interface [nucleotide binding]; DNA binding site 717231005090 Predicted transcriptional regulator [Transcription]; Region: COG2378 717231005091 WYL domain; Region: WYL; pfam13280 717231005092 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1672 717231005093 AAA domain; Region: AAA_14; pfam13173 717231005094 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 717231005095 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 717231005096 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 717231005097 Part of AAA domain; Region: AAA_19; pfam13245 717231005098 Family description; Region: UvrD_C_2; pfam13538 717231005099 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 717231005100 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 717231005101 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 717231005102 oligomeric interface; other site 717231005103 putative active site [active] 717231005104 homodimer interface [polypeptide binding]; other site 717231005105 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005106 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231005107 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 717231005108 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 717231005109 CRISPR system related protein, RAMP superfamily [Defense mechanisms]; Region: COG1336 717231005110 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 717231005111 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 717231005112 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 717231005113 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 717231005114 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 717231005115 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 717231005116 CRISPR-associated (Cas) DxTHG family; Region: Cas_DxTHG; pfam09455 717231005117 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 717231005118 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl17439 717231005119 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 717231005120 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 717231005121 binding surface 717231005122 TPR motif; other site 717231005123 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 717231005124 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231005125 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 717231005126 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 717231005127 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005128 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005129 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005130 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231005131 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231005132 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 717231005134 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 717231005135 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 717231005136 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 717231005137 DNA binding site [nucleotide binding] 717231005138 Uncharacterized conserved protein [Function unknown]; Region: COG0432 717231005139 potential frameshift: common BLAST hit: gi|218782120|ref|YP_002433438.1| transposase IS4 family protein 717231005140 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231005141 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 717231005142 DEAD/H associated; Region: DEAD_assoc; pfam08494 717231005143 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 717231005144 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 717231005145 active site 717231005146 catalytic residues [active] 717231005147 DNA binding site [nucleotide binding] 717231005148 Int/Topo IB signature motif; other site 717231005149 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 717231005150 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 717231005151 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 717231005152 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 717231005153 S-adenosylmethionine binding site [chemical binding]; other site 717231005154 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231005155 active site 717231005156 catalytic site [active] 717231005157 substrate binding site [chemical binding]; other site 717231005158 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 717231005159 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 717231005160 Na binding site [ion binding]; other site 717231005161 Protein of unknown function, DUF485; Region: DUF485; pfam04341 717231005162 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 717231005163 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 717231005164 ligand binding site [chemical binding]; other site 717231005165 flexible hinge region; other site 717231005166 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 717231005167 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231005168 metal binding triad; other site 717231005169 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 717231005170 HAMP domain; Region: HAMP; pfam00672 717231005171 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 717231005172 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 717231005173 putative active site [active] 717231005174 heme pocket [chemical binding]; other site 717231005175 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 717231005176 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 717231005177 putative active site [active] 717231005178 heme pocket [chemical binding]; other site 717231005179 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 717231005180 dimer interface [polypeptide binding]; other site 717231005181 phosphorylation site [posttranslational modification] 717231005182 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 717231005183 ATP binding site [chemical binding]; other site 717231005184 Mg2+ binding site [ion binding]; other site 717231005185 G-X-G motif; other site 717231005186 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231005187 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 717231005188 Domain of unknown function DUF21; Region: DUF21; pfam01595 717231005189 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 717231005190 Transporter associated domain; Region: CorC_HlyC; smart01091 717231005191 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231005192 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231005193 metal binding site [ion binding]; metal-binding site 717231005194 active site 717231005195 I-site; other site 717231005196 Protein of unknown function (DUF805); Region: DUF805; pfam05656 717231005197 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 717231005198 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 717231005199 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 717231005200 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 717231005201 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 717231005202 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 717231005203 rRNA interaction site [nucleotide binding]; other site 717231005204 S8 interaction site; other site 717231005205 putative laminin-1 binding site; other site 717231005206 elongation factor Ts; Reviewed; Region: tsf; PRK12332 717231005207 UBA/TS-N domain; Region: UBA; pfam00627 717231005208 Elongation factor TS; Region: EF_TS; pfam00889 717231005209 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 717231005210 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 717231005211 active site 717231005212 homodimer interface [polypeptide binding]; other site 717231005213 catalytic site [active] 717231005214 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 717231005215 anti sigma factor interaction site; other site 717231005216 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 717231005217 regulatory phosphorylation site [posttranslational modification]; other site 717231005218 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 717231005219 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 717231005220 FMN binding site [chemical binding]; other site 717231005221 substrate binding site [chemical binding]; other site 717231005222 putative catalytic residue [active] 717231005223 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 717231005224 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 717231005225 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 717231005226 protein binding site [polypeptide binding]; other site 717231005227 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 717231005228 protein binding site [polypeptide binding]; other site 717231005229 Putative zinc-finger; Region: zf-HC2; pfam13490 717231005230 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 717231005231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231005232 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 717231005233 DNA binding residues [nucleotide binding] 717231005234 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005235 InterPro IPR001387:IPR013096; KEGG: ddf:DEFDS_1061 transcriptional regulator; PFAM: Cupin 2, conserved barrel; Helix-turn-helix type 3; SMART: Helix-turn-helix type 3; SPTR: Transcriptional regulator 717231005236 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231005237 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 717231005238 non-specific DNA binding site [nucleotide binding]; other site 717231005239 salt bridge; other site 717231005240 sequence-specific DNA binding site [nucleotide binding]; other site 717231005241 Cupin domain; Region: Cupin_2; pfam07883 717231005242 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 717231005243 Rubredoxin; Region: Rubredoxin; pfam00301 717231005244 iron binding site [ion binding]; other site 717231005245 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 717231005246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 717231005247 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 717231005248 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 717231005249 TrkA-N domain; Region: TrkA_N; pfam02254 717231005250 TrkA-C domain; Region: TrkA_C; pfam02080 717231005251 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 717231005252 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 717231005253 Rubredoxin [Energy production and conversion]; Region: COG1773 717231005254 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 717231005255 iron binding site [ion binding]; other site 717231005256 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 717231005257 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 717231005258 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 717231005259 trimerization site [polypeptide binding]; other site 717231005260 active site 717231005261 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 717231005262 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 717231005263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231005264 catalytic residue [active] 717231005265 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 717231005266 non-specific DNA binding site [nucleotide binding]; other site 717231005267 salt bridge; other site 717231005268 sequence-specific DNA binding site [nucleotide binding]; other site 717231005269 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 717231005270 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 717231005271 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 717231005272 TPR motif; other site 717231005273 binding surface 717231005274 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 717231005275 binding surface 717231005276 TPR motif; other site 717231005277 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 717231005278 nucleotide binding site [chemical binding]; other site 717231005279 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 717231005280 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 717231005281 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 717231005282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005283 active site 717231005284 phosphorylation site [posttranslational modification] 717231005285 intermolecular recognition site; other site 717231005286 InterPro IPR004462; KEGG: mem:Memar_0164 desulfoferrodoxin Dfx domain-containing protein; PFAM: Desulfoferrodoxin Dfx; TIGRFAM: Desulfoferrodoxin Dfx 717231005287 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; cd00974 717231005288 non-heme iron binding site [ion binding]; other site 717231005289 dimer interface [polypeptide binding]; other site 717231005290 hypothetical protein; Validated; Region: PRK00110 717231005291 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 717231005292 active site 717231005293 putative DNA-binding cleft [nucleotide binding]; other site 717231005294 dimer interface [polypeptide binding]; other site 717231005295 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 717231005296 RuvA N terminal domain; Region: RuvA_N; pfam01330 717231005297 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 717231005298 cell division protein FtsZ; Validated; Region: PRK09330 717231005299 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 717231005300 nucleotide binding site [chemical binding]; other site 717231005301 SulA interaction site; other site 717231005302 cell division protein FtsA; Region: ftsA; TIGR01174 717231005303 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 717231005304 nucleotide binding site [chemical binding]; other site 717231005305 Cell division protein FtsA; Region: FtsA; pfam14450 717231005306 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 717231005307 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 717231005308 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 717231005309 ATP-grasp domain; Region: ATP-grasp_4; cl17255 717231005310 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 717231005311 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005312 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005313 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 717231005314 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 717231005315 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 717231005316 active site 717231005317 homodimer interface [polypeptide binding]; other site 717231005318 cell division protein FtsW; Region: ftsW; TIGR02614 717231005319 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 717231005320 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005321 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 717231005322 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 717231005323 Mg++ binding site [ion binding]; other site 717231005324 putative catalytic motif [active] 717231005325 putative substrate binding site [chemical binding]; other site 717231005326 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 717231005327 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005328 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005329 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 717231005330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005331 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005332 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 717231005333 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 717231005334 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 717231005335 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 717231005336 MraW methylase family; Region: Methyltransf_5; cl17771 717231005337 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 717231005338 cell division protein MraZ; Reviewed; Region: PRK00326 717231005339 MraZ protein; Region: MraZ; pfam02381 717231005340 MraZ protein; Region: MraZ; pfam02381 717231005341 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 717231005342 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 717231005343 gamma subunit interface [polypeptide binding]; other site 717231005344 epsilon subunit interface [polypeptide binding]; other site 717231005345 LBP interface [polypeptide binding]; other site 717231005346 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 717231005347 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 717231005348 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 717231005349 alpha subunit interaction interface [polypeptide binding]; other site 717231005350 Walker A motif; other site 717231005351 ATP binding site [chemical binding]; other site 717231005352 Walker B motif; other site 717231005353 inhibitor binding site; inhibition site 717231005354 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231005355 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 717231005356 core domain interface [polypeptide binding]; other site 717231005357 delta subunit interface [polypeptide binding]; other site 717231005358 epsilon subunit interface [polypeptide binding]; other site 717231005359 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 717231005360 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 717231005361 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 717231005362 beta subunit interaction interface [polypeptide binding]; other site 717231005363 Walker A motif; other site 717231005364 ATP binding site [chemical binding]; other site 717231005365 Walker B motif; other site 717231005366 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231005367 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 717231005368 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13429 717231005369 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 717231005370 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 717231005371 