-- dump date 20120504_144624 -- 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 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231000018 Walker A/P-loop; other site 717231000019 ATP binding site [chemical binding]; other site 717231000020 Q-loop/lid; other site 717231000021 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 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 in DNA...; 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 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 717231000048 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14190 717231000049 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 717231000050 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 717231000051 homodimer interface [polypeptide binding]; other site 717231000052 NADP binding site [chemical binding]; other site 717231000053 substrate binding site [chemical binding]; other site 717231000054 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 717231000055 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 717231000056 trmE is a tRNA modification GTPase; Region: trmE; cd04164 717231000057 G1 box; other site 717231000058 GTP/Mg2+ binding site [chemical binding]; other site 717231000059 Switch I region; other site 717231000060 G2 box; other site 717231000061 Switch II region; other site 717231000062 G3 box; other site 717231000063 G4 box; other site 717231000064 G5 box; other site 717231000065 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 717231000066 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 717231000067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000068 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 717231000069 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 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 4Fe-4S binding domain; Region: Fer4; cl02805 717231000073 4Fe-4S binding domain; Region: Fer4; cl02805 717231000074 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 717231000075 putative FMN binding site [chemical binding]; other site 717231000076 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231000077 Helix-turn-helix domains; Region: HTH; cl00088 717231000078 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231000079 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 717231000080 RIP metalloprotease RseP; Region: TIGR00054 717231000081 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 717231000082 active site 717231000083 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 717231000084 protein binding site [polypeptide binding]; other site 717231000085 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 717231000086 putative substrate binding region [chemical binding]; other site 717231000087 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 717231000088 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 717231000089 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 717231000090 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 717231000091 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 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 round of...; 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 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000125 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 717231000126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 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; cl01316 717231000135 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 717231000136 4Fe-4S binding domain; Region: Fer4; cl02805 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 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 717231000145 TPP-binding site [chemical binding]; other site 717231000146 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231000147 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231000148 Acylphosphatase; Region: Acylphosphatase; cl00551 717231000149 ThiC family; Region: ThiC; cl08031 717231000150 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 717231000151 thiamine phosphate binding site [chemical binding]; other site 717231000152 active site 717231000153 pyrophosphate binding site [ion binding]; other site 717231000154 thiamine monophosphate kinase; Provisional; Region: PRK05731 717231000155 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 717231000156 ATP binding site [chemical binding]; other site 717231000157 dimerization interface [polypeptide binding]; other site 717231000158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231000159 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 717231000160 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 717231000161 glycogen binding site [chemical binding]; other site 717231000162 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231000163 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231000164 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 717231000165 DNA binding residues [nucleotide binding] 717231000166 EamA-like transporter family; Region: EamA; cl01037 717231000167 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000168 pyruvate phosphate dikinase; Provisional; Region: PRK09279 717231000169 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 717231000170 ATP synthase subunit C; Region: ATP-synt_C; cl00466 717231000171 Plant ATP synthase F0; Region: YMF19; cl07975 717231000172 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 717231000173 ATP synthase archaeal, A subunit; Region: ATP_syn_A_arch; TIGR01043 717231000174 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 717231000175 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 717231000176 Walker A motif/ATP binding site; other site 717231000177 Walker B motif; other site 717231000178 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231000179 V-type ATP synthase subunit B; Provisional; Region: PRK04196 717231000180 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 717231000181 Walker A motif homologous position; other site 717231000182 Walker B motif; other site 717231000183 ATP synthase subunit D; Region: ATP-synt_D; cl00613 717231000184 Domain of unknown function (DUF3524); Region: DUF3524; pfam12038 717231000185 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 717231000186 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 717231000187 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231000188 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231000189 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231000190 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231000191 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231000192 Transposase domain (DUF772); Region: DUF772; cl15789 717231000193 Transposase domain (DUF772); Region: DUF772; cl15789 717231000194 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 717231000195 NMT1-like family; Region: NMT1_2; cl15260 717231000196 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 717231000197 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 717231000198 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 717231000199 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000200 metal binding triad; other site 717231000201 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000202 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000203 metal binding triad; other site 717231000204 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000205 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 717231000206 thiamine phosphate binding site [chemical binding]; other site 717231000207 active site 717231000208 pyrophosphate binding site [ion binding]; other site 717231000209 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231000210 Helix-turn-helix domains; Region: HTH; cl00088 717231000211 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231000212 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 717231000213 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 717231000214 G1 box; other site 717231000215 GTP/Mg2+ binding site [chemical binding]; other site 717231000216 Switch I region; other site 717231000217 G2 box; other site 717231000218 G3 box; other site 717231000219 Switch II region; other site 717231000220 G4 box; other site 717231000221 G5 box; other site 717231000222 Nucleoside recognition; Region: Gate; cl00486 717231000223 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 717231000224 Nucleoside recognition; Region: Gate; cl00486 717231000225 FeoA domain; Region: FeoA; cl00838 717231000226 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 717231000227 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 717231000228 ATP binding site [chemical binding]; other site 717231000229 active site 717231000230 substrate binding site [chemical binding]; other site 717231000231 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 717231000232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231000233 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231000234 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 717231000235 active site residue [active] 717231000236 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231000237 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 717231000238 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 717231000239 FeS/SAM binding site; other site 717231000240 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231000241 [Protein-PII] uridylyltransferase; Region: UTase_glnD; TIGR01693 717231000242 metal binding triad; other site 717231000243 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 717231000244 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231000245 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231000246 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 717231000247 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 717231000248 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 717231000249 Protein export membrane protein; Region: SecD_SecF; cl14618 717231000250 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 717231000251 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 717231000252 Protein export membrane protein; Region: SecD_SecF; cl14618 717231000253 Preprotein translocase subunit; Region: YajC; cl00806 717231000254 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 717231000255 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 717231000256 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 717231000257 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 717231000258 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 717231000259 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 717231000260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000261 catalytic residue [active] 717231000262 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 717231000263 active site 717231000264 multimer interface [polypeptide binding]; other site 717231000265 Cupin domain; Region: Cupin_2; cl09118 717231000266 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 717231000267 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 717231000268 homotrimer interaction site [polypeptide binding]; other site 717231000269 zinc binding site [ion binding]; other site 717231000270 CDP-binding sites; other site 717231000271 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 717231000272 pyruvate phosphate dikinase; Provisional; Region: PRK09279 717231000273 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231000274 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231000275 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 717231000276 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 717231000277 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 717231000278 dimer interface [polypeptide binding]; other site 717231000279 phosphorylation site [posttranslational modification] 717231000280 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 717231000281 ATP binding site [chemical binding]; other site 717231000282 Mg2+ binding site [ion binding]; other site 717231000283 G-X-G motif; other site 717231000284 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000286 active site 717231000287 phosphorylation site [posttranslational modification] 717231000288 intermolecular recognition site; other site 717231000289 dimerization interface [polypeptide binding]; other site 717231000290 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231000291 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 717231000292 S-adenosylmethionine binding site [chemical binding]; other site 717231000293 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 717231000294 feedback inhibition sensing region; other site 717231000295 homohexameric interface [polypeptide binding]; other site 717231000296 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 717231000297 nucleotide binding site [chemical binding]; other site 717231000298 N-acetyl-L-glutamate binding site [chemical binding]; other site 717231000299 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 717231000300 Ligand Binding Site [chemical binding]; other site 717231000301 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 717231000302 Ligand Binding Site [chemical binding]; other site 717231000303 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000305 active site 717231000306 phosphorylation site [posttranslational modification] 717231000307 intermolecular recognition site; other site 717231000308 dimerization interface [polypeptide binding]; other site 717231000309 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 717231000310 active site 717231000311 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 717231000312 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 717231000313 active site 717231000314 HIGH motif; other site 717231000315 KMSKS motif; other site 717231000316 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 717231000317 tRNA binding surface [nucleotide binding]; other site 717231000318 anticodon binding site; other site 717231000319 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 717231000320 dimer interface [polypeptide binding]; other site 717231000321 putative tRNA-binding site [nucleotide binding]; other site 717231000322 PSP1 C-terminal conserved region; Region: PSP1; cl00770 717231000323 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 717231000324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231000325 thymidylate kinase; Validated; Region: tmk; PRK00698 717231000326 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 717231000327 TMP-binding site; other site 717231000328 ATP-binding site [chemical binding]; other site 717231000329 MOSC domain; Region: MOSC; pfam03473 717231000330 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 717231000331 MPT binding site; other site 717231000332 trimer interface [polypeptide binding]; other site 717231000333 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 717231000334 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 717231000335 active site 717231000336 substrate binding site [chemical binding]; other site 717231000337 cosubstrate binding site; other site 717231000338 catalytic site [active] 717231000339 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 717231000340 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 717231000341 dimerization interface [polypeptide binding]; other site 717231000342 putative ATP binding site [chemical binding]; other site 717231000343 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000344 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000345 active site 717231000346 phosphorylation site [posttranslational modification] 717231000347 intermolecular recognition site; other site 717231000348 dimerization interface [polypeptide binding]; other site 717231000349 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 717231000350 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 717231000351 putative binding surface; other site 717231000352 active site 717231000353 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 717231000354 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 717231000355 ATP binding site [chemical binding]; other site 717231000356 Mg2+ binding site [ion binding]; other site 717231000357 G-X-G motif; 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 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000360 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000361 active site 717231000362 phosphorylation site [posttranslational modification] 717231000363 intermolecular recognition site; other site 717231000364 dimerization interface [polypeptide binding]; other site 717231000365 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 717231000366 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 717231000367 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 717231000368 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 717231000369 dimer interface [polypeptide binding]; other site 717231000370 putative CheW interface [polypeptide binding]; other site 717231000371 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 717231000372 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000373 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000374 active site 717231000375 phosphorylation site [posttranslational modification] 717231000376 intermolecular recognition site; other site 717231000377 dimerization interface [polypeptide binding]; other site 717231000378 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000379 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000380 active site 717231000381 phosphorylation site [posttranslational modification] 717231000382 intermolecular recognition site; other site 717231000383 dimerization interface [polypeptide binding]; other site 717231000384 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 717231000385 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 717231000386 active site 717231000387 (T/H)XGH motif; other site 717231000388 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 717231000389 S-adenosylmethionine binding site [chemical binding]; other site 717231000390 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 717231000391 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231000392 FeS/SAM binding site; other site 717231000393 ribonuclease III; Reviewed; Region: rnc; PRK00102 717231000394 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 717231000395 dimerization interface [polypeptide binding]; other site 717231000396 active site 717231000397 metal binding site [ion binding]; metal-binding site 717231000398 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 717231000399 dsRNA binding site [nucleotide binding]; other site 717231000400 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 717231000401 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 717231000402 dimer interface [polypeptide binding]; other site 717231000403 active site 717231000404 Phosphopantetheine attachment site; Region: PP-binding; cl09936 717231000405 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 717231000406 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 717231000407 NAD(P) binding site [chemical binding]; other site 717231000408 homotetramer interface [polypeptide binding]; other site 717231000409 homodimer interface [polypeptide binding]; other site 717231000410 active site 717231000411 Acyl transferase domain; Region: Acyl_transf_1; cl08282 717231000412 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 717231000413 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 717231000414 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 717231000415 dimer interface [polypeptide binding]; other site 717231000416 active site 717231000417 CoA binding pocket [chemical binding]; other site 717231000418 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 717231000419 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 717231000420 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 717231000421 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 717231000422 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 717231000423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000424 homodimer interface [polypeptide binding]; other site 717231000425 catalytic residue [active] 717231000426 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 717231000427 putative hydrophobic ligand binding site [chemical binding]; other site 717231000428 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 717231000429 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 717231000430 Substrate binding site; other site 717231000431 Mg++ binding site; other site 717231000432 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 717231000433 active site 717231000434 substrate binding site [chemical binding]; other site 717231000435 CoA binding site [chemical binding]; other site 717231000436 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 717231000437 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 717231000438 glutaminase active site [active] 717231000439 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 717231000440 dimer interface [polypeptide binding]; other site 717231000441 active site 717231000442 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 717231000443 dimer interface [polypeptide binding]; other site 717231000444 active site 717231000445 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 717231000446 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 717231000447 Cl- selectivity filter; other site 717231000448 Cl- binding residues [ion binding]; other site 717231000449 pore gating glutamate residue; other site 717231000450 dimer interface [polypeptide binding]; other site 717231000451 FOG: CBS domain [General function prediction only]; Region: COG0517 717231000452 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 717231000453 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 717231000454 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231000455 Family description; Region: UvrD_C_2; cl15862 717231000456 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 717231000457 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 717231000458 Amidase; Region: Amidase; cl11426 717231000459 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 717231000460 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 717231000461 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 717231000462 GatB domain; Region: GatB_Yqey; cl11497 717231000463 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 717231000464 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 717231000465 dimer interface [polypeptide binding]; other site 717231000466 substrate binding site [chemical binding]; other site 717231000467 metal binding site [ion binding]; metal-binding site 717231000468 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 717231000469 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 717231000470 active site residue [active] 717231000471 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 717231000472 active site residue [active] 717231000473 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 717231000474 active site residue [active] 717231000475 NMT1-like family; Region: NMT1_2; cl15260 717231000476 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000477 KEGG: mtt:Ftrac_2057 hypothetical protein; SPTR: Putative uncharacterized protein 717231000478 peptide chain release factor 1; Provisional; Region: PRK04011 717231000479 COGs: COG5421 Transposase; KEGG: msv:Mesil_3173 transposase IS4 family protein; SPTR: Transposase IS4 family protein 717231000480 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000481 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000482 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 717231000483 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 717231000484 Transposase domain (DUF772); Region: DUF772; cl15789 717231000485 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231000486 Transposase domain (DUF772); Region: DUF772; cl15789 717231000487 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231000488 Protein export membrane protein; Region: SecD_SecF; cl14618 717231000489 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231000490 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231000491 Outer membrane efflux protein; Region: OEP; pfam02321 717231000492 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231000493 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 717231000494 Helix-turn-helix domains; Region: HTH; cl00088 717231000495 Cupin domain; Region: Cupin_2; cl09118 717231000496 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 717231000497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231000499 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000500 EamA-like transporter family; Region: EamA; cl01037 717231000501 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000502 EamA-like transporter family; Region: EamA; cl01037 717231000503 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; cd02062 717231000504 FMN binding site [chemical binding]; other site 717231000505 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231000506 Protein of unknown function, DUF488; Region: DUF488; cl01246 717231000507 trigger factor; Provisional; Region: tig; PRK01490 717231000508 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 717231000509 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 717231000510 Clp protease; Region: CLP_protease; pfam00574 717231000511 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 717231000512 oligomer interface [polypeptide binding]; other site 717231000513 active site residues [active] 717231000514 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 717231000515 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 717231000516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231000517 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 717231000518 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 717231000519 Found in ATP-dependent protease La (LON); Region: LON; smart00464 717231000520 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 717231000521 Walker A motif; other site 717231000522 ATP binding site [chemical binding]; other site 717231000523 Walker B motif; other site 717231000524 arginine finger; other site 717231000525 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 717231000526 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 717231000527 Protein of unknown function DUF111; Region: DUF111; cl03398 717231000528 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 717231000529 putative ADP-ribose binding site [chemical binding]; other site 717231000530 putative active site [active] 717231000531 NMT1-like family; Region: NMT1_2; cl15260 717231000532 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 717231000533 Adenosylhomocysteinase; Provisional; Region: PTZ00075 717231000534 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 717231000535 oligomerization interface [polypeptide binding]; other site 717231000536 active site 717231000537 NAD+ binding site [chemical binding]; other site 717231000538 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 717231000539 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 717231000540 active site 717231000541 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231000542 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231000543 KEGG: dap:Dacet_2898 hypothetical protein; SPTR: Putative uncharacterized protein 717231000544 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 717231000545 NeuB family; Region: NeuB; cl00496 717231000546 hybrid cluster protein; Provisional; Region: PRK05290 717231000547 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 717231000548 ACS interaction site; other site 717231000549 CODH interaction site; other site 717231000550 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 717231000551 hybrid metal cluster; other site 717231000552 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 717231000553 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 717231000554 ligand binding site [chemical binding]; other site 717231000555 flexible hinge region; other site 717231000556 Helix-turn-helix domains; Region: HTH; cl00088 717231000557 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 717231000558 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 717231000559 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 717231000560 intersubunit interface [polypeptide binding]; other site 717231000561 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 717231000562 ABC-ATPase subunit interface; other site 717231000563 dimer interface [polypeptide binding]; other site 717231000564 putative PBP binding regions; other site 717231000565 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 717231000566 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 717231000567 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 717231000568 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 717231000569 N-terminal plug; other site 717231000570 ligand-binding site [chemical binding]; other site 717231000571 Gram-negative bacterial tonB protein; Region: TonB; cl10048 717231000572 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 717231000573 CcmE; Region: CcmE; cl00994 717231000574 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231000575 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 717231000576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000577 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 717231000578 DNA binding site [nucleotide binding] 717231000579 active site 717231000580 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 717231000581 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 717231000582 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 717231000583 S-adenosylmethionine binding site [chemical binding]; other site 717231000584 Peptidase family M48; Region: Peptidase_M48; cl12018 717231000585 Protein of unknown function DUF116; Region: DUF116; cl00800 717231000586 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 717231000587 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 717231000588 putative active site [active] 717231000589 substrate binding site [chemical binding]; other site 717231000590 putative cosubstrate binding site; other site 717231000591 catalytic site [active] 717231000592 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 717231000593 substrate binding site [chemical binding]; other site 717231000594 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 717231000595 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 717231000596 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231000597 homodimer interface [polypeptide binding]; other site 717231000598 catalytic residue [active] 717231000599 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 717231000600 Cation efflux family; Region: Cation_efflux; cl00316 717231000601 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 717231000602 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 717231000603 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 717231000604 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 717231000605 dimer interface [polypeptide binding]; other site 717231000606 ssDNA binding site [nucleotide binding]; other site 717231000607 tetramer (dimer of dimers) interface [polypeptide binding]; other site 717231000608 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 717231000609 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231000610 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 717231000611 RNA binding surface [nucleotide binding]; other site 717231000612 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 717231000613 active site 717231000614 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 717231000615 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 717231000616 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 717231000617 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 717231000618 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 717231000619 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 717231000620 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 717231000621 putative dimer interface [polypeptide binding]; other site 717231000622 [2Fe-2S] cluster binding site [ion binding]; other site 717231000623 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 717231000624 dimer interface [polypeptide binding]; other site 717231000625 [2Fe-2S] cluster binding site [ion binding]; other site 717231000626 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 717231000627 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 717231000628 SLBB domain; Region: SLBB; pfam10531 717231000629 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 717231000630 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 717231000631 4Fe-4S binding domain; Region: Fer4; cl02805 717231000632 4Fe-4S binding domain; Region: Fer4; cl02805 717231000633 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 717231000634 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 717231000635 catalytic loop [active] 717231000636 iron binding site [ion binding]; other site 717231000637 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 717231000638 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 717231000639 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 717231000640 molybdopterin cofactor binding site; other site 717231000641 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 717231000642 NADH dehydrogenase; Region: NADHdh; cl00469 717231000643 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 717231000644 4Fe-4S binding domain; Region: Fer4; cl02805 717231000645 4Fe-4S binding domain; Region: Fer4; cl02805 717231000646 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 717231000647 NADH dehydrogenase subunit 6; Region: ndhG; CHL00016 717231000648 NADH dehydrogenase subunit J; Provisional; Region: PRK06439 717231000649 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 717231000650 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 717231000651 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 717231000652 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231000653 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 717231000654 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231000655 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 717231000656 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231000657 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 717231000658 diiron binding motif [ion binding]; other site 717231000659 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 717231000660 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000661 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 717231000662 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 717231000663 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 717231000664 Substrate binding site; other site 717231000665 Cupin domain; Region: Cupin_2; cl09118 717231000666 Cation transport protein; Region: TrkH; cl10514 717231000667 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 717231000668 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 717231000669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000670 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; cl15357 717231000671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000672 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; cl15357 717231000673 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 717231000674 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 717231000675 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 717231000676 THUMP domain; Region: THUMP; cl12076 717231000677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000678 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 717231000679 DNA-binding site [nucleotide binding]; DNA binding site 717231000680 RNA-binding motif; other site 717231000681 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 717231000682 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 717231000683 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 717231000684 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 717231000685 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 717231000686 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 717231000687 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 717231000688 G1 box; other site 717231000689 putative GEF interaction site [polypeptide binding]; other site 717231000690 GTP/Mg2+ binding site [chemical binding]; other site 717231000691 Switch I region; other site 717231000692 G2 box; other site 717231000693 G3 box; other site 717231000694 Switch II region; other site 717231000695 G4 box; other site 717231000696 G5 box; other site 717231000697 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 717231000698 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 717231000699 Predicted membrane protein [Function unknown]; Region: COG3671 717231000700 Sodium:solute symporter family; Region: SSF; cl00456 717231000701 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 717231000702 GAF domain; Region: GAF; cl15785 717231000703 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 717231000704 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 717231000705 Protein of unknown function (DUF1634); Region: DUF1634; cl01741 717231000706 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 717231000707 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 717231000708 Family description; Region: VCBS; pfam13517 717231000709 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 717231000710 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 717231000711 homodimer interface [polypeptide binding]; other site 717231000712 substrate-cofactor binding pocket; other site 717231000713 catalytic residue [active] 717231000714 Acylphosphatase; Region: Acylphosphatase; cl00551 717231000715 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 717231000716 HypF finger; Region: zf-HYPF; pfam07503 717231000717 HypF finger; Region: zf-HYPF; pfam07503 717231000718 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 717231000719 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 717231000720 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 717231000721 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 717231000722 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231000723 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 717231000724 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 717231000725 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000726 EamA-like transporter family; Region: EamA; cl01037 717231000727 EamA-like transporter family; Region: EamA; cl01037 717231000728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231000729 EamA-like transporter family; Region: EamA; cl01037 717231000730 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 717231000731 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 717231000732 Acetokinase family; Region: Acetate_kinase; cl01029 717231000733 propionate/acetate kinase; Provisional; Region: PRK12379 717231000734 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 717231000735 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 717231000736 Walker A/P-loop; other site 717231000737 ATP binding site [chemical binding]; other site 717231000738 Q-loop/lid; other site 717231000739 ABC transporter signature motif; other site 717231000740 Walker B; other site 717231000741 D-loop; other site 717231000742 H-loop/switch region; other site 717231000743 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231000744 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231000745 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 717231000746 Walker A/P-loop; other site 717231000747 ATP binding site [chemical binding]; other site 717231000748 Q-loop/lid; other site 717231000749 ABC transporter signature motif; other site 717231000750 Walker B; other site 717231000751 D-loop; other site 717231000752 H-loop/switch region; other site 717231000753 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231000754 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 717231000755 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 717231000756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231000757 dimer interface [polypeptide binding]; other site 717231000758 conserved gate region; other site 717231000759 putative PBP binding loops; other site 717231000760 ABC-ATPase subunit interface; other site 717231000761 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 717231000762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231000763 dimer interface [polypeptide binding]; other site 717231000764 conserved gate region; other site 717231000765 putative PBP binding loops; other site 717231000766 ABC-ATPase subunit interface; other site 717231000767 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 717231000768 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 717231000769 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 717231000770 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 717231000771 dimer interface [polypeptide binding]; other site 717231000772 putative functional site; other site 717231000773 putative MPT binding site; other site 717231000774 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 717231000775 active site 717231000776 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 717231000777 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 717231000778 FeS/SAM binding site; other site 717231000779 HemN C-terminal domain; Region: HemN_C; pfam06969 717231000780 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 717231000781 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 717231000782 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 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 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000791 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 717231000792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231000793 active site 717231000794 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 717231000795 putative metal binding site; other site 717231000796 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 717231000797 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 717231000798 substrate binding site; other site 717231000799 tetramer interface; other site 717231000800 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 717231000801 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 717231000802 S-adenosylmethionine binding site [chemical binding]; other site 717231000803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000804 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 717231000805 putative ADP-binding pocket [chemical binding]; other site 717231000806 O-Antigen ligase; Region: Wzy_C; cl04850 717231000807 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 717231000808 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 717231000809 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 717231000810 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 717231000811 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231000812 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 717231000813 putative ADP-binding pocket [chemical binding]; other site 717231000814 KEGG: ddf:DEFDS_0340 hypothetical protein; SPTR: Putative uncharacterized protein 717231000815 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 717231000816 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231000817 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 717231000818 putative active site [active] 717231000819 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 717231000820 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 717231000821 dimerization interface [polypeptide binding]; other site 717231000822 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 717231000823 dimer interface [polypeptide binding]; other site 717231000824 phosphorylation site [posttranslational modification] 717231000825 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 717231000826 ATP binding site [chemical binding]; other site 717231000827 Mg2+ binding site [ion binding]; other site 717231000828 G-X-G motif; other site 717231000829 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 717231000830 Ligand binding site; other site 717231000831 Putative Catalytic site; other site 717231000832 DXD motif; other site 717231000833 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 717231000834 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 717231000835 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 717231000836 NAD(P)H:flavin oxidoreductase-like family 2. 