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 717231005372 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 717231005373 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 717231005374 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 717231005375 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 717231005376 COGs: COG2200 FOG: EAL domain; InterPro IPR000160:IPR001633; KEGG: ddf:DEFDS_0739 hypothetical protein; PFAM: Diguanylate phosphodiesterase, predicted; Diguanylate cyclase, predicted; SMART: Diguanylate phosphodiesterase, predicted; Diguanylate cyclase, predicted; SPTR: Putative uncharacterized protein 717231005377 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231005378 metal binding site [ion binding]; metal-binding site 717231005379 active site 717231005380 I-site; other site 717231005381 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 717231005382 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005383 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005384 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005385 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231005386 manually curated 717231005387 COGs: COG1484 DNA replication protein; InterPro IPR003593:IPR002611; KEGG: toc:Toce_0299 IstB domain protein ATP-binding protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core; SPTR: IstB domain protein ATP-binding protein 717231005388 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 717231005389 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231005390 Walker A motif; other site 717231005391 ATP binding site [chemical binding]; other site 717231005392 Walker B motif; other site 717231005393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005394 Integrase core domain; Region: rve; pfam00665 717231005395 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 717231005396 active site 1 [active] 717231005397 dimer interface [polypeptide binding]; other site 717231005398 hexamer interface [polypeptide binding]; other site 717231005399 active site 2 [active] 717231005400 Transglycosylase SLT domain; Region: SLT_2; pfam13406 717231005401 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 717231005402 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231005403 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 717231005404 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 717231005405 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 717231005406 dimerization interface [polypeptide binding]; other site 717231005407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231005408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231005409 metal binding site [ion binding]; metal-binding site 717231005410 active site 717231005411 I-site; other site 717231005412 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005413 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005414 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231005415 COGs: COG0379 Quinolinate synthase; HAMAP: Quinolinate synthase A; InterPro IPR003473; KEGG: ddf:DEFDS_0483 quinolinate synthase subunit A; PFAM: Quinolinate synthetase A; PRIAM: Quinolinate synthase; SPTR: Quinolinate synthase A; TIGRFAM: Quinolinate synthetase A 717231005416 Quinolinate synthetase A protein; Region: NadA; pfam02445 717231005417 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 717231005418 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 717231005419 putative active site [active] 717231005420 metal binding site [ion binding]; metal-binding site 717231005421 homodimer binding site [polypeptide binding]; other site 717231005422 phosphodiesterase; Provisional; Region: PRK12704 717231005423 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 717231005424 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231005425 Zn2+ binding site [ion binding]; other site 717231005426 Mg2+ binding site [ion binding]; other site 717231005427 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 717231005428 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 717231005429 recombination factor protein RarA; Reviewed; Region: PRK13342 717231005430 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 717231005431 Walker A motif; other site 717231005432 ATP binding site [chemical binding]; other site 717231005433 Walker B motif; other site 717231005434 arginine finger; other site 717231005435 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 717231005436 Cell division protein ZapA; Region: ZapA; pfam05164 717231005437 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 717231005438 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 717231005439 putative tRNA-binding site [nucleotide binding]; other site 717231005440 B3/4 domain; Region: B3_4; pfam03483 717231005441 tRNA synthetase B5 domain; Region: B5; smart00874 717231005442 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 717231005443 dimer interface [polypeptide binding]; other site 717231005444 motif 1; other site 717231005445 motif 3; other site 717231005446 motif 2; other site 717231005447 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 717231005448 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 717231005449 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 717231005450 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 717231005451 dimer interface [polypeptide binding]; other site 717231005452 motif 1; other site 717231005453 active site 717231005454 motif 2; other site 717231005455 motif 3; other site 717231005456 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 717231005457 23S rRNA binding site [nucleotide binding]; other site 717231005458 L21 binding site [polypeptide binding]; other site 717231005459 L13 binding site [polypeptide binding]; other site 717231005460 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 717231005461 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 717231005462 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 717231005463 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 717231005464 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 717231005465 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 717231005466 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 717231005467 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 717231005468 active site 717231005469 dimer interface [polypeptide binding]; other site 717231005470 motif 1; other site 717231005471 motif 2; other site 717231005472 motif 3; other site 717231005473 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 717231005474 anticodon binding site; other site 717231005475 InterPro IPR003346; KEGG: sat:SYN_03159 transposase; PFAM: Transposase, IS116/IS110/IS902; SPTR: Transposase 717231005476 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231005477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231005478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231005479 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231005480 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005481 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005482 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231005483 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 717231005484 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 717231005485 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 717231005486 Uncharacterized membrane protein [Function unknown]; Region: SpmB; cl17667 717231005487 AAA domain; Region: AAA_14; pfam13173 717231005488 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 717231005489 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 717231005490 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231005491 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231005492 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 717231005493 HlyD family secretion protein; Region: HlyD_3; pfam13437 717231005494 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 717231005495 MarR family; Region: MarR_2; pfam12802 717231005496 MarR family; Region: MarR_2; cl17246 717231005497 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231005498 four helix bundle protein; Region: TIGR02436 717231005499 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 717231005500 four helix bundle protein; Region: TIGR02436 717231005501 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005502 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231005503 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231005504 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005505 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231005506 COGs: COG4584 Transposase and inactivated derivatives; InterPro IPR001584; KEGG: mac:MA2579 transposase; PFAM: Integrase, catalytic core; SPTR: Transposase, IS21 717231005507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005508 Helix-turn-helix domain; Region: HTH_38; pfam13936 717231005509 Integrase core domain; Region: rve; pfam00665 717231005510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231005511 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231005512 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 717231005513 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 717231005514 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 717231005515 NADH dehydrogenase subunit 6; Provisional; Region: ND6; cl17265 717231005516 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 717231005517 putative active site [active] 717231005518 catalytic triad [active] 717231005519 putative dimer interface [polypeptide binding]; other site 717231005520 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 717231005521 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 717231005522 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 717231005523 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 717231005524 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 717231005525 dimerization interface 3.5A [polypeptide binding]; other site 717231005526 active site 717231005527 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 717231005528 Zn-finger in Ran binding protein and others; Region: zf-RanBP; cl02656 717231005529 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231005530 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 717231005531 putative ADP-binding pocket [chemical binding]; other site 717231005532 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005533 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005534 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231005535 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 717231005536 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 717231005537 ThiS interaction site; other site 717231005538 putative active site [active] 717231005539 tetramer interface [polypeptide binding]; other site 717231005540 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 717231005541 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 717231005542 FeS/SAM binding site; other site 717231005543 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 717231005544 TRAM domain; Region: TRAM; cl01282 717231005545 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 717231005546 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 717231005547 S-adenosylmethionine binding site [chemical binding]; other site 717231005548 Cache domain; Region: Cache_1; pfam02743 717231005549 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 717231005550 dimerization interface [polypeptide binding]; other site 717231005551 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 717231005552 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 717231005553 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 717231005554 Magnesium ion binding site [ion binding]; other site 717231005555 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 717231005556 ParB-like nuclease domain; Region: ParB; smart00470 717231005557 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 717231005558 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 717231005559 triosephosphate isomerase; Provisional; Region: PRK14567 717231005560 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 717231005561 substrate binding site [chemical binding]; other site 717231005562 dimer interface [polypeptide binding]; other site 717231005563 catalytic triad [active] 717231005564 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 717231005565 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 717231005566 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 717231005567 peptide binding site [polypeptide binding]; other site 717231005568 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 717231005569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005570 dimer interface [polypeptide binding]; other site 717231005571 conserved gate region; other site 717231005572 putative PBP binding loops; other site 717231005573 ABC-ATPase subunit interface; other site 717231005574 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 717231005575 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005576 dimer interface [polypeptide binding]; other site 717231005577 conserved gate region; other site 717231005578 putative PBP binding loops; other site 717231005579 ABC-ATPase subunit interface; other site 717231005580 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 717231005581 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 717231005582 putative NAD(P) binding site [chemical binding]; other site 717231005583 active site 717231005584 hypothetical protein; Reviewed; Region: PRK00024 717231005585 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 717231005586 MPN+ (JAMM) motif; other site 717231005587 Zinc-binding site [ion binding]; other site 717231005589 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 717231005590 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005591 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005592 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231005593 COGs: COG3421 conserved hypothetical protein; InterPro IPR014001:IPR006935; KEGG: kol:Kole_0061 type III site-specific deoxyribonuclease; PFAM: Restriction endonuclease, type I, R subunit/Type III, Res subunit; PRIAM: Type III site-specific deoxyribonuclease; SMART: DEAD-like helicase, N-terminal; SPTR: Putative uncharacterized protein 717231005594 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 717231005595 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 717231005596 ATP binding site [chemical binding]; other site 717231005597 putative Mg++ binding site [ion binding]; other site 717231005598 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 717231005599 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 717231005600 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 717231005601 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 717231005602 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 717231005603 pyruvate carboxylase; Reviewed; Region: PRK12999 717231005604 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231005605 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 717231005606 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 717231005607 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 717231005608 active site 717231005609 catalytic residues [active] 717231005610 metal binding site [ion binding]; metal-binding site 717231005611 homodimer binding site [polypeptide binding]; other site 717231005612 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 717231005613 carboxyltransferase (CT) interaction site; other site 717231005614 biotinylation site [posttranslational modification]; other site 717231005615 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 717231005616 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 717231005617 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 717231005618 Ligand Binding Site [chemical binding]; other site 717231005619 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 717231005620 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 717231005621 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231005622 catalytic residue [active] 717231005623 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 717231005624 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 717231005625 molybdopterin cofactor binding site; other site 717231005626 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 717231005627 molybdopterin cofactor binding site; other site 717231005628 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 717231005629 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 717231005630 Walker A/P-loop; other site 717231005631 ATP binding site [chemical binding]; other site 717231005632 Q-loop/lid; other site 717231005633 ABC transporter signature motif; other site 717231005634 Walker B; other site 717231005635 D-loop; other site 717231005636 H-loop/switch region; other site 717231005637 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 717231005638 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 717231005639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005640 dimer interface [polypeptide binding]; other site 717231005641 conserved gate region; other site 717231005642 putative PBP binding loops; other site 717231005643 ABC-ATPase subunit interface; other site 717231005644 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 717231005645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005646 dimer interface [polypeptide binding]; other site 717231005647 conserved gate region; other site 717231005648 putative PBP binding loops; other site 717231005649 ABC-ATPase subunit interface; other site 717231005650 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 717231005651 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231005652 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005653 dimer interface [polypeptide binding]; other site 717231005654 conserved gate region; other site 717231005655 putative PBP binding loops; other site 717231005656 ABC-ATPase subunit interface; other site 717231005657 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 717231005658 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231005659 substrate binding pocket [chemical binding]; other site 717231005660 membrane-bound complex binding site; other site 717231005661 hinge residues; other site 717231005662 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231005663 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231005664 dimer interface [polypeptide binding]; other site 717231005665 conserved gate region; other site 717231005666 putative PBP binding loops; other site 717231005667 ABC-ATPase subunit interface; other site 717231005668 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 717231005669 FAD binding domain; Region: FAD_binding_4; pfam01565 717231005670 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 717231005671 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 717231005672 Predicted membrane protein [Function unknown]; Region: COG2860 717231005673 UPF0126 domain; Region: UPF0126; pfam03458 717231005674 UPF0126 domain; Region: UPF0126; pfam03458 717231005675 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231005676 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 717231005677 Walker A/P-loop; other site 717231005678 ATP binding site [chemical binding]; other site 717231005679 Q-loop/lid; other site 717231005680 ABC transporter signature motif; other site 717231005681 Walker B; other site 717231005682 D-loop; other site 717231005683 H-loop/switch region; other site 717231005684 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 717231005685 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005686 FtsX-like permease family; Region: FtsX; pfam02687 717231005687 GMP synthase; Reviewed; Region: guaA; PRK00074 717231005688 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 717231005689 AMP/PPi binding site [chemical binding]; other site 717231005690 candidate oxyanion hole; other site 717231005691 catalytic triad [active] 717231005692 potential glutamine specificity residues [chemical binding]; other site 717231005693 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 717231005694 ATP Binding subdomain [chemical binding]; other site 717231005695 Ligand Binding sites [chemical binding]; other site 717231005696 Dimerization subdomain; other site 717231005697 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 717231005698 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 717231005699 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 717231005700 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 717231005701 active site 717231005702 NAD synthetase; Provisional; Region: PRK13980 717231005703 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 717231005704 homodimer interface [polypeptide binding]; other site 717231005705 NAD binding pocket [chemical binding]; other site 717231005706 ATP binding pocket [chemical binding]; other site 717231005707 Mg binding site [ion binding]; other site 717231005708 active-site loop [active] 717231005709 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231005710 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231005711 active site 717231005712 catalytic triad [active] 717231005713 dimer interface [polypeptide binding]; other site 717231005714 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 717231005715 trimer interface [polypeptide binding]; other site 717231005716 dimer interface [polypeptide binding]; other site 717231005717 putative active site [active] 717231005718 Bacterial SH3 domain homologues; Region: SH3b; smart00287 717231005719 GTP-binding protein YchF; Reviewed; Region: PRK09601 717231005720 YchF GTPase; Region: YchF; cd01900 717231005721 G1 box; other site 717231005722 GTP/Mg2+ binding site [chemical binding]; other site 717231005723 Switch I region; other site 717231005724 G2 box; other site 717231005725 Switch II region; other site 717231005726 G3 box; other site 717231005727 G4 box; other site 717231005728 G5 box; other site 717231005729 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 717231005730 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 717231005731 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 717231005732 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 717231005733 putative active site [active] 717231005734 catalytic residue [active] 717231005735 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 717231005736 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 717231005737 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231005738 active site 717231005739 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 717231005740 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 717231005741 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 717231005742 binding surface 717231005743 TPR motif; other site 717231005744 TPR repeat; Region: TPR_11; pfam13414 717231005745 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 717231005746 binding surface 717231005747 TPR motif; other site 717231005748 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 717231005749 binding surface 717231005750 TPR motif; other site 717231005751 TPR repeat; Region: TPR_11; pfam13414 717231005752 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 717231005753 binding surface 717231005754 TPR motif; other site 717231005755 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231005756 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 717231005757 binding surface 717231005758 TPR motif; other site 717231005759 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 717231005760 binding surface 717231005761 TPR motif; other site 717231005762 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 717231005763 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231005764 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 717231005765 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 717231005766 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 717231005767 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 717231005768 carboxyltransferase (CT) interaction site; other site 717231005769 biotinylation site [posttranslational modification]; other site 717231005770 elongation factor P; Validated; Region: PRK00529 717231005771 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 717231005772 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 717231005773 RNA binding site [nucleotide binding]; other site 717231005774 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 717231005775 RNA binding site [nucleotide binding]; other site 717231005776 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231005777 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231005778 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 717231005779 active site 717231005780 Dehydroquinase class II; Region: DHquinase_II; pfam01220 717231005781 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 717231005782 trimer interface [polypeptide binding]; other site 717231005783 active site 717231005784 dimer interface [polypeptide binding]; other site 717231005785 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 717231005786 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 717231005787 TPR motif; other site 717231005788 binding surface 717231005789 Tetratricopeptide repeat; Region: TPR_16; pfam13432 717231005790 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 717231005791 active site 717231005792 dimer interface [polypeptide binding]; other site 717231005793 metal binding site [ion binding]; metal-binding site 717231005794 shikimate kinase; Reviewed; Region: aroK; PRK00131 717231005795 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 717231005796 ADP binding site [chemical binding]; other site 717231005797 magnesium binding site [ion binding]; other site 717231005798 putative shikimate binding site; other site 717231005799 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 717231005800 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 717231005801 active site 717231005802 dimerization interface [polypeptide binding]; other site 717231005803 ribonuclease PH; Reviewed; Region: rph; PRK00173 717231005804 Ribonuclease PH; Region: RNase_PH_bact; cd11362 717231005805 hexamer interface [polypeptide binding]; other site 717231005806 active site 717231005807 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 717231005808 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 717231005809 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 717231005810 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 717231005811 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 717231005812 Walker A motif; other site 717231005813 ATP binding site [chemical binding]; other site 717231005814 Walker B motif; other site 717231005815 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 717231005816 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 717231005817 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 717231005818 tandem repeat interface [polypeptide binding]; other site 717231005819 oligomer interface [polypeptide binding]; other site 717231005820 active site residues [active] 717231005821 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 717231005822 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 717231005823 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 717231005824 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 717231005825 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 717231005826 RNA binding site [nucleotide binding]; other site 717231005827 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 717231005828 RNA binding site [nucleotide binding]; other site 717231005829 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 717231005830 RNA binding site [nucleotide binding]; other site 717231005831 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; cd00164 717231005832 RNA binding site [nucleotide binding]; other site 717231005833 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 717231005834 RNA binding site [nucleotide binding]; other site 717231005835 S1 RNA binding domain; Region: S1; pfam00575 717231005836 RNA binding site [nucleotide binding]; other site 717231005837 LytB protein; Region: LYTB; cl00507 717231005838 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 717231005839 cytidylate kinase; Provisional; Region: cmk; PRK00023 717231005840 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 717231005841 CMP-binding site; other site 717231005842 The sites determining sugar specificity; other site 717231005843 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 717231005844 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 717231005845 hinge; other site 717231005846 active site 717231005847 prephenate dehydrogenase; Validated; Region: PRK08507 717231005848 Prephenate dehydrogenase; Region: PDH; pfam02153 717231005849 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 717231005850 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 717231005851 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 717231005852 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 717231005853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231005854 homodimer interface [polypeptide binding]; other site 717231005855 catalytic residue [active] 717231005856 Chorismate mutase type II; Region: CM_2; pfam01817 717231005857 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 717231005858 Prephenate dehydratase; Region: PDT; pfam00800 717231005859 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 717231005860 putative L-Phe binding site [chemical binding]; other site 717231005861 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 717231005862 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 717231005863 Rubrerythrin [Energy production and conversion]; Region: COG1592 717231005864 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 717231005865 binuclear metal center [ion binding]; other site 717231005866 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 717231005867 iron binding site [ion binding]; other site 717231005868 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 717231005869 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 717231005870 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005871 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 717231005872 PhoU domain; Region: PhoU; pfam01895 717231005873 PhoU domain; Region: PhoU; pfam01895 717231005874 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 717231005875 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005876 active site 717231005877 phosphorylation site [posttranslational modification] 717231005878 intermolecular recognition site; other site 717231005879 dimerization interface [polypeptide binding]; other site 717231005880 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 717231005881 DNA binding site [nucleotide binding] 717231005882 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 717231005883 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 717231005884 dimer interface [polypeptide binding]; other site 717231005885 phosphorylation site [posttranslational modification] 717231005886 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 717231005887 ATP binding site [chemical binding]; other site 717231005888 Mg2+ binding site [ion binding]; other site 717231005889 G-X-G motif; other site 717231005890 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 717231005891 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 717231005892 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 717231005893 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 717231005894 nudix motif; other site 717231005895 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 717231005896 Clp amino terminal domain; Region: Clp_N; pfam02861 717231005897 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 717231005898 Walker A motif; other site 717231005899 ATP binding site [chemical binding]; other site 717231005900 Walker B motif; other site 717231005901 arginine finger; other site 717231005902 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 717231005903 Walker A motif; other site 717231005904 ATP binding site [chemical binding]; other site 717231005905 Walker B motif; other site 717231005906 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 717231005907 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231005908 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231005909 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 717231005910 active site 717231005911 catalytic residues [active] 717231005912 metal binding site [ion binding]; metal-binding site 717231005913 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 717231005914 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 717231005915 dimerization interface [polypeptide binding]; other site 717231005916 ligand binding site [chemical binding]; other site 717231005917 NADP binding site [chemical binding]; other site 717231005918 catalytic site [active] 717231005919 Flagellin N-methylase; Region: FliB; pfam03692 717231005920 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 717231005921 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 717231005922 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 717231005923 Walker A motif; other site 717231005924 ATP binding site [chemical binding]; other site 717231005925 Walker B motif; other site 717231005926 Uncharacterized protein conserved in archaea (DUF2124); Region: DUF2124; cl01695 717231005927 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231005928 Transposase domain (DUF772); Region: DUF772; pfam05598 717231005929 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231005930 InterPro IPR003173; KEGG: lil:LA_4329 transcriptional coactivator-like protein; PFAM: Transcriptional coactivator p15; SPTR: Transcriptional coactivator P15 717231005931 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 717231005932 SprT-like family; Region: SprT-like; pfam10263 717231005933 SprT homologues; Region: SprT; cl01182 717231005934 Protein of unknown function (DUF2283); Region: DUF2283; pfam10049 717231005935 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 717231005936 Short C-terminal domain; Region: SHOCT; pfam09851 717231005937 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 717231005938 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 717231005939 putative ligand binding site [chemical binding]; other site 717231005940 Response regulator receiver domain; Region: Response_reg; pfam00072 717231005941 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005942 active site 717231005943 phosphorylation site [posttranslational modification] 717231005944 intermolecular recognition site; other site 717231005945 dimerization interface [polypeptide binding]; other site 717231005946 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 717231005947 putative DNA binding site [nucleotide binding]; other site 717231005948 dimerization interface [polypeptide binding]; other site 717231005949 putative Zn2+ binding site [ion binding]; other site 717231005950 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231005951 