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_2; cd02151 717231000837 putative FMN binding site [chemical binding]; other site 717231000838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231000839 DNA-binding site [nucleotide binding]; DNA binding site 717231000840 Predicted transcriptional regulators [Transcription]; Region: COG1725 717231000841 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 717231000842 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 717231000843 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 717231000844 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 717231000845 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 717231000846 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231000847 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231000848 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231000849 DctM-like transporters; Region: DctM; pfam06808 717231000850 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231000851 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 717231000852 dimer interface [polypeptide binding]; other site 717231000853 phosphorylation site [posttranslational modification] 717231000854 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 717231000855 ATP binding site [chemical binding]; other site 717231000856 Mg2+ binding site [ion binding]; other site 717231000857 G-X-G motif; other site 717231000858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000859 active site 717231000860 phosphorylation site [posttranslational modification] 717231000861 intermolecular recognition site; other site 717231000862 dimerization interface [polypeptide binding]; other site 717231000863 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 717231000864 DNA binding site [nucleotide binding] 717231000865 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 717231000866 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231000867 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 717231000868 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 717231000869 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 717231000870 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 717231000871 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 717231000872 [4Fe-4S] binding site [ion binding]; other site 717231000873 molybdopterin cofactor binding site; other site 717231000874 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 717231000875 molybdopterin cofactor binding site; other site 717231000876 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231000877 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 717231000878 heme-binding residues [chemical binding]; other site 717231000879 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 717231000880 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231000881 active site 717231000882 substrate binding site [chemical binding]; other site 717231000883 catalytic site [active] 717231000884 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 717231000885 AIR carboxylase; Region: AIRC; cl00310 717231000886 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 717231000887 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 717231000888 ribonuclease G; Provisional; Region: PRK11712 717231000889 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 717231000890 homodimer interface [polypeptide binding]; other site 717231000891 oligonucleotide binding site [chemical binding]; other site 717231000892 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 717231000893 G1 box; other site 717231000894 GTP/Mg2+ binding site [chemical binding]; other site 717231000895 G2 box; other site 717231000896 Switch I region; other site 717231000897 G3 box; other site 717231000898 Switch II region; other site 717231000899 G4 box; other site 717231000900 G5 box; other site 717231000901 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 717231000902 recombination protein RecR; Reviewed; Region: recR; PRK00076 717231000903 RecR protein; Region: RecR; pfam02132 717231000904 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 717231000905 putative active site [active] 717231000906 putative metal-binding site [ion binding]; other site 717231000907 tetramer interface [polypeptide binding]; other site 717231000908 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 717231000909 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 717231000910 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 717231000911 Walker A motif; other site 717231000912 ATP binding site [chemical binding]; other site 717231000913 Walker B motif; other site 717231000914 arginine finger; other site 717231000915 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231000916 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 717231000917 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231000918 substrate binding pocket [chemical binding]; other site 717231000919 membrane-bound complex binding site; other site 717231000920 hinge residues; other site 717231000921 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231000922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231000923 dimer interface [polypeptide binding]; other site 717231000924 conserved gate region; other site 717231000925 putative PBP binding loops; other site 717231000926 ABC-ATPase subunit interface; other site 717231000927 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 717231000928 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 717231000929 Walker A/P-loop; other site 717231000930 ATP binding site [chemical binding]; other site 717231000931 Q-loop/lid; other site 717231000932 ABC transporter signature motif; other site 717231000933 Walker B; other site 717231000934 D-loop; other site 717231000935 H-loop/switch region; other site 717231000936 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 717231000937 catalytic loop [active] 717231000938 iron binding site [ion binding]; other site 717231000939 Response regulator receiver domain; Region: Response_reg; pfam00072 717231000940 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231000941 active site 717231000942 phosphorylation site [posttranslational modification] 717231000943 intermolecular recognition site; other site 717231000944 dimerization interface [polypeptide binding]; other site 717231000945 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 717231000946 Sm1 motif; other site 717231000947 D3 - B interaction site; other site 717231000948 D1 - D2 interaction site; other site 717231000949 Hfq - Hfq interaction site; other site 717231000950 RNA binding pocket [nucleotide binding]; other site 717231000951 Sm2 motif; other site 717231000952 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 717231000953 Sm1 motif; other site 717231000954 D3 - B interaction site; other site 717231000955 D1 - D2 interaction site; other site 717231000956 Hfq - Hfq interaction site; other site 717231000957 RNA binding pocket [nucleotide binding]; other site 717231000958 Sm2 motif; other site 717231000959 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231000960 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231000961 active site 717231000962 NTP binding site [chemical binding]; other site 717231000963 metal binding triad [ion binding]; metal-binding site 717231000964 antibiotic binding site [chemical binding]; other site 717231000965 Protein of unknown function DUF86; Region: DUF86; cl01031 717231000966 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 717231000967 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231000968 Walker A motif; other site 717231000969 ATP binding site [chemical binding]; other site 717231000970 Walker B motif; other site 717231000971 Helix-turn-helix domains; Region: HTH; cl00088 717231000972 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; cl15357 717231000973 transmembrane helices; other site 717231000974 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; cl15357 717231000975 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; cl15357 717231000976 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; cl15357 717231000977 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 717231000978 active site 717231000979 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 717231000980 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 717231000981 Active Sites [active] 717231000982 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231000983 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 717231000984 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 717231000985 CysD dimerization site [polypeptide binding]; other site 717231000986 G1 box; other site 717231000987 putative GEF interaction site [polypeptide binding]; other site 717231000988 GTP/Mg2+ binding site [chemical binding]; other site 717231000989 Switch I region; other site 717231000990 G2 box; other site 717231000991 G3 box; other site 717231000992 Switch II region; other site 717231000993 G4 box; other site 717231000994 G5 box; other site 717231000995 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 717231000996 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 717231000997 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically 'activated' sulfate form important for the assimilation of...; Region: APSK; cd02027 717231000998 ligand-binding site [chemical binding]; other site 717231000999 putative transposase OrfB; Reviewed; Region: PHA02517 717231001000 Integrase core domain; Region: rve; cl01316 717231001001 Integrase core domain; Region: rve_3; cl15866 717231001002 Helix-turn-helix domains; Region: HTH; cl00088 717231001003 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231001004 active site 717231001005 NTP binding site [chemical binding]; other site 717231001006 metal binding triad [ion binding]; metal-binding site 717231001007 antibiotic binding site [chemical binding]; other site 717231001008 Protein of unknown function DUF86; Region: DUF86; cl01031 717231001009 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231001010 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 717231001011 putative substrate translocation pore; other site 717231001012 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 717231001013 diiron binding motif [ion binding]; other site 717231001014 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 717231001015 FOG: CBS domain [General function prediction only]; Region: COG0517 717231001016 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 717231001017 Cupin domain; Region: Cupin_2; cl09118 717231001018 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 717231001019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 717231001020 putative substrate translocation pore; other site 717231001021 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 717231001022 active site 1 [active] 717231001023 dimer interface [polypeptide binding]; other site 717231001024 hexamer interface [polypeptide binding]; other site 717231001025 active site 2 [active] 717231001026 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 717231001027 homodimer interaction site [polypeptide binding]; other site 717231001028 cofactor binding site; other site 717231001029 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 717231001030 dimerization interface [polypeptide binding]; other site 717231001031 putative DNA binding site [nucleotide binding]; other site 717231001032 putative Zn2+ binding site [ion binding]; other site 717231001033 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231001034 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231001035 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231001036 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231001037 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231001038 Protein export membrane protein; Region: SecD_SecF; cl14618 717231001039 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 717231001040 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 717231001041 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 717231001042 putative substrate translocation pore; other site 717231001043 hypothetical protein; Provisional; Region: PRK10279 717231001044 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231001045 active site 717231001046 nucleophile elbow; other site 717231001047 Transcriptional regulators [Transcription]; Region: GntR; COG1802 717231001048 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231001049 DNA-binding site [nucleotide binding]; DNA binding site 717231001050 FCD domain; Region: FCD; cl11656 717231001051 Transcriptional regulators [Transcription]; Region: GntR; COG1802 717231001052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231001053 DNA-binding site [nucleotide binding]; DNA binding site 717231001054 FCD domain; Region: FCD; cl11656 717231001055 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 717231001056 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 717231001057 putative active site [active] 717231001058 catalytic triad [active] 717231001059 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 717231001060 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 717231001061 dimerization interface [polypeptide binding]; other site 717231001062 ATP binding site [chemical binding]; other site 717231001063 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 717231001064 dimerization interface [polypeptide binding]; other site 717231001065 ATP binding site [chemical binding]; other site 717231001066 amidophosphoribosyltransferase; Provisional; Region: PRK09123 717231001067 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 717231001068 active site 717231001069 tetramer interface [polypeptide binding]; other site 717231001070 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231001071 active site 717231001072 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 717231001073 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 717231001074 S-adenosylmethionine binding site [chemical binding]; other site 717231001075 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 717231001076 Peptidase family U32; Region: Peptidase_U32; cl03113 717231001077 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 717231001078 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 717231001079 nucleotide binding pocket [chemical binding]; other site 717231001080 K-X-D-G motif; other site 717231001081 catalytic site [active] 717231001082 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 717231001083 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 717231001084 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 717231001085 Dimer interface [polypeptide binding]; other site 717231001086 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 717231001087 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001088 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001089 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001090 KEGG: sus:Acid_4465 transposase IS116/IS110/IS902 family protein; SPTR: Transposase IS116/IS110/IS902 family protein; manually curated 717231001091 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001092 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001093 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 717231001094 Putative capsular polysaccharide synthesis protein; Region: NKWYS; pfam10364 717231001095 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 717231001096 O-Antigen ligase; Region: Wzy_C; cl04850 717231001097 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 717231001098 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 717231001099 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 717231001100 active site 717231001101 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 717231001102 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 717231001103 MatE; Region: MatE; cl10513 717231001104 MatE; Region: MatE; cl10513 717231001105 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231001106 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 717231001107 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 717231001108 NAD(P) binding site [chemical binding]; other site 717231001109 homodimer interface [polypeptide binding]; other site 717231001110 substrate binding site [chemical binding]; other site 717231001111 active site 717231001112 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 717231001113 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 717231001114 inhibitor-cofactor binding pocket; inhibition site 717231001115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001116 catalytic residue [active] 717231001117 Bacterial sugar transferase; Region: Bac_transf; cl00939 717231001118 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 717231001119 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 717231001120 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 717231001121 metal-binding site 717231001122 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 717231001123 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 717231001124 active site 717231001125 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 717231001126 metal-binding site 717231001127 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 717231001128 colanic acid exporter; Provisional; Region: PRK10459 717231001129 MatE; Region: MatE; cl10513 717231001130 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 717231001131 pyrrolysine biosynthesis protein PylC; Region: pyrrolys_PylC; TIGR03909 717231001132 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231001133 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 717231001134 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 717231001135 inhibitor-cofactor binding pocket; inhibition site 717231001136 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001137 catalytic residue [active] 717231001138 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 717231001139 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 717231001140 substrate binding site; other site 717231001141 tetramer interface; other site 717231001142 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231001143 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231001144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001145 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 717231001146 NAD(P) binding site [chemical binding]; other site 717231001147 active site 717231001148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001149 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231001150 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 717231001151 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 717231001152 NADP-binding site; other site 717231001153 homotetramer interface [polypeptide binding]; other site 717231001154 substrate binding site [chemical binding]; other site 717231001155 homodimer interface [polypeptide binding]; other site 717231001156 active site 717231001157 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231001158 HEPN domain; Region: HEPN; cl00824 717231001159 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231001160 active site 717231001161 NTP binding site [chemical binding]; other site 717231001162 metal binding triad [ion binding]; metal-binding site 717231001163 antibiotic binding site [chemical binding]; other site 717231001164 UDP-glucose-4-epimerase; Region: galE; TIGR01179 717231001165 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 717231001166 NAD binding site [chemical binding]; other site 717231001167 homodimer interface [polypeptide binding]; other site 717231001168 active site 717231001169 substrate binding site [chemical binding]; other site 717231001170 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231001171 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231001172 AMP-binding enzyme; Region: AMP-binding; cl15778 717231001173 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 717231001174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001175 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 717231001176 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 717231001177 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 717231001178 substrate binding site [chemical binding]; other site 717231001179 oxyanion hole (OAH) forming residues; other site 717231001180 trimer interface [polypeptide binding]; other site 717231001181 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 717231001182 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 717231001183 dimer interface [polypeptide binding]; other site 717231001184 active site 717231001185 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 717231001186 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 717231001187 active site 717231001188 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231001189 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 717231001190 active site 717231001191 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 717231001192 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 717231001193 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 717231001194 substrate binding site [chemical binding]; other site 717231001195 oxyanion hole (OAH) forming residues; other site 717231001196 trimer interface [polypeptide binding]; other site 717231001197 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 717231001198 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 717231001199 FAD binding site [chemical binding]; other site 717231001200 homotetramer interface [polypeptide binding]; other site 717231001201 substrate binding pocket [chemical binding]; other site 717231001202 catalytic base [active] 717231001203 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 717231001204 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231001205 4Fe-4S binding domain; Region: Fer4; cl02805 717231001206 Cysteine-rich domain; Region: CCG; pfam02754 717231001207 Cysteine-rich domain; Region: CCG; pfam02754 717231001208 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 717231001209 Ligand binding site [chemical binding]; other site 717231001210 Electron transfer flavoprotein domain; Region: ETF; pfam01012 717231001211 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 717231001212 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 717231001213 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 717231001214 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 717231001215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001216 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 717231001217 Protein of unknown function (DUF342); Region: DUF342; pfam03961 717231001218 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 717231001219 DNA photolyase; Region: DNA_photolyase; pfam00875 717231001220 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 717231001221 Helix-turn-helix domains; Region: HTH; cl00088 717231001222 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231001223 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 717231001224 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 717231001225 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 717231001226 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 717231001227 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001228 MjaII restriction endonuclease; Region: RE_MjaII; pfam09520 717231001229 Predicted HD-superfamily hydrolase [General function prediction only]; Region: COG3481 717231001230 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231001231 Zn2+ binding site [ion binding]; other site 717231001232 Mg2+ binding site [ion binding]; other site 717231001233 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231001234 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 717231001235 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 717231001236 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 717231001237 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 717231001238 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 717231001239 DNA binding site [nucleotide binding] 717231001240 Int/Topo IB signature motif; other site 717231001241 active site 717231001242 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 717231001243 nucleotide binding site [chemical binding]; other site 717231001244 formamidopyrimidine-DNA glycosylase (fpg); Region: fpg; TIGR00577 717231001245 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 717231001246 DNA binding site [nucleotide binding] 717231001247 catalytic residue [active] 717231001248 H2TH interface [polypeptide binding]; other site 717231001249 putative catalytic residues [active] 717231001250 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 717231001251 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 717231001252 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 717231001253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001254 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 717231001255 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 717231001256 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 717231001257 catalytic loop [active] 717231001258 iron binding site [ion binding]; other site 717231001259 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 717231001260 4Fe-4S binding domain; Region: Fer4; cl02805 717231001261 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 717231001262 molybdopterin cofactor binding site; other site 717231001263 Transposase domain (DUF772); Region: DUF772; cl15789 717231001264 Transposase domain (DUF772); Region: DUF772; cl15789 717231001265 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 717231001266 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 717231001267 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 717231001268 active site 717231001269 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 717231001270 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 717231001271 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231001272 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231001273 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231001274 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 717231001275 KEGG: dat:HRM2_44020 hypothetical protein; SPTR: Putative uncharacterized protein 717231001276 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001277 DNA polymerase I; Provisional; Region: PRK05755 717231001278 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 717231001279 active site 717231001280 metal binding site 1 [ion binding]; metal-binding site 717231001281 putative 5' ssDNA interaction site; other site 717231001282 metal binding site 3; metal-binding site 717231001283 metal binding site 2 [ion binding]; metal-binding site 717231001284 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 717231001285 putative DNA binding site [nucleotide binding]; other site 717231001286 putative metal binding site [ion binding]; other site 717231001287 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 717231001288 active site 717231001289 DNA binding site [nucleotide binding] 717231001290 catalytic site [active] 717231001291 GAF domain; Region: GAF; cl15785 717231001292 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231001293 metal binding site [ion binding]; metal-binding site 717231001294 active site 717231001295 I-site; other site 717231001296 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 717231001297 histidinol dehydrogenase; Region: hisD; TIGR00069 717231001298 NAD binding site [chemical binding]; other site 717231001299 dimerization interface [polypeptide binding]; other site 717231001300 product binding site; other site 717231001301 substrate binding site [chemical binding]; other site 717231001302 zinc binding site [ion binding]; other site 717231001303 catalytic residues [active] 717231001304 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 717231001305 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231001306 catalytic residue [active] 717231001307 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 717231001308 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 717231001309 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 717231001310 putative peptidoglycan binding site; other site 717231001311 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 717231001312 putative peptidoglycan binding site; other site 717231001313 elongation factor Tu; Reviewed; Region: PRK00049 717231001314 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 717231001315 G1 box; other site 717231001316 GEF interaction site [polypeptide binding]; other site 717231001317 GTP/Mg2+ binding site [chemical binding]; other site 717231001318 Switch I region; other site 717231001319 G2 box; other site 717231001320 G3 box; other site 717231001321 Switch II region; other site 717231001322 G4 box; other site 717231001323 G5 box; other site 717231001324 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 717231001325 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 717231001326 Antibiotic Binding Site [chemical binding]; other site 717231001327 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 717231001328 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 717231001329 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 717231001330 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 717231001331 putative homodimer interface [polypeptide binding]; other site 717231001332 KOW motif; Region: KOW; cl00354 717231001333 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 717231001334 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 717231001335 23S rRNA interface [nucleotide binding]; other site 717231001336 L7/L12 interface [polypeptide binding]; other site 717231001337 putative thiostrepton binding site; other site 717231001338 L25 interface [polypeptide binding]; other site 717231001339 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 717231001340 mRNA/rRNA interface [nucleotide binding]; other site 717231001341 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 717231001342 23S rRNA interface [nucleotide binding]; other site 717231001343 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 717231001344 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 717231001345 core dimer interface [polypeptide binding]; other site 717231001346 peripheral dimer interface [polypeptide binding]; other site 717231001347 L10 interface [polypeptide binding]; other site 717231001348 L11 interface [polypeptide binding]; other site 717231001349 putative EF-Tu interaction site [polypeptide binding]; other site 717231001350 putative EF-G interaction site [polypeptide binding]; other site 717231001351 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; pfam04563 717231001352 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 717231001353 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 717231001354 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 717231001355 RPB11 interaction site [polypeptide binding]; other site 717231001356 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 717231001357 RPB11 interaction site [polypeptide binding]; other site 717231001358 RPB12 interaction site [polypeptide binding]; other site 717231001359 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 717231001360 RPB12 interaction site [polypeptide binding]; other site 717231001361 RPB3 interaction site [polypeptide binding]; other site 717231001362 RPB1 interaction site [polypeptide binding]; other site 717231001363 RPB11 interaction site [polypeptide binding]; other site 717231001364 RPB10 interaction site [polypeptide binding]; other site 717231001365 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 717231001366 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 717231001367 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 717231001368 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 717231001369 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 717231001370 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 717231001371 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 717231001372 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 717231001373 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 717231001374 DNA binding site [nucleotide binding] 717231001375 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 717231001376 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 717231001377 S17 interaction site [polypeptide binding]; other site 717231001378 S8 interaction site; other site 717231001379 16S rRNA interaction site [nucleotide binding]; other site 717231001380 streptomycin interaction site [chemical binding]; other site 717231001381 23S rRNA interaction site [nucleotide binding]; other site 717231001382 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 717231001383 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 717231001384 elongation factor G; Reviewed; Region: PRK00007 717231001385 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 717231001386 G1 box; other site 717231001387 putative GEF interaction site [polypeptide binding]; other site 717231001388 GTP/Mg2+ binding site [chemical binding]; other site 717231001389 Switch I region; other site 717231001390 G2 box; other site 717231001391 G3 box; other site 717231001392 Switch II region; other site 717231001393 G4 box; other site 717231001394 G5 box; other site 717231001395 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 717231001396 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 717231001397 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 717231001398 elongation factor Tu; Reviewed; Region: PRK00049 717231001399 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 717231001400 G1 box; other site 717231001401 GEF interaction site [polypeptide binding]; other site 717231001402 GTP/Mg2+ binding site [chemical binding]; other site 717231001403 Switch I region; other site 717231001404 G2 box; other site 717231001405 G3 box; other site 717231001406 Switch II region; other site 717231001407 G4 box; other site 717231001408 G5 box; other site 717231001409 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 717231001410 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 717231001411 Antibiotic Binding Site [chemical binding]; other site 717231001412 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 717231001413 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 717231001414 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 717231001415 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 717231001416 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 717231001417 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 717231001418 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 717231001419 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 717231001420 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 717231001421 putative translocon binding site; other site 717231001422 protein-rRNA interface [nucleotide binding]; other site 717231001423 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 717231001424 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 717231001425 G-X-X-G motif; other site 717231001426 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 717231001427 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 717231001428 23S rRNA interface [nucleotide binding]; other site 717231001429 5S rRNA interface [nucleotide binding]; other site 717231001430 putative antibiotic binding site [chemical binding]; other site 717231001431 L25 interface [polypeptide binding]; other site 717231001432 L27 interface [polypeptide binding]; other site 717231001433 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 717231001434 23S rRNA interface [nucleotide binding]; other site 717231001435 putative translocon interaction site; other site 717231001436 signal recognition particle (SRP54) interaction site; other site 717231001437 L23 interface [polypeptide binding]; other site 717231001438 trigger factor interaction site; other site 717231001439 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 717231001440 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 717231001441 KOW motif; Region: KOW; cl00354 717231001442 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 717231001443 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 717231001444 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 717231001445 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 717231001446 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 717231001447 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 717231001448 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 717231001449 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 717231001450 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 717231001451 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 717231001452 5S rRNA interface [nucleotide binding]; other site 717231001453 L27 interface [polypeptide binding]; other site 717231001454 23S rRNA interface [nucleotide binding]; other site 717231001455 L5 interface [polypeptide binding]; other site 717231001456 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 717231001457 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 717231001458 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 717231001459 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 717231001460 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 717231001461 SecY translocase; Region: SecY; pfam00344 717231001462 adenylate kinase; Reviewed; Region: adk; PRK00279 717231001463 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 717231001464 AMP-binding site [chemical binding]; other site 717231001465 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 717231001466 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 717231001467 active site 717231001468 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 717231001469 rRNA binding site [nucleotide binding]; other site 717231001470 predicted 30S ribosome binding site; other site 717231001471 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 717231001472 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 717231001473 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 717231001474 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 717231001475 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 717231001476 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 717231001477 RNA binding surface [nucleotide binding]; other site 717231001478 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 717231001479 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 717231001480 alphaNTD homodimer interface [polypeptide binding]; other site 717231001481 alphaNTD - beta interaction site [polypeptide binding]; other site 717231001482 alphaNTD - beta' interaction site [polypeptide binding]; other site 717231001483 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 717231001484 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 717231001485 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 717231001486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231001487 Walker A/P-loop; other site 717231001488 ATP binding site [chemical binding]; other site 717231001489 Q-loop/lid; other site 717231001490 ABC transporter signature motif; other site 717231001491 Walker B; other site 717231001492 D-loop; other site 717231001493 H-loop/switch region; other site 717231001494 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 717231001495 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231001496 Walker A/P-loop; other site 717231001497 ATP binding site [chemical binding]; other site 717231001498 Q-loop/lid; other site 717231001499 ABC transporter signature motif; other site 717231001500 Walker B; other site 717231001501 D-loop; other site 717231001502 H-loop/switch region; other site 717231001503 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 717231001504 intersubunit interface [polypeptide binding]; other site 717231001505 active site 717231001506 Zn2+ binding site [ion binding]; other site 717231001507 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 717231001508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231001509 Walker A/P-loop; other site 717231001510 ATP binding site [chemical binding]; other site 717231001511 Q-loop/lid; other site 717231001512 ABC transporter signature motif; other site 717231001513 Walker B; other site 717231001514 D-loop; other site 717231001515 H-loop/switch region; other site 717231001516 ABC transporter; Region: ABC_tran_2; pfam12848 717231001517 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 717231001518 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 717231001519 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 717231001520 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 717231001521 inhibitor-cofactor binding pocket; inhibition site 717231001522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001523 catalytic residue [active] 717231001524 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231001525 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 717231001526 ATP synthase A chain; Region: ATP-synt_A; cl00413 717231001527 ATP synthase subunit C; Region: ATP-synt_C; cl00466 717231001528 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 717231001529 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 717231001530 heme-binding residues [chemical binding]; other site 717231001531 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 717231001532 Rhomboid family; Region: Rhomboid; cl11446 717231001533 HupF/HypC family; Region: HupF_HypC; cl00394 717231001534 Hydrogenase formation hypA family; Region: HypD; cl12072 717231001535 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 717231001536 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 717231001537 dimerization interface [polypeptide binding]; other site 717231001538 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 717231001539 ATP binding site [chemical binding]; other site 717231001540 Quinohemoprotein amine dehydrogenase A, alpha subunit, haem binding; Region: Dehyd-heme_bind; pfam09098 717231001541 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 717231001542 Competence protein A; Region: Competence_A; pfam11104 717231001543 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 717231001544 Pilus assembly protein, PilO; Region: PilO; cl01234 717231001545 Pilus assembly protein, PilP; Region: PilP; cl01235 717231001546 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 717231001547 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 717231001548 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 717231001549 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 717231001550 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 717231001551 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 717231001552 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 717231001553 putative NAD(P) binding site [chemical binding]; other site 717231001554 putative active site [active] 717231001555 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 717231001556 hypothetical protein; Reviewed; Region: PRK09588 717231001557 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 717231001558 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 717231001559 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 717231001560 non-heme iron binding site [ion binding]; other site 717231001561 tetramer interface [polypeptide binding]; other site 717231001562 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 717231001563 Protein of unknown function (DUF554); Region: DUF554; cl00784 717231001564 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 717231001565 PLD-like domain; Region: PLDc_2; pfam13091 717231001566 putative active site [active] 717231001567 catalytic site [active] 717231001568 Predicted GTPase [General function prediction only]; Region: COG0218 717231001569 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 717231001570 G1 box; other site 717231001571 GTP/Mg2+ binding site [chemical binding]; other site 717231001572 Switch I region; other site 717231001573 G2 box; other site 717231001574 G3 box; other site 717231001575 Switch II region; other site 717231001576 G4 box; other site 717231001577 G5 box; other site 717231001578 DHH family; Region: DHH; pfam01368 717231001579 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 717231001580 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 717231001581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001582 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; cl15357 717231001583 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 717231001584 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 717231001585 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 717231001586 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 717231001587 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 717231001588 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 717231001589 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231001590 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231001591 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 717231001592 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 717231001593 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 717231001594 carboxyltransferase (CT) interaction site; other site 717231001595 biotinylation site [posttranslational modification]; other site 717231001596 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 717231001597 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 717231001598 active site 717231001599 substrate binding site [chemical binding]; other site 717231001600 coenzyme B12 binding site [chemical binding]; other site 717231001601 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 717231001602 B12 binding site [chemical binding]; other site 717231001603 cobalt ligand [ion binding]; other site 717231001604 membrane ATPase/protein kinase; Provisional; Region: PRK09435 717231001605 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 717231001606 Walker A; other site 717231001607 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 717231001608 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 717231001609 ATP binding site [chemical binding]; other site 717231001610 Mg2+ binding site [ion binding]; other site 717231001611 G-X-G motif; other site 717231001612 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 717231001613 anti sigma factor interaction site; other site 717231001614 regulatory phosphorylation site [posttranslational modification]; other site 717231001615 