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 717231005952 dimer interface [polypeptide binding]; other site 717231005953 phosphorylation site [posttranslational modification] 717231005954 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 717231005955 ATP binding site [chemical binding]; other site 717231005956 Mg2+ binding site [ion binding]; other site 717231005957 G-X-G motif; other site 717231005958 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231005959 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 717231005960 Walker A/P-loop; other site 717231005961 ATP binding site [chemical binding]; other site 717231005962 Q-loop/lid; other site 717231005963 ABC transporter signature motif; other site 717231005964 Walker B; other site 717231005965 D-loop; other site 717231005966 H-loop/switch region; other site 717231005967 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005968 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231005969 FtsX-like permease family; Region: FtsX; pfam02687 717231005970 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 717231005971 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005972 Predicted membrane protein [Function unknown]; Region: COG4393 717231005973 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 717231005974 Fe2+ transport protein; Region: Iron_transport; pfam10634 717231005975 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 717231005976 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 717231005977 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 717231005978 putative substrate translocation pore; other site 717231005979 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 717231005980 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231005981 Coenzyme A binding pocket [chemical binding]; other site 717231005982 KEGG: mpd:MCP_1677 putative signaling protein; SPTR: Putative signaling protein 717231005983 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 717231005984 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 717231005985 NADP binding site [chemical binding]; other site 717231005986 dimer interface [polypeptide binding]; other site 717231005987 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 717231005988 EamA-like transporter family; Region: EamA; pfam00892 717231005989 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231005990 EamA-like transporter family; Region: EamA; pfam00892 717231005991 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 717231005992 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 717231005993 Found in ATP-dependent protease La (LON); Region: LON; smart00464 717231005994 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 717231005995 Walker A motif; other site 717231005996 ATP binding site [chemical binding]; other site 717231005997 Walker B motif; other site 717231005998 arginine finger; other site 717231005999 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 717231006000 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 717231006001 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 717231006002 putative dimer interface [polypeptide binding]; other site 717231006003 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 717231006004 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 717231006005 active site 717231006006 tetramer interface; other site 717231006007 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 717231006008 putative ligand binding pocket/active site [active] 717231006009 putative metal binding site [ion binding]; other site 717231006010 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 717231006011 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006013 active site 717231006014 phosphorylation site [posttranslational modification] 717231006015 intermolecular recognition site; other site 717231006016 dimerization interface [polypeptide binding]; other site 717231006017 GAF domain; Region: GAF_2; pfam13185 717231006018 GAF domain; Region: GAF; pfam01590 717231006019 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231006020 Zn2+ binding site [ion binding]; other site 717231006021 Mg2+ binding site [ion binding]; other site 717231006022 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 717231006023 HSP70 interaction site [polypeptide binding]; other site 717231006024 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 717231006025 binding surface 717231006026 TPR motif; other site 717231006027 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 717231006028 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 717231006029 catalytic loop [active] 717231006030 iron binding site [ion binding]; other site 717231006031 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 717231006032 FAD binding pocket [chemical binding]; other site 717231006033 FAD binding motif [chemical binding]; other site 717231006034 phosphate binding motif [ion binding]; other site 717231006035 beta-alpha-beta structure motif; other site 717231006036 NAD binding pocket [chemical binding]; other site 717231006037 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 717231006038 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 717231006039 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 717231006040 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 717231006041 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 717231006042 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 717231006043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231006044 Integrase core domain; Region: rve; pfam00665 717231006045 transposase/IS protein; Provisional; Region: PRK09183 717231006046 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 717231006047 Walker A motif; other site 717231006048 ATP binding site [chemical binding]; other site 717231006049 Walker B motif; other site 717231006050 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231006051 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231006052 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231006053 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231006054 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006055 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006056 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231006057 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 717231006058 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 717231006059 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 717231006060 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 717231006061 catalytic site [active] 717231006062 subunit interface [polypeptide binding]; other site 717231006063 YceG-like family; Region: YceG; pfam02618 717231006064 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 717231006065 dimerization interface [polypeptide binding]; other site 717231006066 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231006067 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006068 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006069 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231006070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231006071 Helix-turn-helix domain; Region: HTH_38; pfam13936 717231006072 Integrase core domain; Region: rve; pfam00665 717231006073 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231006074 active site 717231006075 NTP binding site [chemical binding]; other site 717231006076 metal binding triad [ion binding]; metal-binding site 717231006077 antibiotic binding site [chemical binding]; other site 717231006078 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231006079 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006080 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 717231006081 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 717231006082 Mg++ binding site [ion binding]; other site 717231006083 putative catalytic motif [active] 717231006084 manually curated 717231006085 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231006086 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006087 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231006088 COGs: COG5421 Transposase; InterPro IPR002559; KEGG: dal:Dalk_2552 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231006089 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006090 COGs: COG1484 DNA replication protein; InterPro IPR003593:IPR002611; KEGG: sfu:Sfum_2832 IstB ATP binding domain-containing protein; PFAM: IstB-like ATP-binding protein; SMART: ATPase, AAA+ type, core; SPTR: IstB domain protein ATP-binding protein 717231006091 transposase/IS protein; Provisional; Region: PRK09183 717231006092 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 717231006093 Walker A motif; other site 717231006094 ATP binding site [chemical binding]; other site 717231006095 Walker B motif; other site 717231006096 arginine finger; other site 717231006097 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006098 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006099 COGs: COG1012 NAD-dependent aldehyde dehydrogenase; InterPro IPR015590; KEGG: ant:Arnit_1222 aldehyde dehydrogenase; PFAM: Aldehyde dehydrogenase; PRIAM: Succinate-semialdehyde dehydrogenase (NAD(P)(+)); SPTR: Aldehyde Dehydrogenase 717231006100 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231006101 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 717231006102 NAD(P) binding site [chemical binding]; other site 717231006103 catalytic residues [active] 717231006104 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231006105 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231006106 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 717231006107 active site 717231006108 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 717231006109 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 717231006110 inhibitor-cofactor binding pocket; inhibition site 717231006111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006112 catalytic residue [active] 717231006113 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 717231006114 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 717231006115 metal binding site [ion binding]; metal-binding site 717231006116 dimer interface [polypeptide binding]; other site 717231006117 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 717231006118 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 717231006119 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 717231006120 substrate binding pocket [chemical binding]; other site 717231006121 dimer interface [polypeptide binding]; other site 717231006122 inhibitor binding site; inhibition site 717231006123 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 717231006124 B12 binding site [chemical binding]; other site 717231006125 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 717231006126 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 717231006127 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 717231006128 Walker A/P-loop; other site 717231006129 ATP binding site [chemical binding]; other site 717231006130 Q-loop/lid; other site 717231006131 ABC transporter signature motif; other site 717231006132 Walker B; other site 717231006133 D-loop; other site 717231006134 H-loop/switch region; other site 717231006135 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231006136 dimer interface [polypeptide binding]; other site 717231006137 conserved gate region; other site 717231006138 putative PBP binding loops; other site 717231006139 ABC-ATPase subunit interface; other site 717231006140 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231006141 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231006142 dimer interface [polypeptide binding]; other site 717231006143 conserved gate region; other site 717231006144 putative PBP binding loops; other site 717231006145 ABC-ATPase subunit interface; other site 717231006146 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 717231006147 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 717231006148 substrate binding pocket [chemical binding]; other site 717231006149 membrane-bound complex binding site; other site 717231006150 hinge residues; other site 717231006151 Uncharacterized conserved protein [Function unknown]; Region: COG4198 717231006152 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 717231006153 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 717231006154 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 717231006155 active site 717231006156 HIGH motif; other site 717231006157 dimer interface [polypeptide binding]; other site 717231006158 KMSKS motif; other site 717231006159 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 717231006160 RNA binding surface [nucleotide binding]; other site 717231006161 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 717231006162 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 717231006163 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 717231006164 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 717231006165 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 717231006166 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 717231006167 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 717231006168 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 717231006169 active site 717231006170 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 717231006171 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 717231006172 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 717231006173 trimer interface [polypeptide binding]; other site 717231006174 active site 717231006175 UDP-GlcNAc binding site [chemical binding]; other site 717231006176 lipid binding site [chemical binding]; lipid-binding site 717231006177 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 717231006178 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 717231006179 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 717231006180 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 717231006181 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 717231006182 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 717231006183 Surface antigen; Region: Bac_surface_Ag; pfam01103 717231006184 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 717231006185 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 717231006186 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 717231006187 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 717231006188 hinge; other site 717231006189 active site 717231006190 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 717231006191 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 717231006192 S-adenosylmethionine binding site [chemical binding]; other site 717231006193 peptide chain release factor 1; Validated; Region: prfA; PRK00591 717231006194 This domain is found in peptide chain release factors; Region: PCRF; smart00937 717231006195 RF-1 domain; Region: RF-1; pfam00472 717231006196 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 717231006197 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 717231006198 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 717231006199 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 717231006200 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 717231006201 23S rRNA interface [nucleotide binding]; other site 717231006202 L3 interface [polypeptide binding]; other site 717231006203 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 717231006204 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 717231006205 SAM-dependent RNA methyltransferase; Region: Methyltrn_RNA_4; pfam09936 717231006206 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 717231006207 RimM N-terminal domain; Region: RimM; pfam01782 717231006208 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 717231006209 hypothetical protein; Provisional; Region: PRK00468 717231006210 G-X-X-G motif; other site 717231006211 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 717231006212 signal recognition particle protein; Provisional; Region: PRK10867 717231006213 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 717231006214 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 717231006215 P loop; other site 717231006216 GTP binding site [chemical binding]; other site 717231006217 Signal peptide binding domain; Region: SRP_SPB; pfam02978 717231006218 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 717231006219 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 717231006220 CoA-binding site [chemical binding]; other site 717231006221 ATP-binding [chemical binding]; other site 717231006222 Flagellin N-methylase; Region: FliB; cl00497 717231006223 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 717231006224 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 717231006225 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 717231006226 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 717231006227 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 717231006228 active site 717231006229 NTP binding site [chemical binding]; other site 717231006230 metal binding triad [ion binding]; metal-binding site 717231006231 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 717231006232 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231006233 Zn2+ binding site [ion binding]; other site 717231006234 Mg2+ binding site [ion binding]; other site 717231006235 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 717231006236 active site 717231006237 metal binding site [ion binding]; metal-binding site 717231006238 homotetramer interface [polypeptide binding]; other site 717231006239 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 717231006240 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231006241 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006242 transcription termination factor Rho; Provisional; Region: rho; PRK09376 717231006243 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 717231006244 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 717231006245 RNA binding site [nucleotide binding]; other site 717231006246 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 717231006247 multimer interface [polypeptide binding]; other site 717231006248 Walker A motif; other site 717231006249 ATP binding site [chemical binding]; other site 717231006250 Walker B motif; other site 717231006251 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 717231006252 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 717231006253 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 717231006254 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006255 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 717231006256 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 717231006257 Tetramer interface [polypeptide binding]; other site 717231006258 active site 717231006259 FMN-binding site [chemical binding]; other site 717231006260 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 717231006261 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 717231006262 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 717231006263 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 717231006264 putative NAD(P) binding site [chemical binding]; other site 717231006265 putative substrate binding site [chemical binding]; other site 717231006266 catalytic Zn binding site [ion binding]; other site 717231006267 structural Zn binding site [ion binding]; other site 717231006268 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231006269 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 717231006270 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 717231006271 acyl-activating enzyme (AAE) consensus motif; other site 717231006272 acyl-activating enzyme (AAE) consensus motif; other site 717231006273 putative AMP binding site [chemical binding]; other site 717231006274 putative active site [active] 717231006275 putative CoA binding site [chemical binding]; other site 717231006276 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 717231006277 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 717231006278 S-adenosylmethionine binding site [chemical binding]; other site 717231006279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231006280 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231006281 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231006282 PilZ domain; Region: PilZ; pfam07238 717231006283 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 717231006284 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231006285 Zn2+ binding site [ion binding]; other site 717231006286 Mg2+ binding site [ion binding]; other site 717231006287 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006288 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 717231006289 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 717231006290 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006291 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006292 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231006293 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231006294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006295 active site 717231006296 phosphorylation site [posttranslational modification] 717231006297 intermolecular recognition site; other site 717231006298 dimerization interface [polypeptide binding]; other site 717231006299 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 717231006300 Walker A motif; other site 717231006301 ATP binding site [chemical binding]; other site 717231006302 Walker B motif; other site 717231006303 arginine finger; other site 717231006304 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 717231006305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231006306 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 717231006307 dimer interface [polypeptide binding]; other site 717231006308 phosphorylation site [posttranslational modification] 717231006309 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 717231006310 ATP binding site [chemical binding]; other site 717231006311 Mg2+ binding site [ion binding]; other site 717231006312 G-X-G motif; other site 717231006313 NHL repeat; Region: NHL; pfam01436 717231006314 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006315 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006316 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006317 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231006318 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 717231006319 binding surface 717231006320 TPR motif; other site 717231006321 Tetratricopeptide repeat; Region: TPR_16; pfam13432 717231006322 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006323 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006324 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006325 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006326 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006327 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006328 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006329 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006330 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006331 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006332 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 717231006333 Uncharacterized conserved protein [Function unknown]; Region: COG3391 717231006334 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 717231006335 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 717231006336 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 717231006337 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006338 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006339 active site 717231006340 phosphorylation site [posttranslational modification] 717231006341 intermolecular recognition site; other site 717231006342 dimerization interface [polypeptide binding]; other site 717231006343 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231006344 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231006345 metal binding site [ion binding]; metal-binding site 717231006346 active site 717231006347 I-site; other site 717231006348 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 717231006349 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 717231006350 catalytic residues [active] 717231006351 GTP-binding protein Der; Reviewed; Region: PRK00093 717231006352 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 717231006353 G1 box; other site 717231006354 GTP/Mg2+ binding site [chemical binding]; other site 717231006355 Switch I region; other site 717231006356 G2 box; other site 717231006357 Switch II region; other site 717231006358 G3 box; other site 717231006359 G4 box; other site 717231006360 G5 box; other site 717231006361 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 717231006362 G1 box; other site 717231006363 GTP/Mg2+ binding site [chemical binding]; other site 717231006364 Switch I region; other site 717231006365 G2 box; other site 717231006366 G3 box; other site 717231006367 Switch II region; other site 717231006368 G4 box; other site 717231006369 G5 box; other site 717231006370 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 717231006371 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 717231006372 HIGH motif; other site 717231006373 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 717231006374 active site 717231006375 KMSKS motif; other site 717231006376 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006377 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006378 active site 717231006379 phosphorylation site [posttranslational modification] 717231006380 intermolecular recognition site; other site 717231006381 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006382 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006383 active site 717231006384 phosphorylation site [posttranslational modification] 717231006385 intermolecular recognition site; other site 717231006386 dimerization interface [polypeptide binding]; other site 717231006387 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 717231006388 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231006389 metal binding site [ion binding]; metal-binding site 717231006390 active site 717231006391 I-site; other site 717231006392 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 717231006393 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 717231006394 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 717231006395 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 717231006396 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 717231006397 glutamine binding [chemical binding]; other site 717231006398 catalytic triad [active] 717231006399 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 717231006400 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 717231006401 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 717231006402 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 717231006403 active site 717231006404 ribulose/triose binding site [chemical binding]; other site 717231006405 phosphate binding site [ion binding]; other site 717231006406 substrate (anthranilate) binding pocket [chemical binding]; other site 717231006407 product (indole) binding pocket [chemical binding]; other site 717231006408 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 717231006409 active site 717231006410 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 717231006411 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 717231006412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006413 catalytic residue [active] 717231006414 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 717231006415 substrate binding site [chemical binding]; other site 717231006416 active site 717231006417 catalytic residues [active] 717231006418 heterodimer interface [polypeptide binding]; other site 717231006419 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 717231006420 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231006421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231006422 Walker A/P-loop; other site 717231006423 ATP binding site [chemical binding]; other site 717231006424 Q-loop/lid; other site 717231006425 ABC transporter signature motif; other site 717231006426 Walker B; other site 717231006427 D-loop; other site 717231006428 H-loop/switch region; other site 717231006429 Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]; Region: HypB; COG0378 717231006430 Domain of unknown function (DUF1858); Region: DUF1858; pfam08984 717231006431 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 717231006432 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 717231006433 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 717231006434 dimer interface [polypeptide binding]; other site 717231006435 motif 1; other site 717231006436 active site 717231006437 motif 2; other site 717231006438 motif 3; other site 717231006439 argininosuccinate synthase; Provisional; Region: PRK13820 717231006440 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 717231006441 ANP binding site [chemical binding]; other site 717231006442 Substrate Binding Site II [chemical binding]; other site 717231006443 Substrate Binding Site I [chemical binding]; other site 717231006444 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 717231006445 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 717231006446 metal binding site [ion binding]; metal-binding site 717231006447 dimer interface [polypeptide binding]; other site 717231006448 selenocysteine synthase; Provisional; Region: PRK04311 717231006449 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 717231006450 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231006451 catalytic residue [active] 717231006452 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 717231006453 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 717231006454 G1 box; other site 717231006455 putative GEF interaction site [polypeptide binding]; other site 717231006456 GTP/Mg2+ binding site [chemical binding]; other site 717231006457 Switch I region; other site 717231006458 G2 box; other site 717231006459 G3 box; other site 717231006460 Switch II region; other site 717231006461 G4 box; other site 717231006462 G5 box; other site 717231006463 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 717231006464 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 717231006465 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 717231006466 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231006467 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006468 Protein of unknown function (DUF494); Region: DUF494; cl01103 717231006469 DNA topoisomerase I; Validated; Region: PRK06599 717231006470 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 717231006471 active site 717231006472 interdomain interaction site; other site 717231006473 putative metal-binding site [ion binding]; other site 717231006474 nucleotide binding site [chemical binding]; other site 717231006475 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 717231006476 domain I; other site 717231006477 DNA binding groove [nucleotide binding] 717231006478 phosphate binding site [ion binding]; other site 717231006479 domain II; other site 717231006480 domain III; other site 717231006481 nucleotide binding site [chemical binding]; other site 717231006482 catalytic site [active] 717231006483 domain IV; other site 717231006484 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006485 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006486 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006487 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006488 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 717231006489 Glucose inhibited division protein A; Region: GIDA; pfam01134 717231006490 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 717231006491 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 717231006492 active site 717231006493 DNA binding site [nucleotide binding] 717231006494 Int/Topo IB signature motif; other site 717231006495 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 717231006496 dimerization interface [polypeptide binding]; other site 717231006497 putative ATP binding site [chemical binding]; other site 717231006498 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 717231006499 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 717231006500 CPxP motif; other site 717231006501 DsrE/DsrF-like family; Region: DrsE; pfam02635 717231006502 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 717231006503 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 717231006504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006505 homodimer interface [polypeptide binding]; other site 717231006506 catalytic residue [active] 717231006507 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 717231006508 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 717231006509 S-adenosylmethionine binding site [chemical binding]; other site 717231006510 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 717231006511 dimerization interface [polypeptide binding]; other site 717231006512 putative DNA binding site [nucleotide binding]; other site 717231006513 putative Zn2+ binding site [ion binding]; other site 717231006514 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006515 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 717231006516 S-adenosylmethionine binding site [chemical binding]; other site 717231006517 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006518 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231006519 Uncharacterized conserved protein [Function unknown]; Region: COG0398 717231006520 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 717231006521 mercuric reductase; Validated; Region: PRK06370 717231006522 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231006523 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231006524 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 717231006525 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006526 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 717231006527 S-adenosylmethionine binding site [chemical binding]; other site 717231006528 InterPro IPR001173; KEGG: dat:HRM2_00320 glycosyl transferase, group 2 family protein; PFAM: Glycosyl transferase, family 2; SPTR: Glycosyl transferase, group 2 family protein 717231006529 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 717231006530 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 717231006531 Probable Catalytic site; other site 717231006532 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 717231006533 PAS fold; Region: PAS; pfam00989 717231006534 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 717231006535 putative active site [active] 717231006536 heme pocket [chemical binding]; other site 717231006537 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 717231006538 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 717231006539 Walker A motif; other site 717231006540 ATP binding site [chemical binding]; other site 717231006541 Walker B motif; other site 717231006542 arginine finger; other