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 717231001616 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 717231001617 DRTGG domain; Region: DRTGG; cl12147 717231001618 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 717231001619 DHH family; Region: DHH; pfam01368 717231001620 DHHA2 domain; Region: DHHA2; pfam02833 717231001621 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 717231001622 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 717231001623 active site 717231001624 Riboflavin kinase; Region: Flavokinase; cl03312 717231001625 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 717231001626 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231001627 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 717231001628 FeS/SAM binding site; other site 717231001629 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 717231001630 TPR repeat; Region: TPR_11; pfam13414 717231001631 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 717231001632 binding surface 717231001633 TPR motif; other site 717231001634 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231001635 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231001636 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 717231001637 TPR motif; other site 717231001638 binding surface 717231001639 seryl-tRNA synthetase; Provisional; Region: PRK05431 717231001640 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 717231001641 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 bound...; Region: SerRS_core; cd00770 717231001642 dimer interface [polypeptide binding]; other site 717231001643 active site 717231001644 motif 1; other site 717231001645 motif 2; other site 717231001646 motif 3; other site 717231001647 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 717231001648 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 717231001649 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 717231001650 MOFRL family; Region: MOFRL; pfam05161 717231001651 Protein of unknown function, DUF606; Region: DUF606; cl01273 717231001652 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 717231001653 dimerization interface [polypeptide binding]; other site 717231001654 putative DNA binding site [nucleotide binding]; other site 717231001655 putative Zn2+ binding site [ion binding]; other site 717231001656 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 717231001657 dimerization interface [polypeptide binding]; other site 717231001658 putative DNA binding site [nucleotide binding]; other site 717231001659 putative Zn2+ binding site [ion binding]; other site 717231001660 manually curated 717231001661 manually curated 717231001663 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 717231001664 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 717231001665 Ligand Binding Site [chemical binding]; other site 717231001666 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 717231001667 Ligand Binding Site [chemical binding]; other site 717231001668 BCCT family transporter; Region: BCCT; cl00569 717231001669 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 717231001670 octamerization interface [polypeptide binding]; other site 717231001671 diferric-oxygen binding site [ion binding]; other site 717231001672 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 717231001673 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 717231001674 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 717231001675 PAS domain S-box; Region: sensory_box; TIGR00229 717231001676 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 717231001677 PAS domain; Region: PAS_9; pfam13426 717231001678 putative active site [active] 717231001679 heme pocket [chemical binding]; other site 717231001680 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231001681 metal binding site [ion binding]; metal-binding site 717231001682 active site 717231001683 I-site; other site 717231001684 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 717231001685 Transposase domain (DUF772); Region: DUF772; cl15789 717231001686 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001687 Transposase domain (DUF772); Region: DUF772; cl15789 717231001688 Transposase domain (DUF772); Region: DUF772; cl15789 717231001689 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001690 Transposase domain (DUF772); Region: DUF772; cl15789 717231001691 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231001692 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231001693 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 717231001694 substrate binding pocket [chemical binding]; other site 717231001695 membrane-bound complex binding site; other site 717231001696 hinge residues; other site 717231001697 PAS domain; Region: PAS_9; pfam13426 717231001698 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 717231001699 putative active site [active] 717231001700 heme pocket [chemical binding]; other site 717231001701 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231001702 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 717231001703 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231001704 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 717231001705 putative active site [active] 717231001706 heme pocket [chemical binding]; other site 717231001707 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 717231001708 dimer interface [polypeptide binding]; other site 717231001709 phosphorylation site [posttranslational modification] 717231001710 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 717231001711 ATP binding site [chemical binding]; other site 717231001712 Mg2+ binding site [ion binding]; other site 717231001713 G-X-G motif; other site 717231001714 Response regulator receiver domain; Region: Response_reg; pfam00072 717231001715 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001716 active site 717231001717 phosphorylation site [posttranslational modification] 717231001718 intermolecular recognition site; other site 717231001719 dimerization interface [polypeptide binding]; other site 717231001720 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231001721 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231001722 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 717231001723 Walker A/P-loop; other site 717231001724 ATP binding site [chemical binding]; other site 717231001725 Q-loop/lid; other site 717231001726 ABC transporter signature motif; other site 717231001727 Walker B; other site 717231001728 D-loop; other site 717231001729 H-loop/switch region; other site 717231001730 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 717231001731 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231001732 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 717231001733 putative FMN binding site [chemical binding]; other site 717231001734 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 717231001735 Uncharacterized conserved protein [Function unknown]; Region: COG1284 717231001736 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 717231001737 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 717231001738 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 717231001739 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231001740 active site 717231001741 catalytic site [active] 717231001742 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 717231001743 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 717231001744 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 717231001745 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 717231001746 dimer interface [polypeptide binding]; other site 717231001747 phosphorylation site [posttranslational modification] 717231001748 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 717231001749 ATP binding site [chemical binding]; other site 717231001750 Mg2+ binding site [ion binding]; other site 717231001751 G-X-G motif; other site 717231001752 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231001753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001754 active site 717231001755 phosphorylation site [posttranslational modification] 717231001756 intermolecular recognition site; other site 717231001757 dimerization interface [polypeptide binding]; other site 717231001758 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 717231001759 Walker A motif; other site 717231001760 ATP binding site [chemical binding]; other site 717231001761 Walker B motif; other site 717231001762 arginine finger; other site 717231001763 Helix-turn-helix domains; Region: HTH; cl00088 717231001764 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231001765 Helix-turn-helix domains; Region: HTH; cl00088 717231001766 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 717231001767 Active Sites [active] 717231001768 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 717231001769 thiS-thiF/thiG interaction site; other site 717231001770 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 717231001771 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 717231001772 homodimer interface [polypeptide binding]; other site 717231001773 substrate-cofactor binding pocket; other site 717231001774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001775 catalytic residue [active] 717231001776 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 717231001777 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 717231001778 ATP binding site [chemical binding]; other site 717231001779 substrate interface [chemical binding]; other site 717231001780 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 717231001781 MPN+ (JAMM) motif; other site 717231001782 Zinc-binding site [ion binding]; other site 717231001783 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 717231001784 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 717231001785 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 717231001786 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 717231001787 CPxP motif; other site 717231001788 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 717231001789 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 717231001790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001791 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 717231001792 catalytic residues [active] 717231001793 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_I; cd01990 717231001794 Ligand Binding Site [chemical binding]; other site 717231001795 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 717231001796 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 717231001797 Ligand Binding Site [chemical binding]; other site 717231001798 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 717231001799 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 717231001800 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 717231001801 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231001802 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231001803 Cytochrome C biogenesis protein; Region: CcmH; cl01179 717231001804 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 717231001805 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231001806 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231001807 FtsX-like permease family; Region: FtsX; cl15850 717231001808 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231001809 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 717231001810 Walker A/P-loop; other site 717231001811 ATP binding site [chemical binding]; other site 717231001812 Q-loop/lid; other site 717231001813 ABC transporter signature motif; other site 717231001814 Walker B; other site 717231001815 D-loop; other site 717231001816 H-loop/switch region; other site 717231001817 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231001818 FtsX-like permease family; Region: FtsX; cl15850 717231001819 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 717231001820 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231001821 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231001822 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 717231001823 Helix-turn-helix domains; Region: HTH; cl00088 717231001824 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 717231001825 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 717231001826 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 717231001827 inhibitor-cofactor binding pocket; inhibition site 717231001828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001829 catalytic residue [active] 717231001830 AAA domain; Region: AAA_26; pfam13500 717231001831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231001832 biotin synthase; Region: bioB; TIGR00433 717231001833 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 717231001834 FeS/SAM binding site; other site 717231001835 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 717231001836 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 717231001837 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 717231001838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231001839 catalytic residue [active] 717231001840 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 717231001841 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 717231001842 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 717231001843 S-adenosylmethionine binding site [chemical binding]; other site 717231001844 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 717231001845 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 717231001846 homodimer interface [polypeptide binding]; other site 717231001847 substrate-cofactor binding pocket; other site 717231001848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001849 catalytic residue [active] 717231001850 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 717231001851 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 717231001852 dimer interface [polypeptide binding]; other site 717231001853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001854 catalytic residue [active] 717231001855 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 717231001856 Transposase domain (DUF772); Region: DUF772; cl15789 717231001857 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001858 Transposase domain (DUF772); Region: DUF772; cl15789 717231001859 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 717231001860 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 717231001861 Walker A motif; other site 717231001862 ATP binding site [chemical binding]; other site 717231001863 Walker B motif; other site 717231001864 arginine finger; other site 717231001865 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 717231001866 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 717231001867 Walker A/P-loop; other site 717231001868 ATP binding site [chemical binding]; other site 717231001869 Q-loop/lid; other site 717231001870 ABC transporter signature motif; other site 717231001871 Walker B; other site 717231001872 D-loop; other site 717231001873 H-loop/switch region; other site 717231001874 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231001875 allantoate amidohydrolase; Reviewed; Region: PRK09290 717231001876 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 717231001877 active site 717231001878 metal binding site [ion binding]; metal-binding site 717231001879 dimer interface [polypeptide binding]; other site 717231001880 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 717231001881 SmpB-tmRNA interface; other site 717231001882 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 717231001883 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 717231001884 GDP-binding site [chemical binding]; other site 717231001885 ACT binding site; other site 717231001886 IMP binding site; other site 717231001887 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 717231001888 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 717231001889 dimer interface [polypeptide binding]; other site 717231001890 motif 1; other site 717231001891 active site 717231001892 motif 2; other site 717231001893 motif 3; other site 717231001894 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 717231001895 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 717231001896 homodimer interface [polypeptide binding]; other site 717231001897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231001898 catalytic residue [active] 717231001899 Short C-terminal domain; Region: SHOCT; cl01373 717231001900 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 717231001901 dimer interface [polypeptide binding]; other site 717231001902 phosphorylation site [posttranslational modification] 717231001903 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 717231001904 ATP binding site [chemical binding]; other site 717231001905 Mg2+ binding site [ion binding]; other site 717231001906 G-X-G motif; other site 717231001907 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231001908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231001909 active site 717231001910 phosphorylation site [posttranslational modification] 717231001911 intermolecular recognition site; other site 717231001912 dimerization interface [polypeptide binding]; other site 717231001913 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 717231001914 Walker A motif; other site 717231001915 ATP binding site [chemical binding]; other site 717231001916 Walker B motif; other site 717231001917 arginine finger; other site 717231001918 Helix-turn-helix domains; Region: HTH; cl00088 717231001919 argininosuccinate lyase; Provisional; Region: PRK00855 717231001920 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 717231001921 active sites [active] 717231001922 tetramer interface [polypeptide binding]; other site 717231001923 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 717231001924 binding surface 717231001925 TPR motif; other site 717231001926 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 717231001927 Conserved TM helix; Region: TM_helix; pfam05552 717231001928 Mechanosensitive ion channel; Region: MS_channel; pfam00924 717231001929 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 717231001930 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 717231001931 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 717231001932 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 717231001933 FeS/SAM binding site; other site 717231001934 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 717231001935 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 717231001936 Transposase domain (DUF772); Region: DUF772; cl15789 717231001937 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231001938 Transposase domain (DUF772); Region: DUF772; cl15789 717231001939 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231001940 Protein of unknown function (DUF456); Region: DUF456; cl01069 717231001941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231001942 COGs: COG2956 N-acetylglucosaminyl transferase; KEGG: ddf:DEFDS_0191 hypothetical protein; SPTR: Putative uncharacterized protein 717231001943 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 717231001944 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 717231001945 binding surface 717231001946 TPR motif; other site 717231001947 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 717231001948 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 717231001949 nucleotide binding site/active site [active] 717231001950 HIT family signature motif; other site 717231001951 catalytic residue [active] 717231001952 NAD-dependent deacetylase; Provisional; Region: PRK00481 717231001953 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 717231001954 Membrane transport protein; Region: Mem_trans; cl09117 717231001955 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 717231001956 metal-binding site [ion binding] 717231001957 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 717231001958 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 717231001959 metal-binding site [ion binding] 717231001960 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 717231001961 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 717231001962 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 717231001963 metal-binding site [ion binding] 717231001964 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 717231001965 putative homotetramer interface [polypeptide binding]; other site 717231001966 putative homodimer interface [polypeptide binding]; other site 717231001967 putative allosteric switch controlling residues; other site 717231001968 putative metal binding site [ion binding]; other site 717231001969 putative homodimer-homodimer interface [polypeptide binding]; other site 717231001970 dihydrodipicolinate reductase; Provisional; Region: PRK00048 717231001971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231001972 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 717231001973 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 717231001974 dihydrodipicolinate synthase; Region: dapA; TIGR00674 717231001975 dimer interface [polypeptide binding]; other site 717231001976 active site 717231001977 catalytic residue [active] 717231001978 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 717231001979 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 717231001980 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 717231001981 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 717231001982 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 717231001983 putative substrate-binding site; other site 717231001984 nickel binding site [ion binding]; other site 717231001985 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 717231001986 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 717231001987 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 717231001988 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 717231001989 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 717231001990 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 717231001991 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 717231001992 S-adenosylmethionine binding site [chemical binding]; other site 717231001993 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 717231001994 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 717231001995 active site 717231001996 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 717231001997 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 717231001998 active site 717231001999 motif I; other site 717231002000 motif II; other site 717231002001 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 717231002002 fumarate hydratase; Reviewed; Region: fumC; PRK00485 717231002003 aspartase (L-aspartate ammonia-lyase) and fumarase class II enzymes; Region: Aspartase_like; cd01596 717231002004 active sites [active] 717231002005 tetramer interface [polypeptide binding]; other site 717231002006 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 717231002007 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 717231002008 putative active site [active] 717231002009 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002010 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 717231002011 dimer interface [polypeptide binding]; other site 717231002012 active site 717231002013 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 717231002014 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 717231002015 active site 717231002016 nucleotide binding site [chemical binding]; other site 717231002017 HIGH motif; other site 717231002018 KMSKS motif; other site 717231002019 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 717231002020 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 717231002021 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 717231002022 ATP binding site [chemical binding]; other site 717231002023 putative Mg++ binding site [ion binding]; other site 717231002024 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 717231002025 nucleotide binding region [chemical binding]; other site 717231002026 ATP-binding site [chemical binding]; other site 717231002027 TRCF domain; Region: TRCF; cl04088 717231002028 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 717231002029 PPIC-type PPIASE domain; Region: Rotamase; cl08278 717231002030 SurA N-terminal domain; Region: SurA_N_3; cl07813 717231002031 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 717231002032 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 717231002033 HflX GTPase family; Region: HflX; cd01878 717231002034 G1 box; other site 717231002035 GTP/Mg2+ binding site [chemical binding]; other site 717231002036 Switch I region; other site 717231002037 G2 box; other site 717231002038 G3 box; other site 717231002039 Switch II region; other site 717231002040 G4 box; other site 717231002041 G5 box; other site 717231002042 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002043 active site 717231002044 phosphorylation site [posttranslational modification] 717231002045 intermolecular recognition site; other site 717231002046 dimerization interface [polypeptide binding]; other site 717231002047 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 717231002048 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 717231002049 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 717231002050 COGs: COG5421 Transposase; InterPro IPR002559; KEGG: msv:Mesil_3173 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002051 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231002052 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 717231002053 dinuclear metal binding motif [ion binding]; other site 717231002054 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 717231002055 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002056 putative inner membrane protein; Provisional; Region: PRK11099 717231002057 Sulphur transport; Region: Sulf_transp; cl01018 717231002058 putative inner membrane protein; Provisional; Region: PRK11099 717231002059 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 717231002060 CPxP motif; other site 717231002061 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231002062 PAS domain; Region: PAS_9; pfam13426 717231002063 PAS domain S-box; Region: sensory_box; TIGR00229 717231002064 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 717231002065 putative active site [active] 717231002066 heme pocket [chemical binding]; other site 717231002067 sensory histidine kinase AtoS; Provisional; Region: PRK11360 717231002068 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 717231002069 ATP binding site [chemical binding]; other site 717231002070 Mg2+ binding site [ion binding]; other site 717231002071 G-X-G motif; other site 717231002072 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002074 active site 717231002075 phosphorylation site [posttranslational modification] 717231002076 intermolecular recognition site; other site 717231002077 dimerization interface [polypeptide binding]; other site 717231002078 ResB-like family; Region: ResB; pfam05140 717231002079 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 717231002080 Fumarase C-terminus; Region: Fumerase_C; cl00795 717231002081 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 717231002082 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 717231002083 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 717231002084 substrate binding site [chemical binding]; other site 717231002085 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 717231002086 substrate binding site [chemical binding]; other site 717231002087 ligand binding site [chemical binding]; other site 717231002088 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 717231002089 malate dehydrogenase; Reviewed; Region: PRK06223 717231002090 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 717231002091 NAD(P) binding site [chemical binding]; other site 717231002092 dimer interface [polypeptide binding]; other site 717231002093 tetramer (dimer of dimers) interface [polypeptide binding]; other site 717231002094 substrate binding site [chemical binding]; other site 717231002095 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 717231002096 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231002097 CoA-ligase; Region: Ligase_CoA; cl02894 717231002098 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 717231002099 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002100 CoA-ligase; Region: Ligase_CoA; cl02894 717231002101 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231002102 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231002103 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated; Region: PRK08659 717231002104 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 717231002105 dimer interface [polypeptide binding]; other site 717231002106 PYR/PP interface [polypeptide binding]; other site 717231002107 TPP binding site [chemical binding]; other site 717231002108 substrate binding site [chemical binding]; other site 717231002109 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 717231002110 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 717231002111 TPP-binding site [chemical binding]; other site 717231002112 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231002113 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231002114 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 717231002115 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 717231002116 succinate dehydrogenase, flavoprotein subunit, E. coli/mitochondrial subgroup; Region: sdhA_forward; TIGR01816 717231002117 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002118 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 717231002119 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 717231002120 Iron-sulfur protein interface; other site 717231002121 proximal heme binding site [chemical binding]; other site 717231002122 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002123 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002124 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 717231002125 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 717231002126 ATP binding site [chemical binding]; other site 717231002127 Mg++ binding site [ion binding]; other site 717231002128 motif III; other site 717231002129 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 717231002130 nucleotide binding region [chemical binding]; other site 717231002131 ATP-binding site [chemical binding]; other site 717231002132 DbpA RNA binding domain; Region: DbpA; pfam03880 717231002133 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 717231002134 active site clefts [active] 717231002135 zinc binding site [ion binding]; other site 717231002136 dimer interface [polypeptide binding]; other site 717231002137 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 717231002138 active site 717231002139 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 717231002140 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231002141 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 717231002142 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 717231002143 Cupin domain; Region: Cupin_2; cl09118 717231002144 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231002145 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 717231002146 Transcriptional regulators [Transcription]; Region: GntR; COG1802 717231002147 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002148 DNA-binding site [nucleotide binding]; DNA binding site 717231002149 FCD domain; Region: FCD; cl11656 717231002150 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 717231002151 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; cl15377 717231002152 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 717231002153 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 717231002154 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 717231002155 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 717231002156 dihydroorotase; Validated; Region: pyrC; PRK09357 717231002157 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 717231002158 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 717231002159 active site 717231002160 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 717231002161 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 717231002162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002163 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231002164 active site 717231002165 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 717231002166 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 717231002167 phosphate binding site [ion binding]; other site 717231002168 Transposase domain (DUF772); Region: DUF772; cl15789 717231002169 Transposase domain (DUF772); Region: DUF772; cl15789 717231002170 2-isopropylmalate synthase; Validated; Region: PRK00915 717231002171 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 717231002172 active site 717231002173 catalytic residues [active] 717231002174 metal binding site [ion binding]; metal-binding site 717231002175 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 717231002176 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 717231002177 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 717231002178 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 717231002179 Transposase domain (DUF772); Region: DUF772; cl15789 717231002180 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002181 Transposase domain (DUF772); Region: DUF772; cl15789 717231002182 ketol-acid reductoisomerase; Provisional; Region: PRK05479 717231002183 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002184 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 717231002185 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 717231002186 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 717231002187 putative valine binding site [chemical binding]; other site 717231002188 dimer interface [polypeptide binding]; other site 717231002189 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 717231002190 acetolactate synthase 3 catalytic subunit; Reviewed; Region: PRK06048 717231002191 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 717231002192 PYR/PP interface [polypeptide binding]; other site 717231002193 dimer interface [polypeptide binding]; other site 717231002194 TPP binding site [chemical binding]; other site 717231002195 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 717231002196 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 717231002197 TPP-binding site [chemical binding]; other site 717231002198 dimer interface [polypeptide binding]; other site 717231002199 Dehydratase family; Region: ILVD_EDD; cl00340 717231002200 6-phosphogluconate dehydratase; Region: edd; TIGR01196 717231002201 Helix-turn-helix domains; Region: HTH; cl00088 717231002202 putative transposase OrfB; Reviewed; Region: PHA02517 717231002203 Integrase core domain; Region: rve; cl01316 717231002204 Integrase core domain; Region: rve_3; cl15866 717231002205 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 717231002206 glutaminase active site [active] 717231002207 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 717231002208 Transposase domain (DUF772); Region: DUF772; cl15789 717231002209 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002210 Transposase domain (DUF772); Region: DUF772; cl15789 717231002211 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002212 Helix-turn-helix domains; Region: HTH; cl00088 717231002213 Integrase core domain; Region: rve; cl01316 717231002214 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 717231002215 Transposase domain (DUF772); Region: DUF772; cl15789 717231002216 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002217 Transposase domain (DUF772); Region: DUF772; cl15789 717231002218 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 717231002219 transposase/IS protein; Provisional; Region: PRK09183 717231002220 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 717231002221 Walker A motif; other site 717231002222 ATP binding site [chemical binding]; other site 717231002223 Walker B motif; other site 717231002224 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002225 Integrase core domain; Region: rve; cl01316 717231002226 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002227 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 717231002228 polysaccharide export protein Wza; Provisional; Region: PRK15078 717231002229 SLBB domain; Region: SLBB; pfam10531 717231002230 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002231 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002232 SLBB domain; Region: SLBB; pfam10531 717231002233 SLBB domain; Region: SLBB; pfam10531 717231002234 SLBB domain; Region: SLBB; pfam10531 717231002235 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 717231002236 hypothetical protein; Provisional; Region: PRK11820 717231002237 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 717231002238 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 717231002239 Chain length determinant protein; Region: Wzz; cl15801 717231002240 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 717231002241 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 717231002242 putative catalytic motif [active] 717231002243 Membrane protein of unknown function; Region: DUF360; cl00850 717231002244 Domain of unknown function (DUF1820); Region: DUF1820; cl11545 717231002245 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 717231002246 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 717231002247 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 717231002248 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 717231002249 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 717231002250 tartrate dehydrogenase; Provisional; Region: PRK08194 717231002251 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 717231002252 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 717231002253 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231002254 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 717231002255 Cysteine-rich domain; Region: CCG; pfam02754 717231002256 Cysteine-rich domain; Region: CCG; pfam02754 717231002257 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 717231002258 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231002259 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231002260 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231002261 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231002262 DctM-like transporters; Region: DctM; pfam06808 717231002263 FAD binding domain; Region: FAD_binding_4; pfam01565 717231002264 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 717231002265 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 717231002266 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 717231002267 Cysteine-rich domain; Region: CCG; pfam02754 717231002268 Cysteine-rich domain; Region: CCG; pfam02754 717231002269 Transcriptional regulators [Transcription]; Region: FadR; COG2186 717231002270 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002271 DNA-binding site [nucleotide binding]; DNA binding site 717231002272 FCD domain; Region: FCD; cl11656 717231002273 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 717231002274 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 717231002275 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 717231002276 dimer interface [polypeptide binding]; other site 717231002277 PYR/PP interface [polypeptide binding]; other site 717231002278 TPP binding site [chemical binding]; other site 717231002279 substrate binding site [chemical binding]; other site 717231002280 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231002281 Domain of unknown function; Region: EKR; cl11037 717231002282 4Fe-4S binding domain; Region: Fer4; cl02805 717231002283 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 717231002284 TPP-binding site [chemical binding]; other site 717231002285 dimer interface [polypeptide binding]; other site 717231002286 AMP-binding domain protein; Validated; Region: PRK08315 717231002287 AMP-binding enzyme; Region: AMP-binding; cl15778 717231002288 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 717231002289 Nitrogen regulatory protein P-II; Region: P-II; cl00412 717231002290 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231002291 glutamine synthetase, type I; Region: GlnA; TIGR00653 717231002292 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 717231002293 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 717231002294 CheD chemotactic sensory transduction; Region: CheD; cl00810 717231002295 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 717231002296 PAS fold; Region: PAS_7; pfam12860 717231002297 PAS domain S-box; Region: sensory_box; TIGR00229 717231002298 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231002299 PAS domain S-box; Region: sensory_box; TIGR00229 717231002300 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 717231002301 putative active site [active] 717231002302 heme pocket [chemical binding]; other site 717231002303 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 717231002304 PAS fold; Region: PAS_3; pfam08447 717231002305 putative active site [active] 717231002306 heme pocket [chemical binding]; other site 717231002307 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 717231002308 NMT1-like family; Region: NMT1_2; cl15260 717231002309 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 717231002310 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 717231002311 dimer interface [polypeptide binding]; other site 717231002312 phosphorylation site [posttranslational modification] 717231002313 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 717231002314 ATP binding site [chemical binding]; other site 717231002315 Mg2+ binding site [ion binding]; other site 717231002316 G-X-G motif; other site 717231002317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002318 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002319 active site 717231002320 phosphorylation site [posttranslational modification] 717231002321 intermolecular recognition site; other site 717231002322 dimerization interface [polypeptide binding]; other site 717231002323 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002325 active site 717231002326 phosphorylation site [posttranslational modification] 717231002327 intermolecular recognition site; other site 717231002328 dimerization interface [polypeptide binding]; other site 717231002329 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002330 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002331 active site 717231002332 phosphorylation site [posttranslational modification] 717231002333 intermolecular recognition site; other site 717231002334 dimerization interface [polypeptide binding]; other site 717231002335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231002336 metal binding site [ion binding]; metal-binding site 717231002337 active site 717231002338 I-site; other site 717231002339 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231002340 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002341 active site 717231002342 phosphorylation site [posttranslational modification] 717231002343 intermolecular recognition site; other site 717231002344 dimerization interface [polypeptide binding]; other site 717231002345 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231002346 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 717231002347 putative active site [active] 717231002348 heme pocket [chemical binding]; other site 717231002349 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 717231002350 dimer interface [polypeptide binding]; other site 717231002351 phosphorylation site [posttranslational modification] 717231002352 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 717231002353 ATP binding site [chemical binding]; other site 717231002354 Mg2+ binding site [ion binding]; other site 717231002355 G-X-G motif; other site 717231002356 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002357 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002358 active site 717231002359 phosphorylation site [posttranslational modification] 717231002360 intermolecular recognition site; other site 717231002361 dimerization interface [polypeptide binding]; other site 717231002362 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 717231002363 Transposase domain (DUF772); Region: DUF772; cl15789 717231002364 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002365 Transposase domain (DUF772); Region: DUF772; cl15789 717231002366 Transcriptional regulators [Transcription]; Region: FadR; COG2186 717231002367 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231002368 DNA-binding site [nucleotide binding]; DNA binding site 717231002369 FCD domain; Region: FCD; cl11656 717231002370 choline dehydrogenase; Validated; Region: PRK02106 717231002371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002372 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 717231002373 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 717231002374 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231002375 tetramerization interface [polypeptide binding]; other site 717231002376 NAD(P) binding site [chemical binding]; other site 717231002377 catalytic residues [active] 717231002378 NMT1-like family; Region: NMT1_2; cl15260 717231002379 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 717231002380 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 717231002381 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 717231002382 FeS/SAM binding site; other site 717231002383 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 717231002384 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 