site 717231006543 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 717231006544 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231006545 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231006546 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231006547 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 717231006548 DctM-like transporters; Region: DctM; pfam06808 717231006549 putative acyltransferase; Provisional; Region: PRK05790 717231006550 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 717231006551 dimer interface [polypeptide binding]; other site 717231006552 active site 717231006553 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 717231006554 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 717231006555 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 717231006556 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 717231006557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006558 NAD(P) binding site [chemical binding]; other site 717231006559 active site 717231006560 4Fe-4S binding domain; Region: Fer4; pfam00037 717231006561 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 717231006562 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 717231006563 inhibitor-cofactor binding pocket; inhibition site 717231006564 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006565 catalytic residue [active] 717231006566 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 717231006567 putative acyl-acceptor binding pocket; other site 717231006568 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 717231006569 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 717231006570 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 717231006571 putative acyl-acceptor binding pocket; other site 717231006572 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 717231006573 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 717231006574 active site 717231006575 motif I; other site 717231006576 motif II; other site 717231006577 ornithine carbamoyltransferase; Provisional; Region: PRK00779 717231006578 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 717231006579 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 717231006580 acetylornithine aminotransferase; Provisional; Region: PRK02627 717231006581 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 717231006582 inhibitor-cofactor binding pocket; inhibition site 717231006583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006584 catalytic residue [active] 717231006585 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 717231006586 4Fe-4S binding domain; Region: Fer4; pfam00037 717231006587 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 717231006588 AMMECR1; Region: AMMECR1; pfam01871 717231006589 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 717231006590 methionine sulfoxide reductase A; Provisional; Region: PRK14054 717231006591 methionine sulfoxide reductase B; Provisional; Region: PRK00222 717231006592 SelR domain; Region: SelR; pfam01641 717231006593 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006594 KEGG: ddf:DEFDS_2024 hypothetical protein; SPTR: Putative uncharacterized protein 717231006595 intracellular protease, PfpI family; Region: PfpI; TIGR01382 717231006596 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 717231006597 conserved cys residue [active] 717231006598 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 717231006599 anti sigma factor interaction site; other site 717231006600 regulatory phosphorylation site [posttranslational modification]; other site 717231006601 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 717231006602 anti sigma factor interaction site; other site 717231006603 regulatory phosphorylation site [posttranslational modification]; other site 717231006604 HEAT repeats; Region: HEAT_2; pfam13646 717231006605 HEAT repeats; Region: HEAT_2; pfam13646 717231006606 HEAT repeats; Region: HEAT_2; pfam13646 717231006607 HEAT repeats; Region: HEAT_2; pfam13646 717231006608 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 717231006609 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 717231006610 Walker A motif; other site 717231006611 ATP binding site [chemical binding]; other site 717231006612 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 717231006613 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 717231006614 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 717231006615 active site 717231006616 HslU subunit interaction site [polypeptide binding]; other site 717231006617 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006618 AAA domain; Region: AAA_32; pfam13654 717231006619 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 717231006620 heat shock protein 90; Provisional; Region: PRK05218 717231006621 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 717231006622 ATP binding site [chemical binding]; other site 717231006623 Mg2+ binding site [ion binding]; other site 717231006624 G-X-G motif; other site 717231006625 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 717231006626 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 717231006627 Ligand Binding Site [chemical binding]; other site 717231006628 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006629 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 717231006630 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 717231006631 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006632 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 717231006633 S-adenosylmethionine binding site [chemical binding]; other site 717231006634 COGs: COG1555 DNA uptake protein and related DNA-binding protein; InterPro IPR004509; KEGG: ddf:DEFDS_0356 DNA uptake protein; SPTR: DNA uptake protein; TIGRFAM: Competence protein ComEA, helix-hairpin-helix region 717231006635 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 717231006636 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 717231006637 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 717231006638 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 717231006639 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 717231006640 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 717231006641 Uncharacterized conserved protein [Function unknown]; Region: COG2006 717231006642 4Fe-4S binding domain; Region: Fer4_6; pfam12837 717231006643 4Fe-4S binding domain; Region: Fer4; pfam00037 717231006644 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 717231006645 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 717231006646 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 717231006647 intersubunit interface [polypeptide binding]; other site 717231006648 active site 717231006649 zinc binding site [ion binding]; other site 717231006650 Na+ binding site [ion binding]; other site 717231006651 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 717231006652 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 717231006653 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 717231006654 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 717231006655 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231006656 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231006657 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 717231006658 active site 717231006659 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 717231006660 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231006661 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231006662 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231006663 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 717231006664 DNA binding residues [nucleotide binding] 717231006665 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 717231006666 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 717231006667 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 717231006668 active site 717231006669 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 717231006670 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 717231006671 putative DNA binding site [nucleotide binding]; other site 717231006672 putative Zn2+ binding site [ion binding]; other site 717231006673 AsnC family; Region: AsnC_trans_reg; pfam01037 717231006674 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 717231006675 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 717231006676 minor groove reading motif; other site 717231006677 helix-hairpin-helix signature motif; other site 717231006678 substrate binding pocket [chemical binding]; other site 717231006679 active site 717231006680 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 717231006681 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 717231006682 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231006683 catalytic residue [active] 717231006684 Transcriptional regulator; Region: Rrf2; cl17282 717231006685 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231006686 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 717231006687 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 717231006688 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 717231006689 trimer interface [polypeptide binding]; other site 717231006690 active site 717231006691 substrate binding site [chemical binding]; other site 717231006692 CoA binding site [chemical binding]; other site 717231006693 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231006694 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231006695 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 717231006696 dimer interface [polypeptide binding]; other site 717231006697 ADP-ribose binding site [chemical binding]; other site 717231006698 active site 717231006699 nudix motif; other site 717231006700 metal binding site [ion binding]; metal-binding site 717231006701 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 717231006702 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 717231006703 Methyltransferase domain; Region: Methyltransf_23; pfam13489 717231006704 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 717231006705 S-adenosylmethionine binding site [chemical binding]; other site 717231006706 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 717231006707 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 717231006708 Walker A/P-loop; other site 717231006709 ATP binding site [chemical binding]; other site 717231006710 Q-loop/lid; other site 717231006711 ABC transporter signature motif; other site 717231006712 Walker B; other site 717231006713 D-loop; other site 717231006714 H-loop/switch region; other site 717231006715 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 717231006716 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 717231006717 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 717231006718 Cl- selectivity filter; other site 717231006719 Cl- binding residues [ion binding]; other site 717231006720 pore gating glutamate residue; other site 717231006721 dimer interface [polypeptide binding]; other site 717231006722 FOG: CBS domain [General function prediction only]; Region: COG0517 717231006723 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 717231006724 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006725 Domain of unknown function DUF20; Region: UPF0118; pfam01594 717231006726 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 717231006727 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 717231006728 active site 717231006729 intersubunit interactions; other site 717231006730 catalytic residue [active] 717231006731 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 717231006732 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 717231006733 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 717231006734 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 717231006735 G-X-X-G motif; other site 717231006736 R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich...; Region: R3H; cl00297 717231006737 RxxxH motif; other site 717231006738 membrane protein insertase; Provisional; Region: PRK01318 717231006739 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 717231006740 Haemolytic domain; Region: Haemolytic; pfam01809 717231006741 Ribonuclease P; Region: Ribonuclease_P; pfam00825 717231006742 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 717231006743 DNA methylase; Region: N6_N4_Mtase; pfam01555 717231006744 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 717231006745 Domain of unknown function DUF87; Region: DUF87; pfam01935 717231006746 HerA helicase [Replication, recombination, and repair]; Region: COG0433 717231006747 NurA domain; Region: NurA; cl09134 717231006748 manually curated 717231006749 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231006750 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006751 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006752 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006753 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 717231006755 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006756 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 717231006757 putative active site pocket [active] 717231006758 4-fold oligomerization interface [polypeptide binding]; other site 717231006759 metal binding residues [ion binding]; metal-binding site 717231006760 3-fold/trimer interface [polypeptide binding]; other site 717231006761 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 717231006762 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 717231006763 putative active site [active] 717231006764 oxyanion strand; other site 717231006765 catalytic triad [active] 717231006766 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 717231006767 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 717231006768 catalytic residues [active] 717231006769 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 717231006770 tetramer interfaces [polypeptide binding]; other site 717231006771 binuclear metal-binding site [ion binding]; other site 717231006772 competence damage-inducible protein A; Provisional; Region: PRK00549 717231006773 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 717231006774 putative MPT binding site; other site 717231006775 Competence-damaged protein; Region: CinA; pfam02464 717231006776 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 717231006777 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 717231006778 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 717231006779 recombinase A; Provisional; Region: recA; PRK09354 717231006780 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 717231006781 hexamer interface [polypeptide binding]; other site 717231006782 Walker A motif; other site 717231006783 ATP binding site [chemical binding]; other site 717231006784 Walker B motif; other site 717231006785 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 717231006786 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 717231006787 ATP binding site [chemical binding]; other site 717231006788 Walker B motif; other site 717231006789 recombination regulator RecX; Reviewed; Region: recX; PRK00117 717231006790 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 717231006791 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 717231006792 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 717231006793 replicative DNA helicase; Region: DnaB; TIGR00665 717231006794 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 717231006795 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 717231006796 Walker A motif; other site 717231006797 ATP binding site [chemical binding]; other site 717231006798 Walker B motif; other site 717231006799 DNA binding loops [nucleotide binding] 717231006800 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 717231006801 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 717231006802 Peptidase family M48; Region: Peptidase_M48; pfam01435 717231006803 prolyl-tRNA synthetase; Provisional; Region: PRK09194 717231006804 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 717231006805 dimer interface [polypeptide binding]; other site 717231006806 motif 1; other site 717231006807 active site 717231006808 motif 2; other site 717231006809 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 717231006810 putative deacylase active site [active] 717231006811 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 717231006812 active site 717231006813 motif 3; other site 717231006814 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 717231006815 anticodon binding site; other site 717231006816 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231006817 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 717231006818 FeS/SAM binding site; other site 717231006819 Predicted permeases [General function prediction only]; Region: COG0679 717231006820 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 717231006821 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 717231006822 Walker A motif; other site 717231006823 ATP binding site [chemical binding]; other site 717231006824 Walker B motif; other site 717231006825 arginine finger; other site 717231006826 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 717231006827 DNA repair protein RadA; Provisional; Region: PRK11823 717231006828 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 717231006829 Walker A motif; other site 717231006830 ATP binding site [chemical binding]; other site 717231006831 Walker B motif; other site 717231006832 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 717231006833 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 717231006834 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 717231006835 NAD binding site [chemical binding]; other site 717231006836 homotetramer interface [polypeptide binding]; other site 717231006837 homodimer interface [polypeptide binding]; other site 717231006838 substrate binding site [chemical binding]; other site 717231006839 active site 717231006840 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 717231006841 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 717231006842 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 717231006843 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 717231006844 binding surface 717231006845 TPR motif; other site 717231006846 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 717231006847 Ferritin-like domain; Region: Ferritin; pfam00210 717231006848 ferroxidase diiron center [ion binding]; other site 717231006849 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231006850 CcmB protein; Region: CcmB; cl17444 717231006851 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231006852 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 717231006853 Walker A/P-loop; other site 717231006854 ATP binding site [chemical binding]; other site 717231006855 Q-loop/lid; other site 717231006856 ABC transporter signature motif; other site 717231006857 Walker B; other site 717231006858 D-loop; other site 717231006859 H-loop/switch region; other site 717231006860 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 717231006861 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 717231006862 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 717231006863 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 717231006864 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 717231006865 RNA binding surface [nucleotide binding]; other site 717231006866 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 717231006867 dimer interface [polypeptide binding]; other site 717231006868 substrate binding site [chemical binding]; other site 717231006869 ATP binding site [chemical binding]; other site 717231006870 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 717231006871 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 717231006872 active site 717231006873 PHP Thumb interface [polypeptide binding]; other site 717231006874 metal binding site [ion binding]; metal-binding site 717231006875 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 717231006876 generic binding surface II; other site 717231006877 generic binding surface I; other site 717231006878 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 717231006879 Walker A motif; other site 717231006880 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 717231006881 Competence protein; Region: Competence; pfam03772 717231006882 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 717231006883 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 717231006884 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 717231006885 ATP binding site [chemical binding]; other site 717231006886 substrate interface [chemical binding]; other site 717231006887 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 717231006888 thiS-thiF/thiG interaction site; other site 717231006889 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 717231006890 DHH family; Region: DHH; pfam01368 717231006891 DHHA1 domain; Region: DHHA1; pfam02272 717231006892 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 717231006893 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231006894 Zn2+ binding site [ion binding]; other site 717231006895 Mg2+ binding site [ion binding]; other site 717231006896 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 717231006897 synthetase active site [active] 717231006898 NTP binding site [chemical binding]; other site 717231006899 metal binding site [ion binding]; metal-binding site 717231006900 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 717231006901 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 717231006902 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 717231006903 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 717231006904 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 717231006905 S-adenosylmethionine binding site [chemical binding]; other site 717231006906 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 717231006907 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 717231006908 active site residues [active] 717231006909 dimer interface [polypeptide binding]; other site 717231006910 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 717231006911 Protein of unknown function (DUF493); Region: DUF493; pfam04359 717231006912 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 717231006913 Ligand Binding Site [chemical binding]; other site 717231006914 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 717231006915 DctM-like transporters; Region: DctM; pfam06808 717231006916 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 717231006917 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 717231006918 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 717231006919 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 717231006920 GIY-YIG motif/motif A; other site 717231006921 active site 717231006922 catalytic site [active] 717231006923 putative DNA binding site [nucleotide binding]; other site 717231006924 metal binding site [ion binding]; metal-binding site 717231006925 UvrB/uvrC motif; Region: UVR; pfam02151 717231006926 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 717231006927 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 717231006928 rare lipoprotein A; Region: rlpA; TIGR00413 717231006929 Sporulation related domain; Region: SPOR; pfam05036 717231006930 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 717231006931 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 717231006932 active site residue [active] 717231006933 Transcriptional regulator [Transcription]; Region: LysR; COG0583 717231006934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 717231006935 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 717231006936 putative dimerization interface [polypeptide binding]; other site 717231006937 multifunctional aminopeptidase A; Provisional; Region: PRK00913 717231006938 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 717231006939 interface (dimer of trimers) [polypeptide binding]; other site 717231006940 Substrate-binding/catalytic site; other site 717231006941 Zn-binding sites [ion binding]; other site 717231006942 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 717231006943 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 717231006944 putative active site pocket [active] 717231006945 dimerization interface [polypeptide binding]; other site 717231006946 putative catalytic residue [active] 717231006947 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006948 Transposase domain (DUF772); Region: DUF772; pfam05598 717231006949 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 717231006950 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006951 hypothetical protein; Reviewed; Region: PRK12497 717231006952 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 717231006953 RNA/DNA hybrid binding site [nucleotide binding]; other site 717231006954 active site 717231006955 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 717231006956 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 717231006957 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 717231006958 GAF domain; Region: GAF_2; pfam13185 717231006959 GAF domain; Region: GAF; pfam01590 717231006960 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 717231006961 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 717231006962 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 717231006963 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 717231006964 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 717231006965 domain_subunit interface; other site 717231006966 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 717231006967 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 717231006968 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 717231006969 NAD(P) binding site [chemical binding]; other site 717231006970 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 717231006971 4Fe-4S binding domain; Region: Fer4; pfam00037 717231006972 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 717231006973 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231006974 4Fe-4S binding domain; Region: Fer4; pfam00037 717231006975 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 717231006976 active site 717231006977 FMN binding site [chemical binding]; other site 717231006978 substrate binding site [chemical binding]; other site 717231006979 3Fe-4S cluster binding site [ion binding]; other site 717231006980 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 717231006981 active site 717231006982 aspartate aminotransferase; Provisional; Region: PRK05764 717231006983 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 717231006984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006985 homodimer interface [polypeptide binding]; other site 717231006986 catalytic residue [active] 717231006987 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 717231006988 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 717231006989 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 717231006990 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 717231006991 GTP1/OBG; Region: GTP1_OBG; pfam01018 717231006992 Obg GTPase; Region: Obg; cd01898 717231006993 G1 box; other site 717231006994 GTP/Mg2+ binding site [chemical binding]; other site 717231006995 Switch I region; other site 717231006996 G2 box; other site 717231006997 G3 box; other site 717231006998 Switch II region; other site 717231006999 G4 box; other site 717231007000 G5 box; other site 717231007001 Protein of unknown function (DUF721); Region: DUF721; pfam05258 717231007002 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 717231007003 active site 717231007004 catalytic residues [active] 717231007005 metal binding site [ion binding]; metal-binding site 717231007006 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 717231007007 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 717231007008 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 717231007009 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 717231007010 RNA binding site [nucleotide binding]; other site 717231007011 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231007012 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 717231007013 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 717231007014 putative active site [active] 717231007015 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231007016 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 717231007017 putative active site [active] 717231007018 Uncharacterized conserved protein [Function unknown]; Region: COG1434 717231007019 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 717231007020 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 717231007021 putative active site [active] 717231007022 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231007023 COGs: COG0739 Membrane protein related to metalloendopeptidase; InterPro IPR016047; KEGG: ddf:DEFDS_0202 peptidase M23/M37 family; PFAM: Peptidase M23; SPTR: Peptidase, M23/M37 family 717231007024 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 717231007025 Peptidase family M23; Region: Peptidase_M23; pfam01551 717231007026 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 717231007027 heterotetramer interface [polypeptide binding]; other site 717231007028 active site pocket [active] 717231007029 cleavage site 717231007030 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 717231007031 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 717231007032 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 717231007033 metal binding site [ion binding]; metal-binding site 717231007034 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 717231007035 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 717231007036 substrate binding site [chemical binding]; other site 717231007037 glutamase interaction surface [polypeptide binding]; other site 717231007038 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 717231007039 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 717231007040 putative substrate translocation pore; other site 717231007041 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 717231007042 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 717231007043 HlyD family secretion protein; Region: HlyD_3; pfam13437 717231007044 Outer membrane efflux protein; Region: OEP; pfam02321 717231007045 Outer membrane efflux protein; Region: OEP; pfam02321 717231007046 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 717231007047 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 717231007048 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 717231007049 Family description; Region: UvrD_C_2; pfam13538 717231007050 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 717231007051 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 717231007052 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 717231007053 ATP binding site [chemical binding]; other site 717231007054 putative Mg++ binding site [ion binding]; other site 717231007055 Family description; Region: UvrD_C_2; pfam13538 717231007056 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 717231007057 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231007058 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 717231007059 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231007060 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 717231007061 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 717231007062 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 717231007063 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 717231007064 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 717231007065 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12504 717231007066 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 717231007067 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 717231007068 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 717231007069 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 717231007070 putative MPT binding site; other site 717231007071 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 717231007072 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 717231007073 Walker A/P-loop; other site 717231007074 ATP binding site [chemical binding]; other site 717231007075 Q-loop/lid; other site 717231007076 ABC transporter signature motif; other site 717231007077 Walker B; other site 717231007078 D-loop; other site 717231007079 H-loop/switch region; other site 717231007080 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 717231007081 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 717231007082 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 717231007083 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 717231007084 dimer interface [polypeptide binding]; other site 717231007085 conserved gate region; other site 717231007086 putative PBP binding loops; other site 717231007087 ABC-ATPase subunit interface; other site 717231007088 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 717231007089 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 717231007090 dimer interface [polypeptide binding]; other site 717231007091 putative functional site; other site 717231007092 putative MPT binding site; other site 717231007093 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 717231007094 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 717231007095 FeS/SAM binding site; other site 717231007096 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 717231007097 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 717231007098 5S rRNA interface [nucleotide binding]; other site 717231007099 CTC domain interface [polypeptide binding]; other site 717231007100 L16 interface [polypeptide binding]; other site 717231007101 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231007102 Transposase domain (DUF772); Region: DUF772; pfam05598 717231007103 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231007104 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231007105 DsrE/DsrF-like family; Region: DrsE; pfam02635 717231007106 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 717231007107 aspartate racemase; Region: asp_race; TIGR00035 717231007108 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 717231007109 putative deacylase active site [active] 717231007110 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 717231007111 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 717231007112 motif II; other site 717231007113 COGs: COG0686 Alanine dehydrogenase; InterPro IPR008141:IPR007886:IPR007698; KEGG: ant:Arnit_0574 alanine dehydrogenase; PFAM: Alanine dehydrogenase/PNT, C-terminal; Alanine dehydrogenase/PNT, N-terminal; PRIAM: Alanine dehydrogenase; SPTR: Alanine dehydrogenase; TIGRFAM: Alanine dehydrogenase/pyridine nucleotide transhydrogenase 717231007114 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 717231007115 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 717231007116 hexamer interface [polypeptide binding]; other site 717231007117 ligand binding site [chemical binding]; other site 717231007118 putative active site [active] 717231007119 NAD(P) binding site [chemical binding]; other site 717231007120 