717231002385 ATP cone domain; Region: ATP-cone; pfam03477 717231002386 Class III ribonucleotide reductase; Region: RNR_III; cd01675 717231002387 effector binding site; other site 717231002388 active site 717231002389 Zn binding site [ion binding]; other site 717231002390 Helix-turn-helix domains; Region: HTH; cl00088 717231002391 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 717231002392 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002393 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 717231002394 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 717231002395 inhibitor-cofactor binding pocket; inhibition site 717231002396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002397 catalytic residue [active] 717231002398 AAA domain; Region: AAA_26; pfam13500 717231002399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002400 biotin synthase; Region: bioB; TIGR00433 717231002401 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 717231002402 FeS/SAM binding site; other site 717231002403 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 717231002404 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 717231002405 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 717231002406 substrate-cofactor binding pocket; other site 717231002407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002408 catalytic residue [active] 717231002409 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 717231002410 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 717231002411 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 717231002412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002413 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 717231002414 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 717231002415 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 717231002416 Sulfatase; Region: Sulfatase; cl10460 717231002417 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 717231002418 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 717231002419 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231002420 active site 717231002421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002422 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 717231002423 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 717231002424 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 717231002425 Phosphoglycerate kinase; Region: PGK; pfam00162 717231002426 substrate binding site [chemical binding]; other site 717231002427 hinge regions; other site 717231002428 ADP binding site [chemical binding]; other site 717231002429 catalytic site [active] 717231002430 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 717231002431 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 717231002432 active site 717231002433 HIGH motif; other site 717231002434 nucleotide binding site [chemical binding]; other site 717231002435 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 717231002436 active site 717231002437 KMSKS motif; other site 717231002438 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 717231002439 tRNA binding surface [nucleotide binding]; other site 717231002440 anticodon binding site; other site 717231002441 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 717231002442 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 717231002443 lipoprotein signal peptidase; Provisional; Region: PRK14787 717231002444 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 717231002445 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 717231002446 purine monophosphate binding site [chemical binding]; other site 717231002447 dimer interface [polypeptide binding]; other site 717231002448 putative catalytic residues [active] 717231002449 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 717231002450 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 717231002451 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 717231002452 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 717231002453 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231002454 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 717231002455 AIR carboxylase; Region: AIRC; cl00310 717231002456 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 717231002457 acetylornithine deacetylase; Provisional; Region: PRK08652 717231002458 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 717231002459 metal binding site [ion binding]; metal-binding site 717231002460 dimer interface [polypeptide binding]; other site 717231002461 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 717231002462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231002463 Coenzyme A binding pocket [chemical binding]; other site 717231002464 Sel1 repeat; Region: Sel1; cl02723 717231002465 Sel1 repeat; Region: Sel1; cl02723 717231002466 Sel1 repeat; Region: Sel1; cl02723 717231002467 Sel1 repeat; Region: Sel1; cl02723 717231002468 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 717231002469 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 717231002470 NAD binding site [chemical binding]; other site 717231002471 substrate binding site [chemical binding]; other site 717231002472 homodimer interface [polypeptide binding]; other site 717231002473 active site 717231002474 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 717231002475 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 717231002476 NADP binding site [chemical binding]; other site 717231002477 active site 717231002478 putative substrate binding site [chemical binding]; other site 717231002479 manually curated 717231002480 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 717231002481 leucine ABC transporter subunit substrate-binding protein LivK; Provisional; Region: PRK15404 717231002482 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 717231002483 dimerization interface [polypeptide binding]; other site 717231002484 ligand binding site [chemical binding]; other site 717231002485 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 717231002486 TM-ABC transporter signature motif; other site 717231002487 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 717231002488 TM-ABC transporter signature motif; other site 717231002489 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 717231002490 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 717231002491 Walker A/P-loop; other site 717231002492 ATP binding site [chemical binding]; other site 717231002493 Q-loop/lid; other site 717231002494 ABC transporter signature motif; other site 717231002495 Walker B; other site 717231002496 D-loop; other site 717231002497 H-loop/switch region; other site 717231002498 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231002499 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 717231002500 Walker A/P-loop; other site 717231002501 ATP binding site [chemical binding]; other site 717231002502 Q-loop/lid; other site 717231002503 ABC transporter signature motif; other site 717231002504 Walker B; other site 717231002505 D-loop; other site 717231002506 H-loop/switch region; other site 717231002507 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 717231002508 Transposase domain (DUF772); Region: DUF772; cl15789 717231002509 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231002510 Transposase domain (DUF772); Region: DUF772; cl15789 717231002511 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 717231002512 DHH family; Region: DHH; pfam01368 717231002513 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 717231002514 OstA-like protein; Region: OstA; cl00844 717231002515 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 717231002516 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 717231002517 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 717231002518 InterPro IPR002559; KEGG: cni:Calni_2037 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231002519 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002520 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 717231002521 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 717231002522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231002523 Coenzyme A binding pocket [chemical binding]; other site 717231002524 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 717231002525 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 717231002526 inhibitor-cofactor binding pocket; inhibition site 717231002527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231002528 catalytic residue [active] 717231002529 Cupin domain; Region: Cupin_2; cl09118 717231002530 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002531 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 717231002532 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231002533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002534 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002535 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002536 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 717231002537 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 717231002538 transposase/IS protein; Provisional; Region: PRK09183 717231002539 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 717231002540 Walker A motif; other site 717231002541 ATP binding site [chemical binding]; other site 717231002542 Walker B motif; other site 717231002544 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 717231002545 protein binding site [polypeptide binding]; other site 717231002546 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 717231002547 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 717231002548 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 717231002549 Type II/IV secretion system protein; Region: T2SE; pfam00437 717231002550 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 717231002551 Walker A motif; other site 717231002552 ATP binding site [chemical binding]; other site 717231002553 Walker B motif; other site 717231002554 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 717231002555 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 717231002556 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 717231002557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002558 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002559 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002560 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 717231002561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002562 active site 717231002563 phosphorylation site [posttranslational modification] 717231002564 intermolecular recognition site; other site 717231002565 dimerization interface [polypeptide binding]; other site 717231002566 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 717231002567 DNA binding site [nucleotide binding] 717231002568 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 717231002569 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 717231002570 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 717231002571 hypothetical protein; Provisional; Region: PRK10557 717231002572 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 717231002573 transposase/IS protein; Provisional; Region: PRK09183 717231002574 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 717231002575 Walker A motif; other site 717231002576 ATP binding site [chemical binding]; other site 717231002577 Walker B motif; other site 717231002578 arginine finger; other site 717231002579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231002580 Helix-turn-helix domains; Region: HTH; cl00088 717231002581 Integrase core domain; Region: rve; cl01316 717231002582 Transposase domain (DUF772); Region: DUF772; cl15789 717231002583 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231002584 Transposase domain (DUF772); Region: DUF772; cl15789 717231002585 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 717231002586 non-specific DNA binding site [nucleotide binding]; other site 717231002587 salt bridge; other site 717231002588 sequence-specific DNA binding site [nucleotide binding]; other site 717231002589 HipA N-terminal domain; Region: Couple_hipA; cl11853 717231002590 HipA-like N-terminal domain; Region: HipA_N; pfam07805 717231002591 HipA-like C-terminal domain; Region: HipA_C; pfam07804 717231002592 Transcriptional regulators [Transcription]; Region: MarR; COG1846 717231002593 Helix-turn-helix domains; Region: HTH; cl00088 717231002594 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 717231002595 Malic enzyme, N-terminal domain; Region: malic; pfam00390 717231002596 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 717231002597 putative NAD(P) binding site [chemical binding]; other site 717231002598 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 717231002599 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 717231002600 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 717231002601 Int/Topo IB signature motif; other site 717231002602 active site 717231002603 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 717231002604 DHH family; Region: DHH; pfam01368 717231002605 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 717231002606 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002607 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 717231002608 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 717231002609 active site 717231002610 NTP binding site [chemical binding]; other site 717231002611 metal binding triad [ion binding]; metal-binding site 717231002612 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 717231002613 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002614 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 717231002615 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 717231002616 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 717231002617 active site 717231002618 Domain of unknown function DUF21; Region: DUF21; pfam01595 717231002619 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 717231002620 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 717231002621 Transporter associated domain; Region: CorC_HlyC; cl08393 717231002622 GTPase Era; Reviewed; Region: era; PRK00089 717231002623 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 717231002624 G1 box; other site 717231002625 GTP/Mg2+ binding site [chemical binding]; other site 717231002626 Switch I region; other site 717231002627 G2 box; other site 717231002628 Switch II region; other site 717231002629 G3 box; other site 717231002630 G4 box; other site 717231002631 G5 box; other site 717231002632 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 717231002633 Recombination protein O N terminal; Region: RecO_N; cl15812 717231002634 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231002635 Transposase domain (DUF772); Region: DUF772; cl15789 717231002636 Transposase domain (DUF772); Region: DUF772; cl15789 717231002637 manually curated 717231002638 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 717231002639 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 717231002640 Transcriptional regulator [Transcription]; Region: IclR; COG1414 717231002641 Helix-turn-helix domains; Region: HTH; cl00088 717231002642 Bacterial transcriptional regulator; Region: IclR; pfam01614 717231002643 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 717231002644 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231002645 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 717231002646 ATP binding site [chemical binding]; other site 717231002647 Mg2+ binding site [ion binding]; other site 717231002648 G-X-G motif; other site 717231002649 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 717231002650 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002651 active site 717231002652 phosphorylation site [posttranslational modification] 717231002653 intermolecular recognition site; other site 717231002654 dimerization interface [polypeptide binding]; other site 717231002655 Transcriptional regulator; Region: CitT; pfam12431 717231002656 Helix-turn-helix domains; Region: HTH; cl00088 717231002657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 717231002658 NMT1-like family; Region: NMT1_2; cl15260 717231002659 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 717231002660 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 717231002661 active site 717231002662 substrate binding site [chemical binding]; other site 717231002663 cosubstrate binding site; other site 717231002664 catalytic site [active] 717231002665 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 717231002666 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 717231002667 LemA family; Region: LemA; cl00742 717231002668 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231002669 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231002670 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 717231002671 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 717231002672 dimer interface [polypeptide binding]; other site 717231002673 PYR/PP interface [polypeptide binding]; other site 717231002674 TPP binding site [chemical binding]; other site 717231002675 substrate binding site [chemical binding]; other site 717231002676 2-oxoacid ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11869 717231002677 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 717231002678 TPP-binding site [chemical binding]; other site 717231002679 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 717231002680 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 717231002681 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 717231002682 AMP-binding enzyme; Region: AMP-binding; cl15778 717231002683 AMP-binding enzyme; Region: AMP-binding; cl15778 717231002684 FOG: CBS domain [General function prediction only]; Region: COG0517 717231002685 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 717231002686 Uncharacterized ArCR, COG2043; Region: DUF169; cl00894 717231002687 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 717231002688 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 717231002689 dimer interface [polypeptide binding]; other site 717231002690 putative anticodon binding site; other site 717231002691 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 717231002692 motif 1; other site 717231002693 active site 717231002694 motif 2; other site 717231002695 motif 3; other site 717231002696 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 717231002697 active site 717231002698 metal binding site [ion binding]; metal-binding site 717231002699 homotetramer interface [polypeptide binding]; other site 717231002700 rod shape-determining protein MreB; Provisional; Region: PRK13927 717231002701 Cell division protein FtsA; Region: FtsA; cl11496 717231002702 rod shape-determining protein MreC; Region: MreC; pfam04085 717231002703 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 717231002704 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 717231002705 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 717231002706 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 717231002707 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 717231002708 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 717231002709 FeS/SAM binding site; other site 717231002710 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 717231002711 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; cl02090 717231002712 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 717231002713 metal binding site 2 [ion binding]; metal-binding site 717231002714 putative DNA binding helix; other site 717231002715 metal binding site 1 [ion binding]; metal-binding site 717231002716 dimer interface [polypeptide binding]; other site 717231002717 structural Zn2+ binding site [ion binding]; other site 717231002718 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 717231002719 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 717231002720 catalytic residues [active] 717231002721 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 717231002722 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 717231002723 IHF - DNA interface [nucleotide binding]; other site 717231002724 IHF dimer interface [polypeptide binding]; other site 717231002725 MviN-like protein; Region: MVIN; pfam03023 717231002726 MatE; Region: MatE; cl10513 717231002727 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 717231002728 putative active site [active] 717231002729 dimerization interface [polypeptide binding]; other site 717231002730 putative tRNAtyr binding site [nucleotide binding]; other site 717231002731 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231002732 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 717231002733 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 717231002734 Active_site [active] 717231002735 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231002736 nucleophile elbow; other site 717231002737 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 717231002738 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 717231002739 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 717231002740 motif II; other site 717231002741 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 717231002742 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 717231002743 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 717231002744 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231002745 catalytic residue [active] 717231002746 YGGT family; Region: YGGT; cl00508 717231002747 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 717231002748 putative active site [active] 717231002749 TRAM domain; Region: TRAM; cl01282 717231002750 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 717231002751 substrate binding site; other site 717231002752 dimer interface; other site 717231002753 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 717231002754 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 717231002755 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 717231002756 FMN binding site [chemical binding]; other site 717231002757 substrate binding site [chemical binding]; other site 717231002758 putative catalytic residue [active] 717231002759 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231002760 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231002761 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231002762 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231002763 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 717231002764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002765 NAD(P) binding site [chemical binding]; other site 717231002766 active site 717231002767 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 717231002768 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 717231002769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231002770 metal binding site [ion binding]; metal-binding site 717231002771 active site 717231002772 I-site; other site 717231002773 B12 binding domain; Region: B12-binding_2; cl03653 717231002774 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 717231002775 B12 binding site [chemical binding]; other site 717231002776 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 717231002777 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 717231002778 P loop; other site 717231002779 Nucleotide binding site [chemical binding]; other site 717231002780 DTAP/Switch II; other site 717231002781 Switch I; other site 717231002782 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 717231002783 Transposase domain (DUF772); Region: DUF772; cl15789 717231002784 Transposase domain (DUF772); Region: DUF772; cl15789 717231002785 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 717231002786 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 717231002787 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 717231002788 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002789 chromosome segregation protein; Provisional; Region: PRK03918 717231002790 cell division protein MukB; Provisional; Region: mukB; PRK04863 717231002791 Herpes virus tegument protein U30; Region: Herpes_U30; pfam04523 717231002793 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 717231002794 Helix-turn-helix domains; Region: HTH; cl00088 717231002795 Helix-turn-helix domains; Region: HTH; cl00088 717231002796 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231002797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231002798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231002799 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 717231002800 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 717231002801 G1 box; other site 717231002802 putative GEF interaction site [polypeptide binding]; other site 717231002803 GTP/Mg2+ binding site [chemical binding]; other site 717231002804 Switch I region; other site 717231002805 G2 box; other site 717231002806 G3 box; other site 717231002807 Switch II region; other site 717231002808 G4 box; other site 717231002809 G5 box; other site 717231002810 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 717231002811 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231002812 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 717231002813 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 717231002814 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231002815 dimer interface [polypeptide binding]; other site 717231002816 conserved gate region; other site 717231002817 putative PBP binding loops; other site 717231002818 ABC-ATPase subunit interface; other site 717231002819 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 717231002820 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 717231002821 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 717231002822 Walker A/P-loop; other site 717231002823 ATP binding site [chemical binding]; other site 717231002824 Q-loop/lid; other site 717231002825 ABC transporter signature motif; other site 717231002826 Walker B; other site 717231002827 D-loop; other site 717231002828 H-loop/switch region; other site 717231002829 TOBE domain; Region: TOBE_2; cl01440 717231002830 KEGG: ddf:DEFDS_1305 4-amino-4-deoxychorismate lyase; SPTR: 4-amino-4-deoxychorismate lyase 717231002831 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 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 717231002832 chorismate binding enzyme; Region: Chorismate_bind; cl10555 717231002833 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 717231002834 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 717231002835 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231002836 Archaeal ATPase; Region: Arch_ATPase; pfam01637 717231002837 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002838 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 717231002839 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231002840 Protein of unknown function DUF262; Region: DUF262; cl14890 717231002841 Protein of unknown function DUF262; Region: DUF262; cl14890 717231002842 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231002843 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 717231002844 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 717231002845 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 717231002846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002847 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 717231002848 CRISPR-associated protein Cas5, subtype I-B/TNEAP; Region: cas_Cas5t; TIGR01895 717231002849 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 717231002850 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I; cl00803 717231002851 CRISPR/Cas system-associated protein Cas8a1; Region: Cas8a1_I-A; cl09909 717231002852 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 717231002853 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 717231002854 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 717231002855 putative substrate-binding site; other site 717231002856 nickel binding site [ion binding]; other site 717231002857 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 717231002858 Polysulphide reductase, NrfD; Region: NrfD; cl01295 717231002859 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 717231002860 4Fe-4S binding domain; Region: Fer4; cl02805 717231002861 hydrogenase 2 small subunit; Provisional; Region: PRK10468 717231002862 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 717231002863 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 717231002864 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 717231002865 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231002866 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 717231002867 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002868 Walker A motif; other site 717231002869 ATP binding site [chemical binding]; other site 717231002870 Walker B motif; other site 717231002871 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 717231002872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002873 DEAD_2; Region: DEAD_2; pfam06733 717231002874 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231002875 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 717231002876 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 717231002877 active site 717231002878 dimer interface [polypeptide binding]; other site 717231002879 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 717231002880 dimer interface [polypeptide binding]; other site 717231002881 active site 717231002882 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 717231002883 Ligand Binding Site [chemical binding]; other site 717231002884 B3/4 domain; Region: B3_4; cl11458 717231002885 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231002886 active site 717231002887 FtsH Extracellular; Region: FtsH_ext; pfam06480 717231002888 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 717231002889 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 717231002890 Walker A motif; other site 717231002891 ATP binding site [chemical binding]; other site 717231002892 Walker B motif; other site 717231002893 arginine finger; other site 717231002894 Peptidase family M41; Region: Peptidase_M41; pfam01434 717231002895 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 717231002896 dihydropteroate synthase; Region: DHPS; TIGR01496 717231002897 substrate binding pocket [chemical binding]; other site 717231002898 dimer interface [polypeptide binding]; other site 717231002899 inhibitor binding site; inhibition site 717231002900 TIGR00159 family protein; Region: TIGR00159 717231002901 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 717231002902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 717231002903 YbbR-like protein; Region: YbbR; pfam07949 717231002904 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 717231002905 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 717231002906 active site 717231002907 substrate binding site [chemical binding]; other site 717231002908 metal binding site [ion binding]; metal-binding site 717231002909 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 717231002910 active site 717231002911 hydrophilic channel; other site 717231002912 dimerization interface [polypeptide binding]; other site 717231002913 catalytic residues [active] 717231002914 active site lid [active] 717231002915 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 717231002916 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 717231002917 Ligand binding site; other site 717231002918 oligomer interface; other site 717231002919 CTP synthetase; Validated; Region: pyrG; PRK05380 717231002920 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 717231002921 Catalytic site [active] 717231002922 active site 717231002923 UTP binding site [chemical binding]; other site 717231002924 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 717231002925 active site 717231002926 putative oxyanion hole; other site 717231002927 catalytic triad [active] 717231002928 NeuB family; Region: NeuB; cl00496 717231002929 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 717231002930 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 717231002931 putative active site [active] 717231002932 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 717231002933 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 717231002934 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 717231002935 OstA-like protein; Region: OstA; cl00844 717231002936 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 717231002937 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 717231002938 Walker A/P-loop; other site 717231002939 ATP binding site [chemical binding]; other site 717231002940 Q-loop/lid; other site 717231002941 ABC transporter signature motif; other site 717231002942 Walker B; other site 717231002943 D-loop; other site 717231002944 H-loop/switch region; other site 717231002945 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 717231002946 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 717231002947 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 717231002948 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 717231002949 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 717231002950 30S subunit binding site; other site 717231002951 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 717231002952 active site 717231002953 phosphorylation site [posttranslational modification] 717231002954 HPr kinase/phosphorylase; Provisional; Region: PRK05428 717231002955 DRTGG domain; Region: DRTGG; cl12147 717231002956 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 717231002957 Hpr binding site; other site 717231002958 active site 717231002959 homohexamer subunit interaction site [polypeptide binding]; other site 717231002960 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 717231002961 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 717231002962 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 717231002963 active pocket/dimerization site; other site 717231002964 active site 717231002965 phosphorylation site [posttranslational modification] 717231002966 PTS_IIB, PTS system, Mannose/sorbose specific IIB 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_IIB_man; cl00021 717231002967 active site 717231002968 phosphorylation site [posttranslational modification] 717231002969 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 717231002970 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 717231002971 dimerization domain swap beta strand [polypeptide binding]; other site 717231002972 regulatory protein interface [polypeptide binding]; other site 717231002973 active site 717231002974 regulatory phosphorylation site [posttranslational modification]; other site 717231002975 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 717231002976 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 717231002977 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 717231002978 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 717231002979 Response regulator receiver domain; Region: Response_reg; pfam00072 717231002980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231002981 active site 717231002982 phosphorylation site [posttranslational modification] 717231002983 intermolecular recognition site; other site 717231002984 dimerization interface [polypeptide binding]; other site 717231002985 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 717231002986 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 717231002987 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 717231002988 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 717231002989 Putative zinc ribbon domain; Region: DUF164; pfam02591 717231002990 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 717231002991 RNA/DNA hybrid binding site [nucleotide binding]; other site 717231002992 active site 717231002993 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 717231002994 ZIP Zinc transporter; Region: Zip; pfam02535 717231002995 Predicted methyltransferases [General function prediction only]; Region: COG0313 717231002996 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 717231002997 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 717231002998 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231002999 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 717231003000 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231003001 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 717231003002 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 717231003003 dimerization interface [polypeptide binding]; other site 717231003004 active site 717231003005 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 717231003006 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 717231003007 HIGH motif; other site 717231003008 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 717231003009 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 717231003010 active site 717231003011 KMSKS motif; other site 717231003012 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 717231003013 tRNA binding surface [nucleotide binding]; other site 717231003014 anticodon binding site; other site 717231003015 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 717231003016 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 717231003017 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 717231003018 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 717231003019 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 717231003020 putative substrate binding site [chemical binding]; other site 717231003021 putative ATP binding site [chemical binding]; other site 717231003022 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 717231003023 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 717231003024 putative ribose interaction site [chemical binding]; other site 717231003025 putative ADP binding site [chemical binding]; other site 717231003026 Trm112p-like protein; Region: Trm112p; cl01066 717231003027 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003028 DctM-like transporters; Region: DctM; pfam06808 717231003029 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231003030 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231003031 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 717231003032 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003033 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 717231003034 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 717231003035 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 717231003036 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 717231003037 ABC-ATPase subunit interface; other site 717231003038 dimer interface [polypeptide binding]; other site 717231003039 putative PBP binding regions; other site 717231003040 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 717231003041 PAS fold; Region: PAS_4; pfam08448 717231003042 sensory histidine kinase AtoS; Provisional; Region: PRK11360 717231003043 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 717231003044 phosphorylation site [posttranslational modification] 717231003045 dimer interface [polypeptide binding]; other site 717231003046 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 717231003047 ATP binding site [chemical binding]; other site 717231003048 Mg2+ binding site [ion binding]; other site 717231003049 G-X-G motif; other site 717231003050 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003052 active site 717231003053 phosphorylation site [posttranslational modification] 717231003054 intermolecular recognition site; other site 717231003055 dimerization interface [polypeptide binding]; other site 717231003056 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 717231003057 Walker A motif; other site 717231003058 ATP binding site [chemical binding]; other site 717231003059 Walker B motif; other site 717231003060 arginine finger; other site 717231003061 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003062 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 717231003063 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 717231003064 S-adenosylmethionine binding site [chemical binding]; other site 717231003065 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 717231003066 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 717231003067 active site 717231003068 metal binding site [ion binding]; metal-binding site 717231003069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 717231003070 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 717231003071 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 717231003072 nucleoside/Zn binding site; other site 717231003073 dimer interface [polypeptide binding]; other site 717231003074 catalytic motif [active] 717231003075 Helix-turn-helix domains; Region: HTH; cl00088 717231003076 putative transposase OrfB; Reviewed; Region: PHA02517 717231003077 HTH-like domain; Region: HTH_21; pfam13276 717231003078 Integrase core domain; Region: rve; cl01316 717231003079 Integrase core domain; Region: rve_3; cl15866 717231003080 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231003081 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 717231003082 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 717231003083 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 717231003084 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 717231003085 ATP binding site [chemical binding]; other site 717231003086 Mg2+ binding site [ion binding]; other site 717231003087 G-X-G motif; other site 717231003088 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 717231003089 ATP binding site [chemical binding]; other site 717231003090 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 717231003091 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231003092 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 717231003093 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 717231003094 Sm1 motif; other site 717231003095 D3 - B interaction site; other site 717231003096 D1 - D2 interaction site; other site 717231003097 Hfq - Hfq interaction site; other site 717231003098 RNA binding pocket [nucleotide binding]; other site 717231003099 Sm2 motif; other site 717231003100 Domain of unknown function (DUF4416); Region: DUF4416; pfam14385 717231003101 Septum formation initiator; Region: DivIC; cl11433 717231003102 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 717231003103 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 717231003104 generic binding surface II; other site 717231003105 generic binding surface I; other site 717231003106 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 717231003107 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 717231003108 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 717231003109 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 717231003110 Transposase domain (DUF772); Region: DUF772; cl15789 717231003111 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231003112 Transposase domain (DUF772); Region: DUF772; cl15789 717231003113 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 717231003114 Uncharacterized conserved protein [Function unknown]; Region: COG2006 717231003115 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 717231003116 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 717231003117 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 717231003118 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 717231003119 catalytic motif [active] 717231003120 Zn binding site [ion binding]; other site 717231003121 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 717231003122 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 717231003123 Lumazine binding domain; Region: Lum_binding; pfam00677 717231003124 Lumazine binding domain; Region: Lum_binding; pfam00677 717231003125 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 717231003126 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 717231003127 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 717231003128 dimerization interface [polypeptide binding]; other site 717231003129 active site 717231003130 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 717231003131 homopentamer interface [polypeptide binding]; other site 717231003132 active site 717231003133 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 717231003134 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 717231003135 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 717231003136 generic binding surface I; other site 717231003137 generic binding surface II; other site 717231003138 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231003139 Zn2+ binding site [ion binding]; other site 717231003140 Mg2+ binding site [ion binding]; other site 717231003141 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 717231003142 Permease family; Region: Xan_ur_permease; pfam00860 717231003143 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231003144 active site 717231003145 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 717231003146 Major Facilitator Superfamily; Region: MFS_1; pfam07690 717231003147 putative substrate translocation pore; other site 717231003148 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 717231003149 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 717231003150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003151 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 717231003152 putative L-serine binding site [chemical binding]; other site 717231003153 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 717231003154 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 717231003155 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 717231003156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 717231003157 putative cation:proton