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 717231007121 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 717231007122 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 717231007123 Radical SAM superfamily; Region: Radical_SAM; pfam04055 717231007124 FeS/SAM binding site; other site 717231007125 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 717231007126 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 717231007127 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 717231007128 homodimer interface [polypeptide binding]; other site 717231007129 NAD binding pocket [chemical binding]; other site 717231007130 ATP binding pocket [chemical binding]; other site 717231007131 Mg binding site [ion binding]; other site 717231007132 active-site loop [active] 717231007133 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231007134 active site 717231007135 nucleophile elbow; other site 717231007136 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 717231007137 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 717231007138 putative active site [active] 717231007139 putative NTP binding site [chemical binding]; other site 717231007140 putative nucleic acid binding site [nucleotide binding]; other site 717231007141 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 717231007142 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231007143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231007144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231007145 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231007146 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 717231007147 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 717231007148 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 717231007149 putative [4Fe-4S] binding site [ion binding]; other site 717231007150 putative molybdopterin cofactor binding site [chemical binding]; other site 717231007151 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; cd02775 717231007152 molybdopterin cofactor binding site; other site 717231007153 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 717231007154 COGs: COG4584 Transposase and inactivated derivatives; KEGG: toc:Toce_1959 integrase catalytic region; SPTR: Integrase catalytic region 717231007155 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231007156 Integrase core domain; Region: rve; pfam00665 717231007157 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 717231007158 Walker A motif; other site 717231007159 ATP binding site [chemical binding]; other site 717231007160 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231007161 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Probable transposase 717231007162 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231007163 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231007164 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 717231007165 Predicted permease; Region: DUF318; cl17795 717231007166 COGs: COG0394 Protein-tyrosine-phosphatase; InterPro IPR017867; KEGG: ddf:DEFDS_1452 arsenate reductase (glutaredoxin); PFAM: Protein-tyrosine phosphatase, low molecular weight; SMART: Protein-tyrosine phosphatase, low molecular weight; SPTR: Arsenate reductase (Glutaredoxin) 717231007167 Low molecular weight phosphatase family; Region: LMWPc; cd00115 717231007168 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 717231007169 active site 717231007170 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 717231007171 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 717231007172 Moco binding site; other site 717231007173 metal coordination site [ion binding]; other site 717231007174 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231007175 Coenzyme A binding pocket [chemical binding]; other site 717231007176 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 717231007177 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 717231007178 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231007179 DNA-binding site [nucleotide binding]; DNA binding site 717231007180 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 717231007181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231007182 homodimer interface [polypeptide binding]; other site 717231007183 catalytic residue [active] 717231007184 KEGG: aeh:Mlg_0129 transposase, IS4 family protein; SPTR: Transposase 717231007185 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231007186 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 717231007187 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 717231007188 substrate binding site [chemical binding]; other site 717231007189 oxyanion hole (OAH) forming residues; other site 717231007190 trimer interface [polypeptide binding]; other site 717231007191 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 717231007192 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 717231007193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231007194 homodimer interface [polypeptide binding]; other site 717231007195 catalytic residue [active] 717231007196 DinB family; Region: DinB; cl17821 717231007197 EamA-like transporter family; Region: EamA; pfam00892 717231007198 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231007199 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 717231007200 PAS domain S-box; Region: sensory_box; TIGR00229 717231007201 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 717231007202 putative active site [active] 717231007203 heme pocket [chemical binding]; other site 717231007204 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 717231007205 PAS fold; Region: PAS_3; pfam08447 717231007206 putative active site [active] 717231007207 heme pocket [chemical binding]; other site 717231007208 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231007209 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 717231007210 dimer interface [polypeptide binding]; other site 717231007211 phosphorylation site [posttranslational modification] 717231007212 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 717231007213 ATP binding site [chemical binding]; other site 717231007214 Mg2+ binding site [ion binding]; other site 717231007215 G-X-G motif; other site 717231007216 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231007217 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 717231007218 O-Antigen ligase; Region: Wzy_C; pfam04932 717231007219 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 717231007220 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 717231007221 substrate binding site [chemical binding]; other site 717231007222 hexamer interface [polypeptide binding]; other site 717231007223 metal binding site [ion binding]; metal-binding site 717231007224 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 717231007225 KEGG: ddf:DEFDS_1440 hypothetical protein; SPTR: Putative uncharacterized protein 717231007226 Progressive ankylosis protein (ANKH); Region: ANKH; pfam07260 717231007227 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 717231007228 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 717231007229 substrate binding pocket [chemical binding]; other site 717231007230 membrane-bound complex binding site; other site 717231007231 hinge residues; other site 717231007232 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 717231007233 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231007234 catalytic residue [active] 717231007235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231007236 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231007237 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231007238 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 717231007239 ABC1 family; Region: ABC1; cl17513 717231007240 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 717231007241 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 717231007242 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 717231007243 Bacitracin resistance protein BacA; Region: BacA; pfam02673 717231007244 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 717231007245 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 717231007246 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231007247 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 717231007248 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 717231007249 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 717231007250 phosphate binding site [ion binding]; other site 717231007251 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 717231007252 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 717231007253 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 717231007254 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 717231007255 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 717231007256 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 717231007257 AMIN domain; Region: AMIN; pfam11741 717231007258 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 717231007259 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 717231007260 active site 717231007261 metal binding site [ion binding]; metal-binding site 717231007262 Family of unknown function (DUF490); Region: DUF490; pfam04357 717231007263 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 717231007264 Surface antigen; Region: Bac_surface_Ag; pfam01103 717231007265 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 717231007266 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 717231007267 dimer interface [polypeptide binding]; other site 717231007268 decamer (pentamer of dimers) interface [polypeptide binding]; other site 717231007269 catalytic triad [active] 717231007270 peroxidatic and resolving cysteines [active] 717231007271 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 717231007272 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 717231007273 active site 717231007274 acyl-activating enzyme (AAE) consensus motif; other site 717231007275 putative CoA binding site [chemical binding]; other site 717231007276 AMP binding site [chemical binding]; other site 717231007277 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 717231007278 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 717231007279 substrate binding site [chemical binding]; other site 717231007280 oxyanion hole (OAH) forming residues; other site 717231007281 trimer interface [polypeptide binding]; other site 717231007282 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 717231007283 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 717231007284 substrate binding site [chemical binding]; other site 717231007285 oxyanion hole (OAH) forming residues; other site 717231007286 trimer interface [polypeptide binding]; other site 717231007287 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 717231007288 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 717231007289 domain interfaces; other site 717231007290 active site 717231007291 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 717231007292 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 717231007293 active site 717231007294 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231007295 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 717231007296 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 717231007297 COGs: COG3039 Transposase and inactivated derivatives IS5 family; InterPro IPR002559; KEGG: ddf:DEFDS_0280 transposase IS4 family; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231007298 Transposase domain (DUF772); Region: DUF772; pfam05598 717231007299 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231007300 DDE superfamily endonuclease; Region: DDE_4; cl17710 717231007301 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 717231007302 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 717231007303 oligomer interface [polypeptide binding]; other site 717231007304 metal binding site [ion binding]; metal-binding site 717231007305 metal binding site [ion binding]; metal-binding site 717231007306 Cl binding site [ion binding]; other site 717231007307 aspartate ring; other site 717231007308 basic sphincter; other site 717231007309 putative hydrophobic gate; other site 717231007310 periplasmic entrance; other site 717231007311 COGs: COG0043 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylase; InterPro IPR002830; KEGG: ddf:DEFDS_1642 3-octaprenyl-4-hydroxybenzoate carboxy-lyase UbiD; PFAM: Carboxylyase-related; SPTR: 3-octaprenyl-4-hydroxybenzoate carboxy-lyase UbiD; TIGRFAM: menaquinone biosynthesis decarboxylase, SCO4490 family; Carboxylyase-related 717231007312 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 717231007313 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 717231007314 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 717231007315 S-adenosylmethionine binding site [chemical binding]; other site 717231007316 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 717231007317 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 717231007318 motif II; other site 717231007319 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 717231007320 HIT family signature motif; other site 717231007321 catalytic residue [active] 717231007322 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 717231007323 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 717231007324 ring oligomerisation interface [polypeptide binding]; other site 717231007325 ATP/Mg binding site [chemical binding]; other site 717231007326 stacking interactions; other site 717231007327 hinge regions; other site 717231007328 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 717231007329 oligomerisation interface [polypeptide binding]; other site 717231007330 mobile loop; other site 717231007331 roof hairpin; other site 717231007332 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 717231007333 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 717231007334 substrate binding site [chemical binding]; other site 717231007335 ligand binding site [chemical binding]; other site 717231007336 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 717231007337 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 717231007338 hypothetical protein; Provisional; Region: PRK14812 717231007339 substrate binding site [chemical binding]; other site 717231007340 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 717231007341 DctM-like transporters; Region: DctM; pfam06808 717231007342 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 717231007343 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 717231007344 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231007345 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231007346 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231007347 active site 717231007348 phosphorylation site [posttranslational modification] 717231007349 intermolecular recognition site; other site 717231007350 dimerization interface [polypeptide binding]; other site 717231007351 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 717231007352 Walker A motif; other site 717231007353 ATP binding site [chemical binding]; other site 717231007354 Walker B motif; other site 717231007355 arginine finger; other site 717231007356 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 717231007357 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 717231007358 dimerization interface [polypeptide binding]; other site 717231007359 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 717231007360 dimer interface [polypeptide binding]; other site 717231007361 phosphorylation site [posttranslational modification] 717231007362 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 717231007363 ATP binding site [chemical binding]; other site 717231007364 Mg2+ binding site [ion binding]; other site 717231007365 G-X-G motif; other site 717231007366 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 717231007367 Na binding site [ion binding]; other site 717231007368 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 717231007369 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 717231007370 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 717231007371 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 717231007372 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 717231007373 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231007374 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 717231007375 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 717231007376 HSP70 interaction site [polypeptide binding]; other site 717231007377 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 717231007378 substrate binding site [polypeptide binding]; other site 717231007379 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 717231007380 Zn binding sites [ion binding]; other site 717231007381 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 717231007382 dimer interface [polypeptide binding]; other site 717231007383 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 717231007384 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 717231007385 nucleotide binding site [chemical binding]; other site 717231007386 NEF interaction site [polypeptide binding]; other site 717231007387 SBD interface [polypeptide binding]; other site 717231007388 GrpE; Region: GrpE; pfam01025 717231007389 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 717231007390 dimer interface [polypeptide binding]; other site 717231007391 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 717231007392 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 717231007393 Protein of unknown function DUF72; Region: DUF72; cl00777