antiport protein; Provisional; Region: PRK10669 717231003158 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 717231003159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003160 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; cl15357 717231003161 threonine dehydratase; Provisional; Region: PRK08198 717231003162 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 717231003163 tetramer interface [polypeptide binding]; other site 717231003164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231003165 catalytic residue [active] 717231003166 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 717231003167 Transposase domain (DUF772); Region: DUF772; cl15789 717231003168 Transposase domain (DUF772); Region: DUF772; cl15789 717231003169 Helix-turn-helix domains; Region: HTH; cl00088 717231003170 LexA repressor; Validated; Region: PRK00215 717231003171 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 717231003172 Catalytic site [active] 717231003173 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 717231003174 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 717231003175 active site 717231003176 DNA binding site [nucleotide binding] 717231003177 4Fe-4S binding domain; Region: Fer4; cl02805 717231003178 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 717231003179 4Fe-4S binding domain; Region: Fer4; cl02805 717231003180 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 717231003181 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 717231003182 hypothetical protein; Provisional; Region: PRK13795 717231003183 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 717231003184 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 717231003185 formate dehydrogenase, alpha subunit, proteobacterial-type; Region: formate-DH-alph; TIGR01553 717231003186 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 717231003187 [4Fe-4S] binding site [ion binding]; other site 717231003188 molybdopterin cofactor binding site; other site 717231003189 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 717231003190 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 717231003191 molybdopterin cofactor binding site; other site 717231003192 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231003193 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 717231003194 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 717231003195 Transposase domain (DUF772); Region: DUF772; cl15789 717231003196 Transposase domain (DUF772); Region: DUF772; cl15789 717231003197 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 717231003198 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 717231003199 active site 717231003200 Zn binding site [ion binding]; other site 717231003201 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 717231003202 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 717231003203 dimerization interface [polypeptide binding]; other site 717231003204 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 717231003205 ATP binding site [chemical binding]; other site 717231003206 Mg2+ binding site [ion binding]; other site 717231003207 G-X-G motif; other site 717231003208 Chemotaxis phosphatase CheX; Region: CheX; cl15816 717231003209 Response regulator receiver domain; Region: Response_reg; pfam00072 717231003210 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003211 active site 717231003212 phosphorylation site [posttranslational modification] 717231003213 intermolecular recognition site; other site 717231003214 dimerization interface [polypeptide binding]; other site 717231003215 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231003216 metal binding site [ion binding]; metal-binding site 717231003217 active site 717231003218 I-site; other site 717231003219 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231003220 4Fe-4S binding domain; Region: Fer4_5; pfam12801 717231003221 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 717231003222 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 717231003223 Ligand Binding Site [chemical binding]; other site 717231003224 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 717231003225 active site 717231003226 ADP/pyrophosphate binding site [chemical binding]; other site 717231003227 dimerization interface [polypeptide binding]; other site 717231003228 allosteric effector site; other site 717231003229 fructose-1,6-bisphosphate binding site; other site 717231003230 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 717231003231 GatB domain; Region: GatB_Yqey; cl11497 717231003232 Colicin V production protein; Region: Colicin_V; cl00567 717231003233 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 717231003234 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231003235 Walker A/P-loop; other site 717231003236 ATP binding site [chemical binding]; other site 717231003237 Q-loop/lid; other site 717231003238 ABC transporter signature motif; other site 717231003239 Walker B; other site 717231003240 D-loop; other site 717231003241 H-loop/switch region; other site 717231003242 Smr domain; Region: Smr; cl02619 717231003243 Helix-turn-helix domains; Region: HTH; cl00088 717231003244 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 717231003245 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 717231003246 Esterase/lipase [General function prediction only]; Region: COG1647 717231003247 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 717231003248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003249 Helix-turn-helix domains; Region: HTH; cl00088 717231003250 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 717231003251 Predicted permease [General function prediction only]; Region: COG2985 717231003252 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 717231003253 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; cl15357 717231003254 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 717231003255 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231003256 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003257 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 717231003258 LysE type translocator; Region: LysE; cl00565 717231003259 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 717231003260 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 717231003261 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 717231003262 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 717231003263 Walker A/P-loop; other site 717231003264 ATP binding site [chemical binding]; other site 717231003265 Q-loop/lid; other site 717231003266 ABC transporter signature motif; other site 717231003267 Walker B; other site 717231003268 D-loop; other site 717231003269 H-loop/switch region; other site 717231003270 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 717231003271 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231003272 dimer interface [polypeptide binding]; other site 717231003273 conserved gate region; other site 717231003274 ABC-ATPase subunit interface; other site 717231003275 NMT1-like family; Region: NMT1_2; cl15260 717231003276 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 717231003277 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 717231003278 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231003279 Walker A/P-loop; other site 717231003280 ATP binding site [chemical binding]; other site 717231003281 Q-loop/lid; other site 717231003282 ABC transporter signature motif; other site 717231003283 Walker B; other site 717231003284 D-loop; other site 717231003285 H-loop/switch region; other site 717231003286 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231003287 DNA primase; Validated; Region: dnaG; PRK05667 717231003288 CHC2 zinc finger; Region: zf-CHC2; cl15369 717231003289 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 717231003290 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 717231003291 active site 717231003292 metal binding site [ion binding]; metal-binding site 717231003293 interdomain interaction site; other site 717231003294 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 717231003295 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 717231003296 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231003297 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231003298 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231003299 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 717231003300 DNA binding residues [nucleotide binding] 717231003301 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 717231003302 active site 717231003303 dimer interface [polypeptide binding]; other site 717231003304 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 717231003305 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231003306 active site 717231003307 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231003308 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003309 active site 717231003310 phosphorylation site [posttranslational modification] 717231003311 intermolecular recognition site; other site 717231003312 dimerization interface [polypeptide binding]; other site 717231003313 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231003314 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231003315 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 717231003316 dimer interface [polypeptide binding]; other site 717231003317 phosphorylation site [posttranslational modification] 717231003318 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 717231003319 ATP binding site [chemical binding]; other site 717231003320 Mg2+ binding site [ion binding]; other site 717231003321 G-X-G motif; other site 717231003322 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231003323 metal binding site [ion binding]; metal-binding site 717231003324 active site 717231003325 I-site; other site 717231003326 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 717231003327 radical SAM enzyme, TIGR04100 family; Region: rSAM_pair_X 717231003328 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 717231003329 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 717231003330 DNA binding residues [nucleotide binding] 717231003331 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 717231003332 IHF - DNA interface [nucleotide binding]; other site 717231003333 IHF dimer interface [polypeptide binding]; other site 717231003334 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 717231003335 elongation factor G; Reviewed; Region: PRK12740 717231003336 G1 box; other site 717231003337 putative GEF interaction site [polypeptide binding]; other site 717231003338 GTP/Mg2+ binding site [chemical binding]; other site 717231003339 Switch I region; other site 717231003340 G2 box; other site 717231003341 G3 box; other site 717231003342 Switch II region; other site 717231003343 G4 box; other site 717231003344 G5 box; other site 717231003345 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 717231003346 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 717231003347 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 717231003348 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 717231003349 HflK protein; Region: hflK; TIGR01933 717231003350 HflC protein; Region: hflC; TIGR01932 717231003351 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 717231003352 homoserine dehydrogenase; Provisional; Region: PRK06349 717231003353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003354 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 717231003355 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 717231003356 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04200 717231003357 Sulfatase; Region: Sulfatase; cl10460 717231003358 aspartate kinase; Reviewed; Region: PRK06635 717231003359 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 717231003360 putative nucleotide binding site [chemical binding]; other site 717231003361 putative catalytic residues [active] 717231003362 putative Mg ion binding site [ion binding]; other site 717231003363 putative aspartate binding site [chemical binding]; other site 717231003364 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 717231003365 putative allosteric regulatory site; other site 717231003366 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 717231003367 putative allosteric regulatory residue; other site 717231003368 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 717231003369 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 717231003370 active site 717231003371 catalytic residues [active] 717231003372 metal binding site [ion binding]; metal-binding site 717231003373 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 717231003374 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 717231003375 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08665 717231003376 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 717231003377 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 717231003378 active site 717231003379 dimer interface [polypeptide binding]; other site 717231003380 effector binding site; other site 717231003381 TSCPD domain; Region: TSCPD; cl14834 717231003382 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 717231003383 Cytochrome c; Region: Cytochrom_C; cl11414 717231003384 hypothetical protein; Provisional; Region: PRK06361 717231003385 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 717231003386 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 717231003387 dimer interface [polypeptide binding]; other site 717231003388 PYR/PP interface [polypeptide binding]; other site 717231003389 TPP binding site [chemical binding]; other site 717231003390 substrate binding site [chemical binding]; other site 717231003391 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 717231003392 TPP-binding site; other site 717231003393 4Fe-4S binding domain; Region: Fer4; cl02805 717231003394 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 717231003395 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 717231003396 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 717231003397 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 717231003398 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 717231003399 GTP binding site; other site 717231003400 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 717231003401 excinuclease ABC subunit B; Provisional; Region: PRK05298 717231003402 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 717231003403 ATP binding site [chemical binding]; other site 717231003404 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 717231003405 nucleotide binding region [chemical binding]; other site 717231003406 ATP-binding site [chemical binding]; other site 717231003407 Ultra-violet resistance protein B; Region: UvrB; pfam12344 717231003408 UvrB/uvrC motif; Region: UVR; pfam02151 717231003409 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 717231003410 Transglycosylase; Region: Transgly; cl07896 717231003411 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 717231003412 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 717231003413 phosphorylation site [posttranslational modification] 717231003414 dimer interface [polypeptide binding]; other site 717231003415 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 717231003416 ATP binding site [chemical binding]; other site 717231003417 Mg2+ binding site [ion binding]; other site 717231003418 G-X-G motif; other site 717231003419 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003420 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003421 active site 717231003422 phosphorylation site [posttranslational modification] 717231003423 intermolecular recognition site; other site 717231003424 dimerization interface [polypeptide binding]; other site 717231003425 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 717231003426 Walker A motif; other site 717231003427 ATP binding site [chemical binding]; other site 717231003428 Walker B motif; other site 717231003429 arginine finger; other site 717231003430 Helix-turn-helix domains; Region: HTH; cl00088 717231003431 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003432 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 717231003433 non-specific DNA binding site [nucleotide binding]; other site 717231003434 salt bridge; other site 717231003435 sequence-specific DNA binding site [nucleotide binding]; other site 717231003436 Cupin domain; Region: Cupin_2; cl09118 717231003437 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 717231003438 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 717231003439 trimer interface [polypeptide binding]; other site 717231003440 putative metal binding site [ion binding]; other site 717231003441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 717231003442 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 717231003443 dimer interface [polypeptide binding]; other site 717231003444 phosphorylation site [posttranslational modification] 717231003445 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003446 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 717231003447 non-specific DNA binding site [nucleotide binding]; other site 717231003448 salt bridge; other site 717231003449 sequence-specific DNA binding site [nucleotide binding]; other site 717231003450 Cupin domain; Region: Cupin_2; cl09118 717231003451 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 717231003452 oligomerization interface [polypeptide binding]; other site 717231003453 active site 717231003454 metal binding site [ion binding]; metal-binding site 717231003455 pantoate--beta-alanine ligase; Region: panC; TIGR00018 717231003456 Pantoate-beta-alanine ligase; Region: PanC; cd00560 717231003457 active site 717231003458 ATP-binding site [chemical binding]; other site 717231003459 pantoate-binding site; other site 717231003460 HXXH motif; other site 717231003461 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 717231003462 tetramerization interface [polypeptide binding]; other site 717231003463 active site 717231003464 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 717231003465 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 717231003466 ssDNA binding site; other site 717231003467 generic binding surface II; other site 717231003468 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 717231003469 ATP binding site [chemical binding]; other site 717231003470 putative Mg++ binding site [ion binding]; other site 717231003471 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 717231003472 nucleotide binding region [chemical binding]; other site 717231003473 ATP-binding site [chemical binding]; other site 717231003474 Uncharacterized conserved protein [Function unknown]; Region: COG4715 717231003475 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 717231003476 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 717231003477 ATP binding site [chemical binding]; other site 717231003478 putative Mg++ binding site [ion binding]; other site 717231003479 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 717231003480 nucleotide binding region [chemical binding]; other site 717231003481 ATP-binding site [chemical binding]; other site 717231003482 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 717231003483 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 717231003484 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231003485 RNA polymerase sigma factor, cyanobacterial RpoD-like family; Region: Sig70-cyanoRpoD; TIGR02997 717231003486 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231003487 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231003488 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 717231003489 DNA binding residues [nucleotide binding] 717231003490 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 717231003491 Clp amino terminal domain; Region: Clp_N; pfam02861 717231003492 Clp amino terminal domain; Region: Clp_N; pfam02861 717231003493 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 717231003494 Walker A motif; other site 717231003495 ATP binding site [chemical binding]; other site 717231003496 Walker B motif; other site 717231003497 arginine finger; other site 717231003498 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 717231003499 Walker A motif; other site 717231003500 ATP binding site [chemical binding]; other site 717231003501 Walker B motif; other site 717231003502 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 717231003503 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 717231003504 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 717231003505 DNA binding residues [nucleotide binding] 717231003506 putative dimer interface [polypeptide binding]; other site 717231003507 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 717231003508 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 717231003509 HSP70 interaction site [polypeptide binding]; other site 717231003510 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 717231003511 Zn binding sites [ion binding]; other site 717231003512 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 717231003513 dimer interface [polypeptide binding]; other site 717231003514 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 717231003515 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 717231003516 putative dimer interface [polypeptide binding]; other site 717231003517 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 717231003518 Gram-negative bacterial tonB protein; Region: TonB; cl10048 717231003519 Archease protein family (MTH1598/TM1083); Region: Archease; cl00606 717231003520 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 717231003521 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003522 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 717231003523 primosome assembly protein PriA; Validated; Region: PRK05580 717231003524 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 717231003525 ATP binding site [chemical binding]; other site 717231003526 putative Mg++ binding site [ion binding]; other site 717231003527 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 717231003528 nucleotide binding region [chemical binding]; other site 717231003529 ATP-binding site [chemical binding]; other site 717231003530 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 717231003531 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 717231003532 substrate binding site [chemical binding]; other site 717231003533 active site 717231003534 Ferrochelatase; Region: Ferrochelatase; pfam00762 717231003535 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 717231003536 active site 717231003537 C-terminal domain interface [polypeptide binding]; other site 717231003538 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 717231003539 active site 717231003540 N-terminal domain interface [polypeptide binding]; other site 717231003541 UbiA prenyltransferase family; Region: UbiA; cl00337 717231003542 aromatic acid decarboxylase; Validated; Region: PRK05920 717231003543 Flavoprotein; Region: Flavoprotein; cl08021 717231003544 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 717231003545 Protein of unknown function (DUF3753); Region: DUF3753; pfam12575 717231003546 Predicted archaeal methyltransferase [General function prediction only]; Region: COG2521 717231003547 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 717231003548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003549 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 717231003550 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 717231003551 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231003552 enolase; Provisional; Region: eno; PRK00077 717231003553 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 717231003554 dimer interface [polypeptide binding]; other site 717231003555 metal binding site [ion binding]; metal-binding site 717231003556 substrate binding pocket [chemical binding]; other site 717231003557 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 717231003558 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 717231003559 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 717231003560 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 717231003561 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 717231003562 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231003563 Helix-turn-helix domains; Region: HTH; cl00088 717231003564 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 717231003565 putative acyl-acceptor binding pocket; other site 717231003566 aspartate aminotransferase; Provisional; Region: PRK05764 717231003567 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 717231003568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231003569 homodimer interface [polypeptide binding]; other site 717231003570 catalytic residue [active] 717231003571 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 717231003572 Response regulator receiver domain; Region: Response_reg; pfam00072 717231003573 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003574 active site 717231003575 phosphorylation site [posttranslational modification] 717231003576 intermolecular recognition site; other site 717231003577 dimerization interface [polypeptide binding]; other site 717231003578 GAF domain; Region: GAF; cl15785 717231003579 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231003580 Zn2+ binding site [ion binding]; other site 717231003581 Mg2+ binding site [ion binding]; other site 717231003582 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 717231003583 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003584 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 717231003585 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 717231003586 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 717231003587 NADP binding site [chemical binding]; other site 717231003588 homopentamer interface [polypeptide binding]; other site 717231003589 substrate binding site [chemical binding]; other site 717231003590 active site 717231003591 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 717231003592 Pyruvoyl-dependent arginine decarboxylase (PvlArgDC); Region: PvlArgDC; cl00849 717231003593 spermidine synthase; Provisional; Region: PRK00811 717231003594 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 717231003595 S-adenosylmethionine binding site [chemical binding]; other site 717231003596 Arginase family; Region: Arginase; cl00306 717231003597 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 717231003598 IHF dimer interface [polypeptide binding]; other site 717231003599 IHF - DNA interface [nucleotide binding]; other site 717231003600 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231003601 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 717231003602 non-specific DNA binding site [nucleotide binding]; other site 717231003603 salt bridge; other site 717231003604 sequence-specific DNA binding site [nucleotide binding]; other site 717231003605 Cupin domain; Region: Cupin_2; cl09118 717231003606 AMP-binding enzyme; Region: AMP-binding; cl15778 717231003607 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 717231003608 AMP-binding enzyme; Region: AMP-binding; cl15778 717231003609 ACT domain-containing protein [General function prediction only]; Region: COG4747 717231003610 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains; Region: ACT_Bt0572_1; cd04908 717231003611 C-terminal ACT domain of a novel protein composed of just two ACT domains; Region: ACT_Bt0572_2; cd04882 717231003612 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231003613 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 717231003614 putative ligand binding site [chemical binding]; other site 717231003615 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231003616 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 717231003617 putative ligand binding site [chemical binding]; other site 717231003618 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 717231003619 TM-ABC transporter signature motif; other site 717231003620 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 717231003621 TM-ABC transporter signature motif; other site 717231003622 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231003623 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 717231003624 Walker A/P-loop; other site 717231003625 ATP binding site [chemical binding]; other site 717231003626 Q-loop/lid; other site 717231003627 ABC transporter signature motif; other site 717231003628 Walker B; other site 717231003629 D-loop; other site 717231003630 H-loop/switch region; other site 717231003631 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231003632 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 717231003633 Walker A/P-loop; other site 717231003634 ATP binding site [chemical binding]; other site 717231003635 Q-loop/lid; other site 717231003636 ABC transporter signature motif; other site 717231003637 Walker B; other site 717231003638 D-loop; other site 717231003639 H-loop/switch region; other site 717231003640 AMP-binding enzyme; Region: AMP-binding; cl15778 717231003641 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 717231003642 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231003643 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 717231003644 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 717231003645 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 717231003646 PhoU domain; Region: PhoU; pfam01895 717231003647 PhoU domain; Region: PhoU; pfam01895 717231003648 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 717231003649 Protein of unknown function (DUF445); Region: DUF445; pfam04286 717231003650 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 717231003651 active site 717231003652 putative substrate binding region [chemical binding]; other site 717231003653 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 717231003654 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 717231003655 active site 717231003656 HIGH motif; other site 717231003657 dimer interface [polypeptide binding]; other site 717231003658 KMSKS motif; other site 717231003659 ScpA/B protein; Region: ScpA_ScpB; cl00598 717231003660 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 717231003661 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 717231003662 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 717231003663 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 717231003664 active site 717231003665 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 717231003666 active site 717231003667 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 717231003668 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 717231003669 FeS/SAM binding site; other site 717231003670 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 717231003671 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 717231003672 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 717231003673 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 717231003674 binding surface 717231003675 TPR motif; other site 717231003676 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231003677 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 717231003678 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 717231003679 Walker A motif; other site 717231003680 ATP binding site [chemical binding]; other site 717231003681 Walker B motif; other site 717231003682 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 717231003683 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 717231003684 dimerization interface [polypeptide binding]; other site 717231003685 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 717231003686 dimer interface [polypeptide binding]; other site 717231003687 phosphorylation site [posttranslational modification] 717231003688 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 717231003689 ATP binding site [chemical binding]; other site 717231003690 Mg2+ binding site [ion binding]; other site 717231003691 G-X-G motif; other site 717231003692 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231003693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003694 active site 717231003695 phosphorylation site [posttranslational modification] 717231003696 intermolecular recognition site; other site 717231003697 dimerization interface [polypeptide binding]; other site 717231003698 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 717231003699 Walker A motif; other site 717231003700 ATP binding site [chemical binding]; other site 717231003701 Walker B motif; other site 717231003702 arginine finger; other site 717231003703 Helix-turn-helix domains; Region: HTH; cl00088 717231003704 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 717231003705 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 717231003706 heterodimer interface [polypeptide binding]; other site 717231003707 active site 717231003708 FMN binding site [chemical binding]; other site 717231003709 homodimer interface [polypeptide binding]; other site 717231003710 substrate binding site [chemical binding]; other site 717231003711 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 717231003712 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 717231003713 FAD binding pocket [chemical binding]; other site 717231003714 FAD binding motif [chemical binding]; other site 717231003715 phosphate binding motif [ion binding]; other site 717231003716 beta-alpha-beta structure motif; other site 717231003717 NAD binding pocket [chemical binding]; other site 717231003718 Iron coordination center [ion binding]; other site 717231003719 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 717231003720 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231003721 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231003722 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 717231003723 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231003724 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231003725 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 717231003726 IMP binding site; other site 717231003727 dimer interface [polypeptide binding]; other site 717231003728 interdomain contacts; other site 717231003729 partial ornithine binding site; other site 717231003730 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 717231003731 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231003732 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 717231003733 dimer interface [polypeptide binding]; other site 717231003734 phosphorylation site [posttranslational modification] 717231003735 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 717231003736 ATP binding site [chemical binding]; other site 717231003737 Mg2+ binding site [ion binding]; other site 717231003738 G-X-G motif; other site 717231003739 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 717231003740 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 717231003741 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 717231003742 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 717231003743 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 717231003744 Walker A motif; other site 717231003745 ATP binding site [chemical binding]; other site 717231003746 Walker B motif; other site 717231003747 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 717231003748 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231003749 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 717231003750 Walker A motif; other site 717231003751 ATP binding site [chemical binding]; other site 717231003752 Walker B motif; other site 717231003753 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 717231003754 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 717231003755 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 717231003756 shikimate binding site; other site 717231003757 NAD(P) binding site [chemical binding]; other site 717231003758 Protein of unknown function (DUF502); Region: DUF502; cl01107 717231003759 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 717231003760 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 717231003761 Ferredoxin [Energy production and conversion]; Region: COG1146 717231003762 4Fe-4S binding domain; Region: Fer4; cl02805 717231003763 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 717231003764 active site 717231003765 FMN binding site [chemical binding]; other site 717231003766 substrate binding site [chemical binding]; other site 717231003767 3Fe-4S cluster binding site [ion binding]; other site 717231003768 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 717231003769 domain_subunit interface; other site 717231003770 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 717231003771 active site 717231003772 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 717231003773 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231003774 hypothetical protein; Provisional; Region: PRK08609 717231003775 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 717231003776 active site 717231003777 primer binding site [nucleotide binding]; other site 717231003778 NTP binding site [chemical binding]; other site 717231003779 metal binding triad [ion binding]; metal-binding site 717231003780 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 717231003781 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231003782 Integral membrane protein TerC family; Region: TerC; cl10468 717231003783 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231003784 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003785 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231003786 DctM-like transporters; Region: DctM; pfam06808 717231003787 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231003788 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231003789 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231003790 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 717231003791 catalytic residues [active] 717231003792 FOG: CBS domain [General function prediction only]; Region: COG0517 717231003793 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 717231003794 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231003795 AMP-binding enzyme; Region: AMP-binding; cl15778 717231003796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231003797 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 717231003798 Walker A/P-loop; other site 717231003799 ATP binding site [chemical binding]; other site 717231003800 Q-loop/lid; other site 717231003801 ABC transporter signature motif; other site 717231003802 Walker B; other site 717231003803 D-loop; other site 717231003804 H-loop/switch region; other site 717231003805 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 717231003806 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231003807 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 717231003808 TM-ABC transporter signature motif; other site 717231003809 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 717231003810 TM-ABC transporter signature motif; other site 717231003811 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231003812 AMP-binding enzyme; Region: AMP-binding; cl15778 717231003813 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231003814 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 717231003815 Walker A/P-loop; other site 717231003816 ATP binding site [chemical binding]; other site 717231003817 Q-loop/lid; other site 717231003818 ABC transporter signature motif; other site 717231003819 Walker B; other site 717231003820 D-loop; other site 717231003821 H-loop/switch region; other site 717231003822 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 717231003823 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 717231003824 catalytic residues [active] 717231003825 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 717231003826 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 717231003827 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 717231003828 FeS/SAM binding site; other site 717231003829 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 717231003830 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 717231003831 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231003832 dimer interface [polypeptide binding]; other site 717231003833 conserved gate region; other site 717231003834 ABC-ATPase subunit interface; other site 717231003835 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 717231003836 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 717231003837 Walker A/P-loop; other site 717231003838 ATP binding site [chemical binding]; other site 717231003839 Q-loop/lid; other site 717231003840 ABC transporter signature motif; other site 717231003841 Walker B; other site 717231003842 D-loop; other site 717231003843 H-loop/switch region; other site 717231003844 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 717231003845 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231003846 dimer interface [polypeptide binding]; other site 717231003847 conserved gate region; other site 717231003848 ABC-ATPase subunit interface; other site 717231003849 NMT1-like family; Region: NMT1_2; cl15260 717231003850 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 717231003851 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231003852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231003853 metal binding site [ion binding]; metal-binding site 717231003854 active site 717231003855 I-site; other site 717231003856 EamA-like transporter family; Region: EamA; cl01037 717231003857 EamA-like transporter family; Region: EamA; cl01037 717231003858 Transposase domain (DUF772); Region: DUF772; cl15789 717231003859 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231003860 Transposase domain (DUF772); Region: DUF772; cl15789 717231003861 KEGG: cni:Calni_0838 hypothetical protein; SPTR: Putative uncharacterized protein 717231003862 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 717231003863 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231003864 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231003865 Transposase domain (DUF772); Region: DUF772; cl15789 717231003866 Transposase domain (DUF772); Region: DUF772; cl15789 717231003867 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 717231003868 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 717231003869 S-adenosylmethionine binding site [chemical binding]; other site 717231003870 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 717231003871 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231003872 PAS domain; Region: PAS_9; pfam13426 717231003873 PAS domain S-box; Region: sensory_box; TIGR00229 717231003874 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231003875 putative active site [active] 717231003876 heme pocket [chemical binding]; other site 717231003877 PAS domain S-box; Region: sensory_box; TIGR00229 717231003878 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 717231003879 putative active site [active] 717231003880 heme pocket [chemical binding]; other site 717231003881 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 717231003882 dimer interface [polypeptide binding]; other site 717231003883 phosphorylation site [posttranslational modification] 717231003884 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 717231003885 ATP binding site [chemical binding]; other site 717231003886 Mg2+ binding site [ion binding]; other site 717231003887 G-X-G motif; other site 717231003888 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231003889 active site 717231003890 phosphorylation site [posttranslational modification] 717231003891 intermolecular recognition site; other site 717231003892 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 717231003893 Peptidase family M23; Region: Peptidase_M23; pfam01551 717231003894 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231003895 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 717231003896 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 717231003897 Walker A/P-loop; other site 717231003898 ATP binding site [chemical binding]; other site 717231003899 Q-loop/lid; other site 717231003900 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 717231003901 Q-loop/lid; other site 717231003902 ABC transporter signature motif; other site 717231003903 Walker B; other site 717231003904 D-loop; other site 717231003905 H-loop/switch region; other site 717231003906 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 717231003907 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 717231003908 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 717231003909 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 717231003910 RNA binding surface [nucleotide binding]; other site 717231003911 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 717231003912 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 717231003913 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 717231003914 TPP-binding site; other site 717231003915 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 717231003916 PYR/PP interface [polypeptide binding]; other site 717231003917 dimer interface [polypeptide binding]; other site 717231003918 TPP binding site [chemical binding]; other site 717231003919 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 717231003920 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 717231003921 substrate binding pocket [chemical binding]; other site 717231003922 chain length determination region; other site 717231003923 substrate-Mg2+ binding site; other site 717231003924 catalytic residues [active] 717231003925 aspartate-rich region 1; other site 717231003926 active site lid residues [active] 717231003927 aspartate-rich region 2; other site 717231003928 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 717231003929 Transposase domain (DUF772); Region: DUF772; cl15789 717231003930 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231003931 Transposase domain (DUF772); Region: DUF772; cl15789 717231003932 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 717231003933 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 717231003934 metal-binding site [ion binding] 717231003935 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 717231003936 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 717231003937 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 717231003938 dimerization interface [polypeptide binding]; other site 717231003939 putative DNA binding site [nucleotide binding]; other site 717231003940 putative Zn2+ binding site [ion binding]; other site 717231003941 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 717231003942 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231003943 Walker A/P-loop; other site 717231003944 ATP binding site [chemical binding]; other site 717231003945 Q-loop/lid; other site 717231003946 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231003947 Transposase domain (DUF772); Region: DUF772; cl15789 717231003948 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231003949 Transposase domain (DUF772); Region: DUF772; cl15789 717231003950 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 717231003951 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231003952 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231003953 FtsX-like permease family; Region: FtsX; cl15850 717231003954 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231003955 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 717231003956 FtsX-like permease family; Region: FtsX; cl15850 717231003957 transketolase; Reviewed; Region: PRK05899 717231003958 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 717231003959 TPP-binding site [chemical binding]; other site 717231003960 dimer interface [polypeptide binding]; other site 717231003961 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 717231003962 PYR/PP interface [polypeptide binding]; other site 717231003963 dimer interface [polypeptide binding]; other site 717231003964 TPP binding site [chemical binding]; other site 717231003965 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 717231003966 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231003967 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 717231003968 Walker A/P-loop; other site 717231003969 ATP binding site [chemical binding]; other site 717231003970 Q-loop/lid; other site 717231003971 ABC transporter signature motif; other site 717231003972 Walker B; other site 717231003973 D-loop; other site 717231003974 H-loop/switch region; other site 717231003975 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231003976 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 717231003977 Walker A/P-loop; other site 717231003978 ATP binding site [chemical binding]; other site 717231003979 Q-loop/lid; other site 717231003980 ABC transporter signature motif; other site 717231003981 Walker B; other site 717231003982 D-loop; other site 717231003983 H-loop/switch region; other site 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 TM-ABC transporter signature motif; other site 717231003988 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 717231003989 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 717231003990 dimerization interface [polypeptide binding]; other site 717231003991 ligand binding site [chemical binding]; other site 717231003992 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 717231003993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231003994 catalytic residue [active] 717231003995 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 717231003996 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 717231003997 DNA-binding site [nucleotide binding]; DNA binding site 717231003998 RNA-binding motif; other site 717231003999 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 717231004000 active site residues [active] 717231004001 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 717231004002 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 717231004003 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 717231004004 MoxR-like ATPases [General function prediction only]; Region: COG0714 717231004005 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 717231004006 Walker A motif; other site 717231004007 ATP binding site [chemical binding]; other site 717231004008 Walker B motif; other site 717231004009 arginine finger; other site 717231004010 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 717231004011 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 717231004012 Sodium:solute symporter family; Region: SSF; cl00456 717231004013 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 717231004014 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 717231004015 ligand binding site [chemical binding]; other site 717231004016 flexible hinge region; other site 717231004017 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 717231004018 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231004019 metal binding triad; other site 717231004020 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 717231004021 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 717231004022 HIGH motif; other site 717231004023 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 717231004024 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 717231004025 active site 717231004026 KMSKS motif; other site 717231004027 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 717231004028 tRNA binding surface [nucleotide binding]; other site 717231004029 Lipopolysaccharide-assembly; Region: LptE; cl01125 717231004030 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 717231004031 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 717231004032 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 717231004033 Sugar fermentation stimulation protein; Region: SfsA; cl00647 717231004034 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 717231004035 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231004036 catalytic residue [active] 717231004037 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 717231004038 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004039 Coenzyme A binding pocket [chemical binding]; other site 717231004040 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 717231004041 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 717231004042 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 717231004043 substrate binding pocket [chemical binding]; other site 717231004044 membrane-bound complex binding site; other site 717231004045 hinge residues; other site 717231004046 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231004047 dimer interface [polypeptide binding]; other site 717231004048 conserved gate region; other site 717231004049 putative PBP binding loops; other site 717231004050 ABC-ATPase subunit interface; other site 717231004051 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 717231004052 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 717231004053 Walker A/P-loop; other site 717231004054 ATP binding site [chemical binding]; other site 717231004055 Q-loop/lid; other site 717231004056 ABC transporter signature motif; other site 717231004057 Walker B; other site 717231004058 D-loop; other site 717231004059 H-loop/switch region; other site 717231004060 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 717231004061 glutamate dehydrogenase; Provisional; Region: PRK09414 717231004062 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 717231004063 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 717231004064 NAD(P) binding site [chemical binding]; other site 717231004065 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231004066 NRDE protein; Region: NRDE; cl01315 717231004067 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231004068 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 717231004069 NAD(P) binding site [chemical binding]; other site 717231004070 catalytic residues [active] 717231004071 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 717231004072 FAD binding domain; Region: FAD_binding_4; pfam01565 717231004073 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 717231004074 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 717231004075 Cysteine-rich domain; Region: CCG; pfam02754 717231004076 Cysteine-rich domain; Region: CCG; pfam02754 717231004077 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 717231004078 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 717231004079 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 717231004080 FeS/SAM binding site; other site 717231004081 TRAM domain; Region: TRAM; cl01282 717231004082 Bifunctional nuclease; Region: DNase-RNase; cl00553 717231004083 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 717231004084 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 717231004085 active site 717231004086 metal binding site [ion binding]; metal-binding site 717231004087 DNA binding site [nucleotide binding] 717231004088 Uncharacterized conserved protein [Function unknown]; Region: COG4717 717231004089 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 717231004090 hypothetical protein; Provisional; Region: PRK09609 717231004091 AAA domain; Region: AAA_27; pfam13514 717231004092 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231004093 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231004094 active site 717231004095 catalytic triad [active] 717231004096 dimer interface [polypeptide binding]; other site 717231004097 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231004098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004099 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004100 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004101 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 717231004102 active site 717231004103 FMN binding site [chemical binding]; other site 717231004104 substrate binding site [chemical binding]; other site 717231004105 putative catalytic residue [active] 717231004106 Isochorismatase family; Region: Isochorismatase; pfam00857 717231004107 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 717231004108 catalytic triad [active] 717231004109 dimer interface [polypeptide binding]; other site 717231004110 conserved cis-peptide bond; other site 717231004111 protoporphyrinogen oxidase; Region: proto_IX_ox; TIGR00562 717231004112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004113 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 717231004114 Sporulation related domain; Region: SPOR; cl10051 717231004115 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 717231004116 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 717231004117 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 717231004118 active site 717231004119 HIGH motif; other site 717231004120 KMSK motif region; other site 717231004121 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 717231004122 tRNA binding surface [nucleotide binding]; other site 717231004123 anticodon binding site; other site 717231004124 LysE type translocator; Region: LysE; cl00565 717231004125 Transposase domain (DUF772); Region: DUF772; cl15789 717231004126 Transposase domain (DUF772); Region: DUF772; cl15789 717231004127 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004128 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004129 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004130 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 717231004131 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231004132 Transposase domain (DUF772); Region: DUF772; cl15789 717231004133 Transposase domain (DUF772); Region: DUF772; cl15789 717231004134 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 717231004135 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 717231004136 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 717231004137 binding surface 717231004138 TPR motif; other site 717231004139 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 717231004140 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231004141 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 717231004142 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 717231004143 binding surface 717231004144 TPR motif; other site 717231004145 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 717231004146 RNA polymerase factor sigma-70; Validated; Region: PRK08295 717231004147 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 717231004148 EamA-like transporter family; Region: EamA; cl01037 717231004149 EamA-like transporter family; Region: EamA; cl01037 717231004150 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004151 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 717231004152 Walker A/P-loop; other site 717231004153 ATP binding site [chemical binding]; other site 717231004154 Q-loop/lid; other site 717231004155 ABC transporter signature motif; other site 717231004156 Walker B; other site 717231004157 D-loop; other site 717231004158 H-loop/switch region; other site 717231004159 TOBE domain; Region: TOBE_2; cl01440 717231004160 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231004161 dimer interface [polypeptide binding]; other site 717231004162 conserved gate region; other site 717231004163 putative PBP binding loops; other site 717231004164 ABC-ATPase subunit interface; other site 717231004165 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 717231004166 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231004167 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 717231004168 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231004169 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 717231004170 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 717231004171 Response regulator receiver domain; Region: Response_reg; pfam00072 717231004172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004173 active site 717231004174 phosphorylation site [posttranslational modification] 717231004175 intermolecular recognition site; other site 717231004176 dimerization interface [polypeptide binding]; other site 717231004177 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 717231004178 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 717231004179 Walker A/P-loop; other site 717231004180 ATP binding site [chemical binding]; other site 717231004181 Q-loop/lid; other site 717231004182 ABC transporter signature motif; other site 717231004183 Walker B; other site 717231004184 D-loop; other site 717231004185 H-loop/switch region; other site 717231004186 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 717231004187 FtsX-like permease family; Region: FtsX; cl15850 717231004188 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 717231004189 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 717231004190 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 717231004191 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 717231004192 protein binding site [polypeptide binding]; other site 717231004193 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 717231004194 Catalytic dyad [active] 717231004195 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 717231004196 NodB motif; other site 717231004197 putative active site [active] 717231004198 putative catalytic site [active] 717231004199 Zn binding site [ion binding]; other site 717231004200 UGMP family protein; Validated; Region: PRK09604 717231004201 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 717231004202 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 717231004203 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 717231004204 FMN binding site [chemical binding]; other site 717231004205 active site 717231004206 catalytic residues [active] 717231004207 substrate binding site [chemical binding]; other site 717231004208 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 717231004209 Domain of unknown function (DUF814); Region: DUF814; pfam05670 717231004210 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 717231004211 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 717231004212 Walker A motif; other site 717231004213 ATP binding site [chemical binding]; other site 717231004214 Walker B motif; other site 717231004215 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 717231004216 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 717231004217 TPR repeat; Region: TPR_11; pfam13414 717231004218 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 717231004219 binding surface 717231004220 TPR motif; other site 717231004221 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 717231004222 CoenzymeA binding site [chemical binding]; other site 717231004223 subunit interaction site [polypeptide binding]; other site 717231004224 PHB binding site; other site 717231004225 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004226 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231004227 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 717231004228 formate-dependent cytochrome c nitrite reductase, c552 subunit; Region: cyto_c552_HCOOH; TIGR03152 717231004229 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 717231004230 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231004231 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004232 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231004233 Walker A/P-loop; other site 717231004234 ATP binding site [chemical binding]; other site 717231004235 Q-loop/lid; other site 717231004236 ABC transporter signature motif; other site 717231004237 Walker B; other site 717231004238 D-loop; other site 717231004239 H-loop/switch region; other site 717231004240 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 717231004241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231004242 Walker A/P-loop; other site 717231004243 ATP binding site [chemical binding]; other site 717231004244 Q-loop/lid; other site 717231004245 ABC transporter signature motif; other site 717231004246 Walker B; other site 717231004247 D-loop; other site 717231004248 H-loop/switch region; other site 717231004249 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 717231004250 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 717231004251 ABC-2 type transporter; Region: ABC2_membrane; cl11417 717231004252 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 717231004253 ABC-2 type transporter; Region: ABC2_membrane; cl11417 717231004254 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 717231004255 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231004256 catalytic residue [active] 717231004257 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231004258 active site 717231004259 substrate binding site [chemical binding]; other site 717231004260 catalytic site [active] 717231004261 Oligomerisation domain; Region: Oligomerisation; cl00519 717231004262 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 717231004263 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 717231004264 active site 717231004265 (T/H)XGH motif; other site 717231004266 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 717231004267 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 717231004268 putative catalytic cysteine [active] 717231004269 gamma-glutamyl kinase; Provisional; Region: PRK05429 717231004270 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 717231004271 homotetrameric interface [polypeptide binding]; other site 717231004272 putative phosphate binding site [ion binding]; other site 717231004273 putative allosteric binding site; other site 717231004274 nucleotide binding site [chemical binding]; other site 717231004275 PUA domain; Region: PUA; cl00607 717231004276 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004277 active site 717231004278 phosphorylation site [posttranslational modification] 717231004279 intermolecular recognition site; other site 717231004280 dimerization interface [polypeptide binding]; other site 717231004281 phosphoglycolate phosphatase; Provisional; Region: PRK13222 717231004282 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 717231004283 motif II; other site 717231004284 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 717231004285 Transposase domain (DUF772); Region: DUF772; cl15789 717231004286 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004287 Transposase domain (DUF772); Region: DUF772; cl15789 717231004288 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231004289 PAS fold; Region: PAS_3; pfam08447 717231004290 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 717231004291 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 717231004292 putative active site [active] 717231004293 heme pocket [chemical binding]; other site 717231004294 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 717231004295 dimer interface [polypeptide binding]; other site 717231004296 phosphorylation site [posttranslational modification] 717231004297 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 717231004298 ATP binding site [chemical binding]; other site 717231004299 Mg2+ binding site [ion binding]; other site 717231004300 G-X-G motif; other site 717231004301 Response regulator receiver domain; Region: Response_reg; pfam00072 717231004302 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231004303 active site 717231004304 phosphorylation site [posttranslational modification] 717231004305 intermolecular recognition site; other site 717231004306 dimerization interface [polypeptide binding]; other site 717231004307 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231004308 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 717231004309 active site 717231004310 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 717231004311 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004312 Ubiquitin-like proteins; Region: UBQ; cl00155 717231004313 charged pocket; other site 717231004314 hydrophobic patch; other site 717231004315 Aldehyde:ferredoxin oxidoreductase [Energy production and conversion]; Region: COG2414 717231004316 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; cl08354 717231004317 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 717231004318 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231004319 4Fe-4S binding domain; Region: Fer4; cl02805 717231004320 Ubiquitin-like proteins; Region: UBQ; cl00155 717231004321 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004322 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 717231004323 PDGLE domain; Region: PDGLE; cl07986 717231004324 Cobalt transport protein; Region: CbiQ; cl00463 717231004325 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 717231004326 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 717231004327 Walker A/P-loop; other site 717231004328 ATP binding site [chemical binding]; other site 717231004329 Q-loop/lid; other site 717231004330 ABC transporter signature motif; other site 717231004331 Walker B; other site 717231004332 D-loop; other site 717231004333 H-loop/switch region; other site 717231004334 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 717231004335 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 717231004336 motif II; other site 717231004337 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231004338 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 717231004339 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 717231004340 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 717231004341 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 717231004342 homotrimer interaction site [polypeptide binding]; other site 717231004343 putative active site [active] 717231004344 Amidinotransferase; Region: Amidinotransf; cl12043 717231004345 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 717231004346 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 717231004347 substrate binding pocket [chemical binding]; other site 717231004348 chain length determination region; other site 717231004349 substrate-Mg2+ binding site; other site 717231004350 catalytic residues [active] 717231004351 aspartate-rich region 1; other site 717231004352 active site lid residues [active] 717231004353 aspartate-rich region 2; other site 717231004354 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 717231004355 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 717231004356 FeS/SAM binding site; other site 717231004357 ApbE family; Region: ApbE; cl00643 717231004358 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 717231004359 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; cl01973 717231004360 Maf-like protein; Region: Maf; pfam02545 717231004361 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 717231004362 active site 717231004363 dimer interface [polypeptide binding]; other site 717231004364 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 717231004365 AMP-binding enzyme; Region: AMP-binding; cl15778 717231004366 AMP-binding enzyme; Region: AMP-binding; cl15778 717231004367 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 717231004368 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 717231004369 Walker A/P-loop; other site 717231004370 ATP binding site [chemical binding]; other site 717231004371 Q-loop/lid; other site 717231004372 ABC transporter signature motif; other site 717231004373 Walker B; other site 717231004374 D-loop; other site 717231004375 H-loop/switch region; other site 717231004376 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 717231004377 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 717231004378 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 717231004379 active site 717231004380 HIGH motif; other site 717231004381 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 717231004382 KMSKS motif; other site 717231004383 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 717231004384 tRNA binding surface [nucleotide binding]; other site 717231004385 anticodon binding site; other site 717231004386 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 717231004387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004388 NAD(P) binding site [chemical binding]; other site 717231004389 active site 717231004390 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231004391 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231004392 active site 717231004393 catalytic triad [active] 717231004394 dimer interface [polypeptide binding]; other site 717231004395 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 717231004396 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 717231004397 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 717231004398 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 717231004399 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 717231004400 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 717231004401 FAD binding site [chemical binding]; other site 717231004402 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 717231004403 metal binding site 2 [ion binding]; metal-binding site 717231004404 putative DNA binding helix; other site 717231004405 metal binding site 1 [ion binding]; metal-binding site 717231004406 dimer interface [polypeptide binding]; other site 717231004407 structural Zn2+ binding site [ion binding]; other site 717231004408 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 717231004409 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 717231004410 tetramer interface [polypeptide binding]; other site 717231004411 heme binding pocket [chemical binding]; other site 717231004412 NADPH binding site [chemical binding]; other site 717231004413 Proline dehydrogenase; Region: Pro_dh; cl03282 717231004414 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 717231004415 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231004416 Glutamate binding site [chemical binding]; other site 717231004417 NAD binding site [chemical binding]; other site 717231004418 catalytic residues [active] 717231004419 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 717231004420 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 717231004421 active site 717231004422 putative substrate binding pocket [chemical binding]; other site 717231004423 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231004424 adenylosuccinate lyase; Region: purB; TIGR00928 717231004425 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 717231004426 tetramer interface [polypeptide binding]; other site 717231004427 active site 717231004428 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 717231004429 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 717231004430 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 717231004431 dimer interface [polypeptide binding]; other site 717231004432 glycine-pyridoxal phosphate binding site [chemical binding]; other site 717231004433 active site 717231004434 folate binding site [chemical binding]; other site 717231004435 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 717231004436 catalytic motif [active] 717231004437 Zn binding site [ion binding]; other site 717231004438 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 717231004439 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 717231004440 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 717231004441 SLBB domain; Region: SLBB; pfam10531 717231004442 4Fe-4S binding domain; Region: Fer4; cl02805 717231004443 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 717231004444 FMN-binding domain; Region: FMN_bind; cl01081 717231004445 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 717231004446 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 717231004447 ferredoxin; Validated; Region: PRK07118 717231004448 Putative Fe-S cluster; Region: FeS; pfam04060 717231004449 4Fe-4S binding domain; Region: Fer4; cl02805 717231004450 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 717231004451 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 717231004452 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 717231004453 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231004454 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231004455 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231004456 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 717231004457 Malic enzyme, N-terminal domain; Region: malic; pfam00390 717231004458 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 717231004459 putative NAD(P) binding site [chemical binding]; other site 717231004460 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 717231004461 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 717231004462 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 717231004463 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231004464 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 717231004465 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 717231004466 Predicted membrane protein [Function unknown]; Region: COG1971 717231004467 Domain of unknown function DUF; Region: DUF204; pfam02659 717231004468 Domain of unknown function DUF; Region: DUF204; pfam02659 717231004469 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 717231004470 NMT1-like family; Region: NMT1_2; cl15260 717231004471 Mechanosensitive ion channel; Region: MS_channel; pfam00924 717231004472 Stringent starvation protein B; Region: SspB; cl01120 717231004473 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 717231004474 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 717231004475 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 717231004476 dimer interface [polypeptide binding]; other site 717231004477 anticodon binding site; other site 717231004478 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 717231004479 homodimer interface [polypeptide binding]; other site 717231004480 motif 1; other site 717231004481 active site 717231004482 motif 2; other site 717231004483 GAD domain; Region: GAD; pfam02938 717231004484 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 717231004485 motif 3; other site 717231004486 histidyl-tRNA synthetase; Region: hisS; TIGR00442 717231004487 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 717231004488 dimer interface [polypeptide binding]; other site 717231004489 motif 1; other site 717231004490 active site 717231004491 motif 2; other site 717231004492 motif 3; other site 717231004493 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 717231004494 anticodon binding site; other site 717231004495 Domain of unknown function (DUF296); Region: DUF296; cl00720 717231004496 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 717231004497 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 717231004498 catalytic center binding site [active] 717231004499 ATP binding site [chemical binding]; other site 717231004500 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 717231004501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004502 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004503 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004504 S-adenosylmethionine synthetase; Validated; Region: PRK05250 717231004505 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 717231004506 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 717231004507 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 717231004508 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 717231004509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004510 Coenzyme A binding pocket [chemical binding]; other site 717231004511 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 717231004512 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 717231004513 trimer interface [polypeptide binding]; other site 717231004514 active site 717231004515 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 717231004516 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 717231004517 RNase E interface [polypeptide binding]; other site 717231004518 trimer interface [polypeptide binding]; other site 717231004519 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 717231004520 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 717231004521 RNase E interface [polypeptide binding]; other site 717231004522 trimer interface [polypeptide binding]; other site 717231004523 active site 717231004524 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 717231004525 putative nucleic acid binding region [nucleotide binding]; other site 717231004526 G-X-X-G motif; other site 717231004527 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 717231004528 RNA binding site [nucleotide binding]; other site 717231004529 domain interface; other site 717231004530 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 717231004531 16S/18S rRNA binding site [nucleotide binding]; other site 717231004532 S13e-L30e interaction site [polypeptide binding]; other site 717231004533 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 717231004534 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 717231004535 RNA binding site [nucleotide binding]; other site 717231004536 active site 717231004537 Ribosome-binding factor A; Region: RBFA; cl00542 717231004538 Protein of unknown function (DUF503); Region: DUF503; cl00669 717231004539 translation initiation factor IF-2; Region: IF-2; TIGR00487 717231004540 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 717231004541 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 717231004542 G1 box; other site 717231004543 putative GEF interaction site [polypeptide binding]; other site 717231004544 GTP/Mg2+ binding site [chemical binding]; other site 717231004545 Switch I region; other site 717231004546 G2 box; other site 717231004547 G3 box; other site 717231004548 Switch II region; other site 717231004549 G4 box; other site 717231004550 G5 box; other site 717231004551 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 717231004552 Translation-initiation factor 2; Region: IF-2; pfam11987 717231004553 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 717231004554 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 717231004555 putative RNA binding cleft [nucleotide binding]; other site 717231004556 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 717231004557 NusA N-terminal domain; Region: NusA_N; pfam08529 717231004558 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 717231004559 RNA binding site [nucleotide binding]; other site 717231004560 homodimer interface [polypeptide binding]; other site 717231004561 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 717231004562 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 717231004563 G-X-X-G motif; other site 717231004564 DNA repair and recombination protein RadA; Validated; Region: radA; PRK04301 717231004565 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 717231004566 ribosome maturation protein RimP; Reviewed; Region: PRK00092 717231004567 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 717231004568 Sm1 motif; other site 717231004569 D3 - B interaction site; other site 717231004570 D1 - D2 interaction site; other site 717231004571 Hfq - Hfq interaction site; other site 717231004572 RNA binding pocket [nucleotide binding]; other site 717231004573 Sm2 motif; other site 717231004574 LPP20 lipoprotein; Region: LPP20; cl15824 717231004575 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 717231004576 AMP binding site [chemical binding]; other site 717231004577 metal binding site [ion binding]; metal-binding site 717231004578 active site 717231004579 endonuclease IV; Provisional; Region: PRK01060 717231004580 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 717231004581 AP (apurinic/apyrimidinic) site pocket; other site 717231004582 DNA interaction; other site 717231004583 Metal-binding active site; metal-binding site 717231004584 Isochorismatase family; Region: Isochorismatase; pfam00857 717231004585 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 717231004586 catalytic triad [active] 717231004587 conserved cis-peptide bond; other site 717231004588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 717231004589 AAA domain; Region: AAA_33; pfam13671 717231004590 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231004591 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 717231004592 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 717231004593 metal binding site [ion binding]; metal-binding site 717231004594 dimer interface [polypeptide binding]; other site 717231004595 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 717231004596 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 717231004597 putative dimer interface [polypeptide binding]; other site 717231004598 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 717231004599 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 717231004600 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 717231004601 putative active site [active] 717231004602 catalytic site [active] 717231004603 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 717231004604 putative active site [active] 717231004605 catalytic site [active] 717231004606 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 717231004607 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 717231004608 Uncharacterized conserved protein [Function unknown]; Region: COG1565 717231004609 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 717231004610 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 717231004611 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 717231004612 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 717231004613 Survival protein SurE; Region: SurE; cl00448 717231004614 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 717231004615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004616 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004617 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 717231004618 DNA binding residues [nucleotide binding] 717231004619 thiosulfate reductase PhsA; Provisional; Region: PRK15488 717231004620 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 717231004621 putative [Fe4-S4] binding site [ion binding]; other site 717231004622 putative molybdopterin cofactor binding site [chemical binding]; other site 717231004623 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 717231004624 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 717231004625 putative molybdopterin cofactor binding site; other site 717231004626 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231004627 4Fe-4S binding domain; Region: Fer4; cl02805 717231004628 Polysulphide reductase, NrfD; Region: NrfD; cl01295 717231004629 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 717231004630 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 717231004631 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 717231004632 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 717231004633 Polysulphide reductase, NrfD; Region: NrfD; cl01295 717231004634 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231004635 4Fe-4S binding domain; Region: Fer4; cl02805 717231004636 thiosulfate reductase PhsA; Provisional; Region: PRK15488 717231004637 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 717231004638 putative [Fe4-S4] binding site [ion binding]; other site 717231004639 putative molybdopterin cofactor binding site [chemical binding]; other site 717231004640 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 717231004641 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 717231004642 putative molybdopterin cofactor binding site; other site 717231004643 Transposase domain (DUF772); Region: DUF772; cl15789 717231004644 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004645 Transposase domain (DUF772); Region: DUF772; cl15789 717231004646 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 717231004647 Radical SAM superfamily; Region: Radical_SAM; pfam04055 717231004648 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 717231004649 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 717231004650 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 717231004651 P loop; other site 717231004652 GTP binding site [chemical binding]; other site 717231004653 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 717231004654 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 717231004655 Walker A/P-loop; other site 717231004656 ATP binding site [chemical binding]; other site 717231004657 Q-loop/lid; other site 717231004658 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 717231004659 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 717231004660 Q-loop/lid; other site 717231004661 ABC transporter signature motif; other site 717231004662 Walker B; other site 717231004663 D-loop; other site 717231004664 H-loop/switch region; other site 717231004665 aconitate hydratase; Validated; Region: PRK09277 717231004666 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 717231004667 substrate binding site [chemical binding]; other site 717231004668 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 717231004669 ligand binding site [chemical binding]; other site 717231004670 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 717231004671 substrate binding site [chemical binding]; other site 717231004672 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 717231004673 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 717231004674 chaperone protein DnaJ; Provisional; Region: PRK14292 717231004675 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; cl02542 717231004676 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 717231004677 active site 717231004678 dimerization interface [polypeptide binding]; other site 717231004679 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 717231004680 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 717231004681 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 717231004682 MatE; Region: MatE; cl10513 717231004683 MatE; Region: MatE; cl10513 717231004684 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231004685 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 717231004686 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 717231004687 tRNA; other site 717231004688 putative tRNA binding site [nucleotide binding]; other site 717231004689 putative NADP binding site [chemical binding]; other site 717231004690 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 717231004691 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 717231004692 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 717231004693 domain interfaces; other site 717231004694 active site 717231004695 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 717231004696 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 717231004697 active site 717231004698 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 717231004699 dimer interface [polypeptide binding]; other site 717231004700 active site 717231004701 Schiff base residues; other site 717231004702 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 717231004703 Walker A motif; other site 717231004704 ATP binding site [chemical binding]; other site 717231004705 Walker B motif; other site 717231004706 arginine finger; other site 717231004707 FOG: CBS domain [General function prediction only]; Region: COG0517 717231004708 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 717231004709 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231004710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 717231004711 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 717231004712 Walker A/P-loop; other site 717231004713 ATP binding site [chemical binding]; other site 717231004714 Q-loop/lid; other site 717231004715 ABC transporter signature motif; other site 717231004716 Walker B; other site 717231004717 D-loop; other site 717231004718 H-loop/switch region; other site 717231004719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 717231004720 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 717231004721 Walker A/P-loop; other site 717231004722 ATP binding site [chemical binding]; other site 717231004723 Q-loop/lid; other site 717231004724 ABC transporter signature motif; other site 717231004725 Walker B; other site 717231004726 D-loop; other site 717231004727 H-loop/switch region; other site 717231004728 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 717231004729 TM-ABC transporter signature motif; other site 717231004730 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 717231004731 TM-ABC transporter signature motif; other site 717231004732 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 717231004733 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 717231004734 putative ligand binding site [chemical binding]; other site 717231004735 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 717231004736 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 717231004737 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 717231004738 NAD(P) binding site [chemical binding]; other site 717231004739 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 717231004740 putative lipid kinase; Reviewed; Region: PRK13057 717231004741 Phospholipid methyltransferase; Region: PEMT; cl00763 717231004742 NMT1-like family; Region: NMT1_2; cl15260 717231004743 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 717231004744 mce related protein; Region: MCE; pfam02470 717231004745 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 717231004746 dimer interface [polypeptide binding]; other site 717231004747 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 717231004748 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 717231004749 Walker A/P-loop; other site 717231004750 ATP binding site [chemical binding]; other site 717231004751 Q-loop/lid; other site 717231004752 ABC transporter signature motif; other site 717231004753 Walker B; other site 717231004754 D-loop; other site 717231004755 H-loop/switch region; other site 717231004756 Permease; Region: Permease; cl00510 717231004757 alanine racemase; Reviewed; Region: alr; PRK00053 717231004758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 717231004759 active site 717231004760 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231004761 dimer interface [polypeptide binding]; other site 717231004762 substrate binding site [chemical binding]; other site 717231004763 catalytic residues [active] 717231004764 peptide chain release factor 2; Validated; Region: prfB; PRK00578 717231004765 RF-1 domain; Region: RF-1; cl02875 717231004766 RF-1 domain; Region: RF-1; cl02875 717231004767 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 717231004768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231004769 Coenzyme A binding pocket [chemical binding]; other site 717231004770 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 717231004771 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 717231004772 citrate (Si)-synthase, eukaryotic; Region: cit_synth_euk; TIGR01793 717231004773 oxalacetate binding site [chemical binding]; other site 717231004774 citrylCoA binding site [chemical binding]; other site 717231004775 coenzyme A binding site [chemical binding]; other site 717231004776 catalytic triad [active] 717231004777 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 717231004778 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 717231004779 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 717231004780 active site 717231004781 substrate binding site [chemical binding]; other site 717231004782 metal binding site [ion binding]; metal-binding site 717231004783 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 717231004784 active site 717231004785 substrate-binding site [chemical binding]; other site 717231004786 metal-binding site [ion binding] 717231004787 ATP binding site [chemical binding]; other site 717231004788 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 717231004789 active site 717231004790 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 717231004791 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 717231004792 motif 1; other site 717231004793 active site 717231004794 motif 2; other site 717231004795 motif 3; other site 717231004796 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 717231004797 DHHA1 domain; Region: DHHA1; pfam02272 717231004798 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 717231004799 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 717231004800 putative active site [active] 717231004801 putative CoA binding site [chemical binding]; other site 717231004802 nudix motif; other site 717231004803 metal binding site [ion binding]; metal-binding site 717231004804 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 717231004805 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231004806 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 717231004807 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 717231004808 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 717231004809 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 717231004810 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 717231004811 conserved cys residue [active] 717231004812 LPP20 lipoprotein; Region: LPP20; cl15824 717231004813 TolB amino-terminal domain; Region: TolB_N; cl00639 717231004814 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 717231004815 Fe-S cluster binding site [ion binding]; other site 717231004816 active site 717231004817 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 717231004818 Flavoprotein; Region: Flavoprotein; cl08021 717231004819 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 717231004820 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 717231004821 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 717231004822 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 717231004823 catalytic site [active] 717231004824 G-X2-G-X-G-K; other site 717231004825 hypothetical protein; Provisional; Region: PRK11820 717231004826 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 717231004827 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 717231004828 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 717231004829 SurA N-terminal domain; Region: SurA_N_3; cl07813 717231004830 periplasmic folding chaperone; Provisional; Region: PRK10788 717231004831 PPIC-type PPIASE domain; Region: Rotamase; cl08278 717231004832 LrgA family; Region: LrgA; cl00608 717231004833 LrgB-like family; Region: LrgB; cl00596 717231004834 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 717231004835 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 717231004836 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 717231004837 active site 717231004838 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 717231004839 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231004840 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231004841 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 717231004842 Ligand Binding Site [chemical binding]; other site 717231004843 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 717231004844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 717231004845 active site 717231004846 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 717231004847 substrate binding site [chemical binding]; other site 717231004848 catalytic residues [active] 717231004849 dimer interface [polypeptide binding]; other site 717231004850 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 717231004851 IHF dimer interface [polypeptide binding]; other site 717231004852 IHF - DNA interface [nucleotide binding]; other site 717231004853 glycerol kinase; Provisional; Region: glpK; PRK00047 717231004854 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 717231004855 N- and C-terminal domain interface [polypeptide binding]; other site 717231004856 active site 717231004857 MgATP binding site [chemical binding]; other site 717231004858 catalytic site [active] 717231004859 metal binding site [ion binding]; metal-binding site 717231004860 glycerol binding site [chemical binding]; other site 717231004861 homotetramer interface [polypeptide binding]; other site 717231004862 homodimer interface [polypeptide binding]; other site 717231004863 FBP binding site [chemical binding]; other site 717231004864 protein IIAGlc interface [polypeptide binding]; other site 717231004865 YrhK-like protein; Region: YrhK; pfam14145 717231004866 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 717231004867 DHH family; Region: DHH; pfam01368 717231004868 DHHA1 domain; Region: DHHA1; pfam02272 717231004869 Predicted transcriptional regulator [Transcription]; Region: COG2378 717231004870 WYL domain; Region: WYL; cl14852 717231004871 Archaeal ATPase; Region: Arch_ATPase; pfam01637 717231004872 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231004873 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 717231004874 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 717231004875 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 717231004876 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 717231004877 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231004878 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 717231004879 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 717231004880 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 717231004881 oligomeric interface; other site 717231004882 putative active site [active] 717231004883 homodimer interface [polypeptide binding]; other site 717231004884 Transposase domain (DUF772); Region: DUF772; cl15789 717231004885 Transposase domain (DUF772); Region: DUF772; cl15789 717231004886 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004887 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 717231004888 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004889 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 717231004890 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 717231004891 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 717231004892 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 717231004893 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 717231004894 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 717231004895 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl14784 717231004896 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 717231004897 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 717231004898 binding surface 717231004899 TPR motif; other site 717231004900 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 717231004901 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 717231004902 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 717231004903 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 717231004904 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231004905 Transposase domain (DUF772); Region: DUF772; cl15789 717231004906 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231004907 Transposase domain (DUF772); Region: DUF772; cl15789 717231004908 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 717231004909 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 717231004911 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 717231004912 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 717231004913 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 717231004914 DNA binding site [nucleotide binding] 717231004915 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 717231004916 potential frameshift: common BLAST hit: gi|218782120|ref|YP_002433438.1| transposase IS4 family protein 717231004917 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231004918 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 717231004919 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 717231004920 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 717231004921 DNA binding site [nucleotide binding] 717231004922 Int/Topo IB signature motif; other site 717231004923 active site 717231004924 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 717231004925 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 717231004926 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 717231004927 S-adenosylmethionine binding site [chemical binding]; other site 717231004928 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 717231004929 active site 717231004930 substrate binding site [chemical binding]; other site 717231004931 catalytic site [active] 717231004932 Sodium:solute symporter family; Region: SSF; cl00456 717231004933 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 717231004934 Protein of unknown function, DUF485; Region: DUF485; cl01231 717231004935 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 717231004936 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 717231004937 ligand binding site [chemical binding]; other site 717231004938 flexible hinge region; other site 717231004939 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 717231004940 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 717231004941 metal binding triad; other site 717231004942 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 717231004943 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 717231004944 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231004945 PAS domain; Region: PAS_9; pfam13426 717231004946 PAS fold; Region: PAS_4; pfam08448 717231004947 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231004948 putative active site [active] 717231004949 heme pocket [chemical binding]; other site 717231004950 putative diguanylate cyclase; Provisional; Region: PRK09776 717231004951 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 717231004952 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 717231004953 dimer interface [polypeptide binding]; other site 717231004954 phosphorylation site [posttranslational modification] 717231004955 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 717231004956 ATP binding site [chemical binding]; other site 717231004957 Mg2+ binding site [ion binding]; other site 717231004958 G-X-G motif; other site 717231004959 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231004960 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 717231004961 Domain of unknown function DUF21; Region: DUF21; pfam01595 717231004962 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 717231004963 Transporter associated domain; Region: CorC_HlyC; cl08393 717231004964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231004965 metal binding site [ion binding]; metal-binding site 717231004966 active site 717231004967 I-site; other site 717231004968 Protein of unknown function (DUF805); Region: DUF805; cl01224 717231004969 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 717231004970 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 717231004971 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 717231004972 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 717231004973 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 717231004974 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 717231004975 rRNA interaction site [nucleotide binding]; other site 717231004976 S8 interaction site; other site 717231004977 putative laminin-1 binding site; other site 717231004978 elongation factor Ts; Reviewed; Region: tsf; PRK12332 717231004979 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 717231004980 Elongation factor TS; Region: EF_TS; pfam00889 717231004981 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 717231004982 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 717231004983 active site 717231004984 homodimer interface [polypeptide binding]; other site 717231004985 catalytic site [active] 717231004986 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 717231004987 anti sigma factor interaction site; other site 717231004988 regulatory phosphorylation site [posttranslational modification]; other site 717231004989 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 717231004990 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 717231004991 FMN binding site [chemical binding]; other site 717231004992 substrate binding site [chemical binding]; other site 717231004993 putative catalytic residue [active] 717231004994 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 717231004995 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 717231004996 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 717231004997 protein binding site [polypeptide binding]; other site 717231004998 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 717231004999 protein binding site [polypeptide binding]; other site 717231005000 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 717231005001 Putative zinc-finger; Region: zf-HC2; cl15806 717231005002 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 717231005003 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231005004 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 717231005005 DNA binding residues [nucleotide binding] 717231005006 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005007 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 717231005008 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 717231005009 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 717231005010 non-specific DNA binding site [nucleotide binding]; other site 717231005011 salt bridge; other site 717231005012 sequence-specific DNA binding site [nucleotide binding]; other site 717231005013 Cupin domain; Region: Cupin_2; cl09118 717231005014 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 717231005015 Rubredoxin; Region: Rubredoxin; pfam00301 717231005016 iron binding site [ion binding]; other site 717231005017 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 717231005018 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231005019 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 717231005020 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 717231005021 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005022 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; cl15357 717231005023 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 717231005024 Cation transport protein; Region: TrkH; cl10514 717231005025 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 717231005026 Rubredoxin; Region: Rubredoxin; pfam00301 717231005027 iron binding site [ion binding]; other site 717231005028 NifU-like domain; Region: NifU; cl00484 717231005029 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 717231005030 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 717231005031 trimerization site [polypeptide binding]; other site 717231005032 active site 717231005033 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 717231005034 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 717231005035 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231005036 catalytic residue [active] 717231005037 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 717231005038 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 717231005039 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 717231005040 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 717231005041 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 717231005042 binding surface 717231005043 TPR motif; other site 717231005044 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 717231005045 binding surface 717231005046 TPR motif; other site 717231005047 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 717231005048 binding surface 717231005049 TPR motif; other site 717231005050 Type III pantothenate kinase; Region: Pan_kinase; cl09130 717231005051 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 717231005052 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 717231005053 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 717231005054 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 717231005055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005056 active site 717231005057 phosphorylation site [posttranslational modification] 717231005058 intermolecular recognition site; other site 717231005059 InterPro IPR004462; KEGG: mem:Memar_0164 desulfoferrodoxin Dfx domain-containing protein; PFAM: Desulfoferrodoxin Dfx; TIGRFAM: Desulfoferrodoxin Dfx 717231005060 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 717231005061 non-heme iron binding site [ion binding]; other site 717231005062 dimer interface [polypeptide binding]; other site 717231005063 Transcriptional regulator; Region: Transcrip_reg; cl00361 717231005064 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 717231005065 active site 717231005066 putative DNA-binding cleft [nucleotide binding]; other site 717231005067 dimer interface [polypeptide binding]; other site 717231005068 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 717231005069 RuvA N terminal domain; Region: RuvA_N; pfam01330 717231005070 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 717231005071 cell division protein FtsZ; Validated; Region: PRK09330 717231005072 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 717231005073 nucleotide binding site [chemical binding]; other site 717231005074 SulA interaction site; other site 717231005075 cell division protein FtsA; Region: ftsA; TIGR01174 717231005076 Cell division protein FtsA; Region: FtsA; cl11496 717231005077 Cell division protein FtsA; Region: FtsA; cl11496 717231005078 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 717231005079 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 717231005080 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 717231005081 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231005082 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 717231005083 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005084 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005085 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 717231005086 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 717231005087 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 717231005088 active site 717231005089 homodimer interface [polypeptide binding]; other site 717231005090 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 717231005091 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 717231005092 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005093 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 717231005094 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 717231005095 Mg++ binding site [ion binding]; other site 717231005096 putative catalytic motif [active] 717231005097 putative substrate binding site [chemical binding]; other site 717231005098 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 717231005099 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005100 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005101 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 717231005102 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 717231005103 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 717231005104 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 717231005105 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 717231005106 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 717231005107 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 717231005108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005109 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 717231005110 cell division protein MraZ; Reviewed; Region: PRK00326 717231005111 MraZ protein; Region: MraZ; pfam02381 717231005112 MraZ protein; Region: MraZ; pfam02381 717231005113 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 717231005114 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 717231005115 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 717231005116 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 717231005117 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 717231005118 alpha subunit interaction interface [polypeptide binding]; other site 717231005119 Walker A motif; other site 717231005120 ATP binding site [chemical binding]; other site 717231005121 Walker B motif; other site 717231005122 inhibitor binding site; inhibition site 717231005123 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231005124 ATP synthase; Region: ATP-synt; cl00365 717231005125 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 717231005126 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 717231005127 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 717231005128 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 717231005129 beta subunit interaction interface [polypeptide binding]; other site 717231005130 Walker A motif; other site 717231005131 ATP binding site [chemical binding]; other site 717231005132 Walker B motif; other site 717231005133 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 717231005134 Plant ATP synthase F0; Region: YMF19; cl07975 717231005135 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 717231005136 Plant ATP synthase F0; Region: YMF19; cl07975 717231005137 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 717231005138 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 717231005139 Plant ATP synthase F0; Region: YMF19; cl07975 717231005140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 717231005141 Helix-turn-helix domains; Region: HTH; cl00088 717231005142 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 717231005143 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 717231005144 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231005145 metal binding site [ion binding]; metal-binding site 717231005146 active site 717231005147 I-site; other site 717231005148 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 717231005149 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005150 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005151 Transposase domain (DUF772); Region: DUF772; cl15789 717231005152 Transposase domain (DUF772); Region: DUF772; cl15789 717231005153 manually curated 717231005154 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 717231005155 transposase/IS protein; Provisional; Region: PRK09183 717231005156 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 717231005157 Walker A motif; other site 717231005158 ATP binding site [chemical binding]; other site 717231005159 Walker B motif; other site 717231005160 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005161 Integrase core domain; Region: rve; cl01316 717231005162 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 717231005163 active site 1 [active] 717231005164 dimer interface [polypeptide binding]; other site 717231005165 hexamer interface [polypeptide binding]; other site 717231005166 active site 2 [active] 717231005167 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 717231005168 Transglycosylase SLT domain; Region: SLT_2; pfam13406 717231005169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231005170 Heme NO binding; Region: HNOB; cl15268 717231005171 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 717231005172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231005173 metal binding site [ion binding]; metal-binding site 717231005174 active site 717231005175 I-site; other site 717231005176 Transposase domain (DUF772); Region: DUF772; cl15789 717231005177 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005178 Transposase domain (DUF772); Region: DUF772; cl15789 717231005179 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 717231005180 Quinolinate synthetase A protein; Region: NadA; cl00420 717231005181 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 717231005182 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 717231005183 putative active site [active] 717231005184 metal binding site [ion binding]; metal-binding site 717231005185 homodimer binding site [polypeptide binding]; other site 717231005186 phosphodiesterase; Provisional; Region: PRK12704 717231005187 Plant ATP synthase F0; Region: YMF19; cl07975 717231005188 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231005189 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 717231005190 recombination factor protein RarA; Reviewed; Region: PRK13342 717231005191 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 717231005192 Walker A motif; other site 717231005193 ATP binding site [chemical binding]; other site 717231005194 Walker B motif; other site 717231005195 arginine finger; other site 717231005196 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 717231005197 Cell division protein ZapA; Region: ZapA; cl01146 717231005198 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 717231005199 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 717231005200 putative tRNA-binding site [nucleotide binding]; other site 717231005201 B3/4 domain; Region: B3_4; cl11458 717231005202 tRNA synthetase B5 domain; Region: B5; cl08394 717231005203 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 717231005204 dimer interface [polypeptide binding]; other site 717231005205 motif 1; other site 717231005206 motif 3; other site 717231005207 motif 2; other site 717231005208 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 717231005209 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 717231005210 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 717231005211 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 717231005212 dimer interface [polypeptide binding]; other site 717231005213 motif 1; other site 717231005214 active site 717231005215 motif 2; other site 717231005216 motif 3; other site 717231005217 ribosomal protein L20; Region: rpl20; CHL00068 717231005218 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 717231005219 23S rRNA binding site [nucleotide binding]; other site 717231005220 L21 binding site [polypeptide binding]; other site 717231005221 L13 binding site [polypeptide binding]; other site 717231005222 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 717231005223 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 717231005224 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 717231005225 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 717231005226 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 717231005227 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 717231005228 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 717231005229 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 717231005230 active site 717231005231 dimer interface [polypeptide binding]; other site 717231005232 motif 1; other site 717231005233 motif 2; other site 717231005234 motif 3; other site 717231005235 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 717231005236 anticodon binding site; other site 717231005237 InterPro IPR003346; KEGG: sat:SYN_03159 transposase; PFAM: Transposase, IS116/IS110/IS902; SPTR: Transposase 717231005238 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231005239 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231005240 Transposase domain (DUF772); Region: DUF772; cl15789 717231005241 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005242 Transposase domain (DUF772); Region: DUF772; cl15789 717231005243 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 717231005244 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 717231005245 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 717231005246 Nucleoside recognition; Region: Gate; cl00486 717231005247 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 717231005248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231005249 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231005250 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 717231005251 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 717231005252 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231005253 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231005254 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 717231005255 Helix-turn-helix domains; Region: HTH; cl00088 717231005256 Helix-turn-helix domains; Region: HTH; cl00088 717231005257 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231005258 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 717231005259 Transposase domain (DUF772); Region: DUF772; cl15789 717231005260 Transposase domain (DUF772); Region: DUF772; cl15789 717231005261 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231005262 Transposase domain (DUF772); Region: DUF772; cl15789 717231005263 Transposase domain (DUF772); Region: DUF772; cl15789 717231005264 COGs: COG4584 Transposase and inactivated derivatives; InterPro IPR001584; KEGG: mac:MA2579 transposase; PFAM: Integrase, catalytic core; SPTR: Transposase, IS21 717231005265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005266 Helix-turn-helix domains; Region: HTH; cl00088 717231005267 Integrase core domain; Region: rve; cl01316 717231005268 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231005269 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 717231005270 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 717231005271 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 717231005272 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 717231005273 putative active site [active] 717231005274 catalytic triad [active] 717231005275 putative dimer interface [polypeptide binding]; other site 717231005276 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 717231005277 Putative pyruvate format-lyase activating enzyme (DUF1786); Region: DUF1786; cl01638 717231005278 Cobalt transport protein; Region: CbiQ; cl00463 717231005279 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 717231005280 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 717231005281 dimerization interface 3.5A [polypeptide binding]; other site 717231005282 active site 717231005283 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; cl03005 717231005284 Zn-finger in Ran binding protein and others; Region: zf-RanBP; cl02656 717231005285 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 717231005286 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 717231005287 putative ADP-binding pocket [chemical binding]; other site 717231005288 Transposase domain (DUF772); Region: DUF772; cl15789 717231005289 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005290 Transposase domain (DUF772); Region: DUF772; cl15789 717231005291 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 717231005292 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 717231005293 ThiS interaction site; other site 717231005294 putative active site [active] 717231005295 tetramer interface [polypeptide binding]; other site 717231005296 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 717231005297 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 717231005298 FeS/SAM binding site; other site 717231005299 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 717231005300 TRAM domain; Region: TRAM; cl01282 717231005301 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 717231005302 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 717231005303 S-adenosylmethionine binding site [chemical binding]; other site 717231005304 Cache domain; Region: Cache_1; pfam02743 717231005305 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 717231005306 dimerization interface [polypeptide binding]; other site 717231005307 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 717231005308 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 717231005309 Magnesium ion binding site [ion binding]; other site 717231005310 ParB-like partition proteins; Region: parB_part; TIGR00180 717231005311 ParB-like nuclease domain; Region: ParBc; cl02129 717231005312 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 717231005313 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 717231005314 substrate binding site [chemical binding]; other site 717231005315 dimer interface [polypeptide binding]; other site 717231005316 catalytic triad [active] 717231005317 Preprotein translocase SecG subunit; Region: SecG; cl09123 717231005318 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 717231005319 peptide binding site [polypeptide binding]; other site 717231005320 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 717231005321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 717231005322 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005323 dimer interface [polypeptide binding]; other site 717231005324 conserved gate region; other site 717231005325 putative PBP binding loops; other site 717231005326 ABC-ATPase subunit interface; other site 717231005327 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 717231005328 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005329 dimer interface [polypeptide binding]; other site 717231005330 conserved gate region; other site 717231005331 putative PBP binding loops; other site 717231005332 ABC-ATPase subunit interface; other site 717231005333 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 717231005334 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 717231005335 putative NAD(P) binding site [chemical binding]; other site 717231005336 active site 717231005337 hypothetical protein; Reviewed; Region: PRK00024 717231005338 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 717231005339 MPN+ (JAMM) motif; other site 717231005340 Zinc-binding site [ion binding]; other site 717231005342 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 717231005343 Transposase domain (DUF772); Region: DUF772; cl15789 717231005344 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005345 Transposase domain (DUF772); Region: DUF772; cl15789 717231005346 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 717231005347 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231005348 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 717231005349 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 717231005350 ATP binding site [chemical binding]; other site 717231005351 putative Mg++ binding site [ion binding]; other site 717231005352 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 717231005353 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 717231005354 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 717231005355 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 717231005356 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 717231005357 pyruvate carboxylase; Reviewed; Region: PRK12999 717231005358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231005359 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231005360 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 717231005361 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 717231005362 active site 717231005363 catalytic residues [active] 717231005364 metal binding site [ion binding]; metal-binding site 717231005365 homodimer binding site [polypeptide binding]; other site 717231005366 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 717231005367 carboxyltransferase (CT) interaction site; other site 717231005368 biotinylation site [posttranslational modification]; other site 717231005369 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 717231005370 THUMP domain; Region: THUMP; cl12076 717231005371 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 717231005372 Ligand Binding Site [chemical binding]; other site 717231005373 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 717231005374 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 717231005375 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231005376 catalytic residue [active] 717231005377 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 717231005378 molybdopterin cofactor binding site; other site 717231005379 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 717231005380 molybdopterin cofactor binding site; other site 717231005381 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 717231005382 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 717231005383 Walker A/P-loop; other site 717231005384 ATP binding site [chemical binding]; other site 717231005385 Q-loop/lid; other site 717231005386 ABC transporter signature motif; other site 717231005387 Walker B; other site 717231005388 D-loop; other site 717231005389 H-loop/switch region; other site 717231005390 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 717231005391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005392 dimer interface [polypeptide binding]; other site 717231005393 conserved gate region; other site 717231005394 putative PBP binding loops; other site 717231005395 ABC-ATPase subunit interface; other site 717231005396 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 717231005397 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005398 dimer interface [polypeptide binding]; other site 717231005399 conserved gate region; other site 717231005400 putative PBP binding loops; other site 717231005401 ABC-ATPase subunit interface; other site 717231005402 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231005403 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231005404 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005405 dimer interface [polypeptide binding]; other site 717231005406 conserved gate region; other site 717231005407 putative PBP binding loops; other site 717231005408 ABC-ATPase subunit interface; other site 717231005409 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 717231005410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 717231005411 substrate binding pocket [chemical binding]; other site 717231005412 membrane-bound complex binding site; other site 717231005413 hinge residues; other site 717231005414 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231005415 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005416 dimer interface [polypeptide binding]; other site 717231005417 conserved gate region; other site 717231005418 putative PBP binding loops; other site 717231005419 ABC-ATPase subunit interface; other site 717231005420 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 717231005421 FAD binding domain; Region: FAD_binding_4; pfam01565 717231005422 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 717231005423 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 717231005424 Predicted membrane protein [Function unknown]; Region: COG2860 717231005425 UPF0126 domain; Region: UPF0126; pfam03458 717231005426 UPF0126 domain; Region: UPF0126; pfam03458 717231005427 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231005428 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 717231005429 Walker A/P-loop; other site 717231005430 ATP binding site [chemical binding]; other site 717231005431 Q-loop/lid; other site 717231005432 ABC transporter signature motif; other site 717231005433 Walker B; other site 717231005434 D-loop; other site 717231005435 H-loop/switch region; other site 717231005436 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 717231005437 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005438 FtsX-like permease family; Region: FtsX; cl15850 717231005439 GMP synthase; Reviewed; Region: guaA; PRK00074 717231005440 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 717231005441 AMP/PPi binding site [chemical binding]; other site 717231005442 candidate oxyanion hole; other site 717231005443 catalytic triad [active] 717231005444 potential glutamine specificity residues [chemical binding]; other site 717231005445 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 717231005446 ATP Binding subdomain [chemical binding]; other site 717231005447 Ligand Binding sites [chemical binding]; other site 717231005448 Dimerization subdomain; other site 717231005449 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 717231005450 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 717231005451 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 717231005452 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 717231005453 active site 717231005454 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 717231005455 NAD synthase; Region: NAD_synthase; pfam02540 717231005456 homodimer interface [polypeptide binding]; other site 717231005457 NAD binding pocket [chemical binding]; other site 717231005458 ATP binding pocket [chemical binding]; other site 717231005459 Mg binding site [ion binding]; other site 717231005460 active-site loop [active] 717231005461 Predicted amidohydrolase [General function prediction only]; Region: COG0388 717231005462 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 717231005463 active site 717231005464 catalytic triad [active] 717231005465 dimer interface [polypeptide binding]; other site 717231005466 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 717231005467 trimer interface [polypeptide binding]; other site 717231005468 dimer interface [polypeptide binding]; other site 717231005469 putative active site [active] 717231005470 Bacterial SH3 domain; Region: SH3_3; cl02551 717231005471 GTP-binding protein YchF; Reviewed; Region: PRK09601 717231005472 YchF GTPase; Region: YchF; cd01900 717231005473 G1 box; other site 717231005474 GTP/Mg2+ binding site [chemical binding]; other site 717231005475 Switch I region; other site 717231005476 G2 box; other site 717231005477 Switch II region; other site 717231005478 G3 box; other site 717231005479 G4 box; other site 717231005480 G5 box; other site 717231005481 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 717231005482 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 717231005483 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 717231005484 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 717231005485 putative active site [active] 717231005486 catalytic residue [active] 717231005487 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 717231005488 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 717231005489 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 717231005490 active site 717231005491 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 717231005492 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 717231005493 TPR repeat; Region: TPR_11; pfam13414 717231005494 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 717231005495 TPR motif; other site 717231005496 binding surface 717231005497 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 717231005498 binding surface 717231005499 TPR motif; other site 717231005500 TPR repeat; Region: TPR_11; pfam13414 717231005501 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 717231005502 binding surface 717231005503 TPR motif; other site 717231005504 Tetratricopeptide repeat; Region: TPR_12; pfam13424 717231005505 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 717231005506 TPR motif; other site 717231005507 binding surface 717231005508 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 717231005509 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 717231005510 ATP-grasp domain; Region: ATP-grasp_4; cl03087 717231005511 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 717231005512 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 717231005513 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 717231005514 carboxyltransferase (CT) interaction site; other site 717231005515 biotinylation site [posttranslational modification]; other site 717231005516 elongation factor P; Validated; Region: PRK00529 717231005517 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 717231005518 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 717231005519 RNA binding site [nucleotide binding]; other site 717231005520 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 717231005521 RNA binding site [nucleotide binding]; other site 717231005522 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231005523 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231005524 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 717231005525 active site 717231005526 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 717231005527 trimer interface [polypeptide binding]; other site 717231005528 active site 717231005529 dimer interface [polypeptide binding]; other site 717231005530 Roadblock/LC7 domain; Region: Robl_LC7; cl00886 717231005531 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 717231005532 binding surface 717231005533 TPR motif; other site 717231005534 Tetratricopeptide repeat; Region: TPR_16; pfam13432 717231005535 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 717231005536 active site 717231005537 dimer interface [polypeptide binding]; other site 717231005538 metal binding site [ion binding]; metal-binding site 717231005539 shikimate kinase; Reviewed; Region: aroK; PRK00131 717231005540 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 717231005541 ADP binding site [chemical binding]; other site 717231005542 magnesium binding site [ion binding]; other site 717231005543 putative shikimate binding site; other site 717231005544 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 717231005545 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 717231005546 active site 717231005547 dimerization interface [polypeptide binding]; other site 717231005548 ribonuclease PH; Reviewed; Region: rph; PRK00173 717231005549 Ribonuclease PH; Region: RNase_PH_bact; cd11362 717231005550 hexamer interface [polypeptide binding]; other site 717231005551 active site 717231005552 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 717231005553 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 717231005554 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 717231005555 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 717231005556 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 717231005557 Walker A motif; other site 717231005558 ATP binding site [chemical binding]; other site 717231005559 Walker B motif; other site 717231005560 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 717231005561 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 717231005562 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 717231005563 tandem repeat interface [polypeptide binding]; other site 717231005564 oligomer interface [polypeptide binding]; other site 717231005565 active site residues [active] 717231005566 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 717231005567 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 717231005568 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 717231005569 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 717231005570 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 717231005571 RNA binding site [nucleotide binding]; other site 717231005572 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 717231005573 RNA binding site [nucleotide binding]; other site 717231005574 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 717231005575 RNA binding site [nucleotide binding]; other site 717231005576 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 717231005577 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 717231005578 RNA binding site [nucleotide binding]; other site 717231005579 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 717231005580 RNA binding site [nucleotide binding]; other site 717231005581 LytB protein; Region: LYTB; cl00507 717231005582 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 717231005583 cytidylate kinase; Provisional; Region: cmk; PRK00023 717231005584 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 717231005585 CMP-binding site; other site 717231005586 The sites determining sugar specificity; other site 717231005587 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 717231005588 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 717231005589 hinge; other site 717231005590 active site 717231005591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005592 Prephenate dehydrogenase; Region: PDH; pfam02153 717231005593 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 717231005594 NeuB family; Region: NeuB; cl00496 717231005595 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 717231005596 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 717231005597 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231005598 homodimer interface [polypeptide binding]; other site 717231005599 catalytic residue [active] 717231005600 Chorismate mutase type II; Region: CM_2; cl00693 717231005601 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 717231005602 Prephenate dehydratase; Region: PDT; pfam00800 717231005603 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 717231005604 putative L-Phe binding site [chemical binding]; other site 717231005605 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 717231005606 Rubrerythrin [Energy production and conversion]; Region: COG1592 717231005607 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 717231005608 binuclear metal center [ion binding]; other site 717231005609 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 717231005610 iron binding site [ion binding]; other site 717231005611 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 717231005612 PPIC-type PPIASE domain; Region: Rotamase; cl08278 717231005613 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005614 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 717231005615 PhoU domain; Region: PhoU; pfam01895 717231005616 PhoU domain; Region: PhoU; pfam01895 717231005617 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 717231005618 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005619 active site 717231005620 phosphorylation site [posttranslational modification] 717231005621 intermolecular recognition site; other site 717231005622 dimerization interface [polypeptide binding]; other site 717231005623 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 717231005624 DNA binding site [nucleotide binding] 717231005625 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 717231005626 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 717231005627 dimer interface [polypeptide binding]; other site 717231005628 phosphorylation site [posttranslational modification] 717231005629 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 717231005630 ATP binding site [chemical binding]; other site 717231005631 Mg2+ binding site [ion binding]; other site 717231005632 G-X-G motif; other site 717231005633 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 717231005634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005635 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 717231005636 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 717231005637 nudix motif; other site 717231005638 Clp protease ATP binding subunit; Region: clpC; CHL00095 717231005639 Clp amino terminal domain; Region: Clp_N; pfam02861 717231005640 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 717231005641 Walker A motif; other site 717231005642 ATP binding site [chemical binding]; other site 717231005643 Walker B motif; other site 717231005644 arginine finger; other site 717231005645 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 717231005646 Walker A motif; other site 717231005647 ATP binding site [chemical binding]; other site 717231005648 Walker B motif; other site 717231005649 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 717231005650 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 717231005651 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231005652 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 717231005653 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 717231005654 active site 717231005655 catalytic residues [active] 717231005656 metal binding site [ion binding]; metal-binding site 717231005657 glyoxylate reductase; Reviewed; Region: PRK13243 717231005658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005659 Flagellin N-methylase; Region: FliB; cl00497 717231005660 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 717231005661 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 717231005662 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 717231005663 Walker A motif; other site 717231005664 ATP binding site [chemical binding]; other site 717231005665 Walker B motif; other site 717231005666 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231005667 Transposase domain (DUF772); Region: DUF772; cl15789 717231005668 Transposase domain (DUF772); Region: DUF772; cl15789 717231005669 InterPro IPR003173; KEGG: lil:LA_4329 transcriptional coactivator-like protein; PFAM: Transcriptional coactivator p15; SPTR: Transcriptional coactivator P15 717231005670 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 717231005671 SprT homologues; Region: SprT; cl01182 717231005672 SprT-like family; Region: SprT-like; pfam10263 717231005673 Protein of unknown function (DUF2283); Region: DUF2283; cl02251 717231005674 Short C-terminal domain; Region: SHOCT; cl01373 717231005675 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 717231005676 Domon-like ligand-binding domains; Region: DOMON_like; cl14783 717231005677 putative ligand binding site [chemical binding]; other site 717231005678 Response regulator receiver domain; Region: Response_reg; pfam00072 717231005679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005680 active site 717231005681 phosphorylation site [posttranslational modification] 717231005682 intermolecular recognition site; other site 717231005683 dimerization interface [polypeptide binding]; other site 717231005684 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 717231005685 dimerization interface [polypeptide binding]; other site 717231005686 putative DNA binding site [nucleotide binding]; other site 717231005687 putative Zn2+ binding site [ion binding]; other site 717231005688 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 717231005689 dimer interface [polypeptide binding]; other site 717231005690 phosphorylation site [posttranslational modification] 717231005691 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 717231005692 ATP binding site [chemical binding]; other site 717231005693 Mg2+ binding site [ion binding]; other site 717231005694 G-X-G motif; other site 717231005695 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231005696 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 717231005697 Walker A/P-loop; other site 717231005698 ATP binding site [chemical binding]; other site 717231005699 Q-loop/lid; other site 717231005700 ABC transporter signature motif; other site 717231005701 Walker B; other site 717231005702 D-loop; other site 717231005703 H-loop/switch region; other site 717231005704 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005705 FtsX-like permease family; Region: FtsX; cl15850 717231005706 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 717231005707 Predicted membrane protein [Function unknown]; Region: COG4393 717231005708 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 717231005709 Fe2+ transport protein; Region: Iron_transport; cl01377 717231005710 Iron permease FTR1 family; Region: FTR1; cl00475 717231005711 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 717231005712 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 717231005713 putative substrate translocation pore; other site 717231005714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231005715 Coenzyme A binding pocket [chemical binding]; other site 717231005716 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 717231005717 KEGG: mpd:MCP_1677 putative signaling protein; SPTR: Putative signaling protein 717231005718 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 717231005719 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 717231005720 NADP binding site [chemical binding]; other site 717231005721 dimer interface [polypeptide binding]; other site 717231005722 Cupin domain; Region: Cupin_2; cl09118 717231005723 EamA-like transporter family; Region: EamA; cl01037 717231005724 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231005725 EamA-like transporter family; Region: EamA; cl01037 717231005726 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 717231005727 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 717231005728 Found in ATP-dependent protease La (LON); Region: LON; smart00464 717231005729 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 717231005730 Walker A motif; other site 717231005731 ATP binding site [chemical binding]; other site 717231005732 Walker B motif; other site 717231005733 arginine finger; other site 717231005734 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 717231005735 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 717231005736 putative dimer interface [polypeptide binding]; other site 717231005737 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 717231005738 active site 717231005739 tetramer interface; other site 717231005740 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 717231005741 putative ligand binding pocket/active site [active] 717231005742 putative metal binding site [ion binding]; other site 717231005743 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 717231005744 Response regulator receiver domain; Region: Response_reg; pfam00072 717231005745 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231005746 active site 717231005747 phosphorylation site [posttranslational modification] 717231005748 intermolecular recognition site; other site 717231005749 dimerization interface [polypeptide binding]; other site 717231005750 GAF domain; Region: GAF; cl15785 717231005751 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231005752 Zn2+ binding site [ion binding]; other site 717231005753 Mg2+ binding site [ion binding]; other site 717231005754 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 717231005755 HSP70 interaction site [polypeptide binding]; other site 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 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 717231005760 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 717231005761 catalytic loop [active] 717231005762 iron binding site [ion binding]; other site 717231005763 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 717231005764 FAD binding pocket [chemical binding]; other site 717231005765 FAD binding motif [chemical binding]; other site 717231005766 phosphate binding motif [ion binding]; other site 717231005767 beta-alpha-beta structure motif; other site 717231005768 NAD binding pocket [chemical binding]; other site 717231005769 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 717231005770 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 717231005771 FMN-binding domain; Region: FMN_bind; cl01081 717231005772 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 717231005773 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 717231005774 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 717231005775 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005776 Integrase core domain; Region: rve; cl01316 717231005777 transposase/IS protein; Provisional; Region: PRK09183 717231005778 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 717231005779 Walker A motif; other site 717231005780 ATP binding site [chemical binding]; other site 717231005781 Walker B motif; other site 717231005782 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231005783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231005784 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231005785 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231005786 Transposase domain (DUF772); Region: DUF772; cl15789 717231005787 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005788 Transposase domain (DUF772); Region: DUF772; cl15789 717231005789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005790 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 717231005791 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 717231005792 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 717231005793 catalytic site [active] 717231005794 subunit interface [polypeptide binding]; other site 717231005795 YceG-like family; Region: YceG; pfam02618 717231005796 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 717231005797 dimerization interface [polypeptide binding]; other site 717231005798 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 717231005799 Transposase domain (DUF772); Region: DUF772; cl15789 717231005800 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231005801 Transposase domain (DUF772); Region: DUF772; cl15789 717231005802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231005803 Helix-turn-helix domains; Region: HTH; cl00088 717231005804 Integrase core domain; Region: rve; cl01316 717231005805 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 717231005806 active site 717231005807 NTP binding site [chemical binding]; other site 717231005808 metal binding triad [ion binding]; metal-binding site 717231005809 antibiotic binding site [chemical binding]; other site 717231005810 Transposase IS200 like; Region: Y1_Tnp; cl00848 717231005811 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005812 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 717231005813 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 717231005814 Mg++ binding site [ion binding]; other site 717231005815 putative catalytic motif [active] 717231005816 manually curated 717231005817 InterPro IPR002559; KEGG: sun:SUN_2108 transposase; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 717231005818 Transposase domain (DUF772); Region: DUF772; cl15789 717231005819 Transposase domain (DUF772); Region: DUF772; cl15789 717231005820 COGs: COG5421 Transposase; InterPro IPR002559; KEGG: dal:Dalk_2552 transposase IS4 family protein; PFAM: Transposase, IS4-like; SPTR: Transposase IS4 family protein 717231005821 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231005822 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 717231005823 transposase/IS protein; Provisional; Region: PRK09183 717231005824 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 717231005825 Walker A motif; other site 717231005826 ATP binding site [chemical binding]; other site 717231005827 Walker B motif; other site 717231005828 arginine finger; other site 717231005829 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231005830 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005831 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 717231005832 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 717231005833 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 717231005834 NAD(P) binding site [chemical binding]; other site 717231005835 catalytic residues [active] 717231005836 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231005837 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231005838 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 717231005839 active site 717231005840 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 717231005841 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 717231005842 inhibitor-cofactor binding pocket; inhibition site 717231005843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231005844 catalytic residue [active] 717231005845 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 717231005846 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 717231005847 metal binding site [ion binding]; metal-binding site 717231005848 dimer interface [polypeptide binding]; other site 717231005849 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 717231005850 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 717231005851 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 717231005852 substrate binding pocket [chemical binding]; other site 717231005853 dimer interface [polypeptide binding]; other site 717231005854 inhibitor binding site; inhibition site 717231005855 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 717231005856 B12 binding site [chemical binding]; other site 717231005857 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 717231005858 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 717231005859 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 717231005860 Walker A/P-loop; other site 717231005861 ATP binding site [chemical binding]; other site 717231005862 Q-loop/lid; other site 717231005863 ABC transporter signature motif; other site 717231005864 Walker B; other site 717231005865 D-loop; other site 717231005866 H-loop/switch region; other site 717231005867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005868 dimer interface [polypeptide binding]; other site 717231005869 conserved gate region; other site 717231005870 putative PBP binding loops; other site 717231005871 ABC-ATPase subunit interface; other site 717231005872 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 717231005873 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231005874 dimer interface [polypeptide binding]; other site 717231005875 conserved gate region; other site 717231005876 putative PBP binding loops; other site 717231005877 ABC-ATPase subunit interface; other site 717231005878 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 717231005879 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 717231005880 substrate binding pocket [chemical binding]; other site 717231005881 membrane-bound complex binding site; other site 717231005882 hinge residues; other site 717231005883 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 717231005884 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 717231005885 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 717231005886 active site 717231005887 HIGH motif; other site 717231005888 dimer interface [polypeptide binding]; other site 717231005889 KMSKS motif; other site 717231005890 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 717231005891 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 717231005892 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 717231005893 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 717231005894 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 717231005895 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 717231005896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005897 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 717231005898 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 717231005899 active site 717231005900 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 717231005901 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 717231005902 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 717231005903 trimer interface [polypeptide binding]; other site 717231005904 active site 717231005905 UDP-GlcNAc binding site [chemical binding]; other site 717231005906 lipid binding site [chemical binding]; lipid-binding site 717231005907 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 717231005908 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 717231005909 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 717231005910 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 717231005911 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 717231005912 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 717231005913 Surface antigen; Region: Bac_surface_Ag; cl03097 717231005914 ATP phosphoribosyltransferase; Region: HisG; cl15266 717231005915 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 717231005916 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 717231005917 hinge; other site 717231005918 active site 717231005919 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 717231005920 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 717231005921 S-adenosylmethionine binding site [chemical binding]; other site 717231005922 peptide chain release factor 1; Validated; Region: prfA; PRK00591 717231005923 RF-1 domain; Region: RF-1; cl02875 717231005924 RF-1 domain; Region: RF-1; cl02875 717231005925 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 717231005926 Thymidylate synthase complementing protein; Region: Thy1; cl03630 717231005927 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 717231005928 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231005929 Q-loop/lid; other site 717231005930 ABC transporter signature motif; other site 717231005931 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 717231005932 23S rRNA interface [nucleotide binding]; other site 717231005933 L3 interface [polypeptide binding]; other site 717231005934 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 717231005935 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 717231005936 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 717231005937 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 717231005938 RimM N-terminal domain; Region: RimM; pfam01782 717231005939 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 717231005940 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 717231005941 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 717231005942 signal recognition particle protein; Provisional; Region: PRK10867 717231005943 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 717231005944 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 717231005945 P loop; other site 717231005946 GTP binding site [chemical binding]; other site 717231005947 Signal peptide binding domain; Region: SRP_SPB; pfam02978 717231005948 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 717231005949 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 717231005950 CoA-binding site [chemical binding]; other site 717231005951 ATP-binding [chemical binding]; other site 717231005952 Flagellin N-methylase; Region: FliB; cl00497 717231005953 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 717231005954 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 717231005955 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 717231005956 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 717231005957 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 717231005958 active site 717231005959 NTP binding site [chemical binding]; other site 717231005960 metal binding triad [ion binding]; metal-binding site 717231005961 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 717231005962 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231005963 Zn2+ binding site [ion binding]; other site 717231005964 Mg2+ binding site [ion binding]; other site 717231005965 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 717231005966 active site 717231005967 metal binding site [ion binding]; metal-binding site 717231005968 homotetramer interface [polypeptide binding]; other site 717231005969 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 717231005970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231005971 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005972 transcription termination factor Rho; Provisional; Region: rho; PRK09376 717231005973 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 717231005974 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 717231005975 RNA binding site [nucleotide binding]; other site 717231005976 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 717231005977 multimer interface [polypeptide binding]; other site 717231005978 Walker A motif; other site 717231005979 ATP binding site [chemical binding]; other site 717231005980 Walker B motif; other site 717231005981 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231005982 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 717231005983 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 717231005984 AzlC protein; Region: AzlC; cl00570 717231005985 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231005986 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 717231005987 Tetramer interface [polypeptide binding]; other site 717231005988 active site 717231005989 FMN-binding site [chemical binding]; other site 717231005990 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 717231005991 CrcB-like protein; Region: CRCB; cl09114 717231005992 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 717231005993 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 717231005994 putative NAD(P) binding site [chemical binding]; other site 717231005995 putative substrate binding site [chemical binding]; other site 717231005996 catalytic Zn binding site [ion binding]; other site 717231005997 structural Zn binding site [ion binding]; other site 717231005998 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 717231005999 AMP-binding enzyme; Region: AMP-binding; cl15778 717231006000 AMP-binding enzyme; Region: AMP-binding; cl15778 717231006001 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 717231006002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231006004 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231006005 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231006006 PilZ domain; Region: PilZ; cl01260 717231006007 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 717231006008 Zn2+ binding site [ion binding]; other site 717231006009 Mg2+ binding site [ion binding]; other site 717231006010 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006011 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006012 Uncharacterized conserved protein [Function unknown]; Region: COG3391 717231006013 PPIC-type PPIASE domain; Region: Rotamase; cl08278 717231006014 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006015 Transposase domain (DUF772); Region: DUF772; cl15789 717231006016 Transposase domain (DUF772); Region: DUF772; cl15789 717231006017 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231006018 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006019 active site 717231006020 phosphorylation site [posttranslational modification] 717231006021 intermolecular recognition site; other site 717231006022 dimerization interface [polypeptide binding]; other site 717231006023 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 717231006024 Walker A motif; other site 717231006025 ATP binding site [chemical binding]; other site 717231006026 Walker B motif; other site 717231006027 arginine finger; other site 717231006028 Helix-turn-helix domains; Region: HTH; cl00088 717231006029 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 717231006030 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 717231006031 dimer interface [polypeptide binding]; other site 717231006032 phosphorylation site [posttranslational modification] 717231006033 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 717231006034 ATP binding site [chemical binding]; other site 717231006035 Mg2+ binding site [ion binding]; other site 717231006036 G-X-G motif; other site 717231006037 NHL repeat; Region: NHL; pfam01436 717231006038 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 717231006039 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006040 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006041 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006042 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231006043 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 717231006044 binding surface 717231006045 TPR motif; other site 717231006046 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006047 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006048 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006049 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006050 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006051 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006052 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006053 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006054 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006055 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 717231006056 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; cl09905 717231006057 Uncharacterized conserved protein [Function unknown]; Region: COG3391 717231006058 NHL repeat; Region: NHL; pfam01436 717231006059 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 717231006060 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 717231006061 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 717231006062 Response regulator receiver domain; Region: Response_reg; pfam00072 717231006063 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006064 active site 717231006065 phosphorylation site [posttranslational modification] 717231006066 intermolecular recognition site; other site 717231006067 dimerization interface [polypeptide binding]; other site 717231006068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231006069 metal binding site [ion binding]; metal-binding site 717231006070 active site 717231006071 I-site; other site 717231006072 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 717231006073 catalytic residues [active] 717231006074 GTP-binding protein Der; Reviewed; Region: PRK00093 717231006075 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 717231006076 G1 box; other site 717231006077 GTP/Mg2+ binding site [chemical binding]; other site 717231006078 Switch I region; other site 717231006079 G2 box; other site 717231006080 Switch II region; other site 717231006081 G3 box; other site 717231006082 G4 box; other site 717231006083 G5 box; other site 717231006084 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 717231006085 G1 box; other site 717231006086 GTP/Mg2+ binding site [chemical binding]; other site 717231006087 Switch I region; other site 717231006088 G2 box; other site 717231006089 G3 box; other site 717231006090 Switch II region; other site 717231006091 G4 box; other site 717231006092 G5 box; other site 717231006093 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 717231006094 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 717231006095 HIGH motif; other site 717231006096 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 717231006097 active site 717231006098 KMSKS motif; other site 717231006099 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006100 active site 717231006101 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 717231006102 phosphorylation site [posttranslational modification] 717231006103 intermolecular recognition site; other site 717231006104 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231006105 active site 717231006106 phosphorylation site [posttranslational modification] 717231006107 intermolecular recognition site; other site 717231006108 dimerization interface [polypeptide binding]; other site 717231006109 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 717231006110 metal binding site [ion binding]; metal-binding site 717231006111 active site 717231006112 I-site; other site 717231006113 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 717231006114 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 717231006115 chorismate binding enzyme; Region: Chorismate_bind; cl10555 717231006116 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 717231006117 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 717231006118 glutamine binding [chemical binding]; other site 717231006119 catalytic triad [active] 717231006120 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 717231006121 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 717231006122 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 717231006123 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 717231006124 active site 717231006125 ribulose/triose binding site [chemical binding]; other site 717231006126 phosphate binding site [ion binding]; other site 717231006127 substrate (anthranilate) binding pocket [chemical binding]; other site 717231006128 product (indole) binding pocket [chemical binding]; other site 717231006129 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 717231006130 active site 717231006131 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 717231006132 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 717231006133 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006134 catalytic residue [active] 717231006135 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 717231006136 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 717231006137 substrate binding site [chemical binding]; other site 717231006138 active site 717231006139 catalytic residues [active] 717231006140 heterodimer interface [polypeptide binding]; other site 717231006141 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 717231006142 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 717231006143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006144 Walker A/P-loop; other site 717231006145 ATP binding site [chemical binding]; other site 717231006146 Q-loop/lid; other site 717231006147 ABC transporter signature motif; other site 717231006148 Walker B; other site 717231006149 D-loop; other site 717231006150 H-loop/switch region; other site 717231006151 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006152 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 717231006153 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 717231006154 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 717231006155 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231006156 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 717231006157 dimer interface [polypeptide binding]; other site 717231006158 motif 1; other site 717231006159 active site 717231006160 motif 2; other site 717231006161 motif 3; other site 717231006162 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 717231006163 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 717231006164 ANP binding site [chemical binding]; other site 717231006165 Substrate Binding Site II [chemical binding]; other site 717231006166 Substrate Binding Site I [chemical binding]; other site 717231006167 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 717231006168 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 717231006169 metal binding site [ion binding]; metal-binding site 717231006170 dimer interface [polypeptide binding]; other site 717231006171 selenocysteine synthase; Provisional; Region: PRK04311 717231006172 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 717231006173 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231006174 catalytic residue [active] 717231006175 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 717231006176 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 717231006177 G1 box; other site 717231006178 putative GEF interaction site [polypeptide binding]; other site 717231006179 GTP/Mg2+ binding site [chemical binding]; other site 717231006180 Switch I region; other site 717231006181 G2 box; other site 717231006182 G3 box; other site 717231006183 Switch II region; other site 717231006184 G4 box; other site 717231006185 G5 box; other site 717231006186 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 717231006187 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 717231006188 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 717231006189 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231006190 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006191 Protein of unknown function (DUF494); Region: DUF494; cl01103 717231006192 DNA topoisomerase I; Validated; Region: PRK06599 717231006193 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 717231006194 active site 717231006195 interdomain interaction site; other site 717231006196 putative metal-binding site [ion binding]; other site 717231006197 nucleotide binding site [chemical binding]; other site 717231006198 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 717231006199 domain I; other site 717231006200 DNA binding groove [nucleotide binding] 717231006201 phosphate binding site [ion binding]; other site 717231006202 domain II; other site 717231006203 domain III; other site 717231006204 nucleotide binding site [chemical binding]; other site 717231006205 catalytic site [active] 717231006206 domain IV; other site 717231006207 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006208 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006209 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006210 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 717231006211 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006212 Glucose inhibited division protein A; Region: GIDA; pfam01134 717231006213 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 717231006214 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 717231006215 DNA binding site [nucleotide binding] 717231006216 Int/Topo IB signature motif; other site 717231006217 active site 717231006218 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 717231006219 dimerization interface [polypeptide binding]; other site 717231006220 putative ATP binding site [chemical binding]; other site 717231006221 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 717231006222 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 717231006223 CPxP motif; other site 717231006224 DsrE/DsrF-like family; Region: DrsE; cl00672 717231006225 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 717231006226 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 717231006227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006228 homodimer interface [polypeptide binding]; other site 717231006229 catalytic residue [active] 717231006230 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 717231006231 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 717231006232 S-adenosylmethionine binding site [chemical binding]; other site 717231006233 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 717231006234 dimerization interface [polypeptide binding]; other site 717231006235 putative DNA binding site [nucleotide binding]; other site 717231006236 putative Zn2+ binding site [ion binding]; other site 717231006237 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006238 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 717231006239 S-adenosylmethionine binding site [chemical binding]; other site 717231006240 Transposase domain (DUF772); Region: DUF772; cl15789 717231006241 Transposase domain (DUF772); Region: DUF772; cl15789 717231006242 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 717231006243 mercuric reductase; Validated; Region: PRK06370 717231006244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 717231006245 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 717231006246 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 717231006247 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006248 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 717231006249 S-adenosylmethionine binding site [chemical binding]; other site 717231006250 InterPro IPR001173; KEGG: dat:HRM2_00320 glycosyl transferase, group 2 family protein; PFAM: Glycosyl transferase, family 2; SPTR: Glycosyl transferase, group 2 family protein 717231006251 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 717231006252 Probable Catalytic site; other site 717231006253 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 717231006254 PAS fold; Region: PAS; pfam00989 717231006255 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 717231006256 putative active site [active] 717231006257 heme pocket [chemical binding]; other site 717231006258 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 717231006259 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 717231006260 Walker A motif; other site 717231006261 ATP binding site [chemical binding]; other site 717231006262 Walker B motif; other site 717231006263 arginine finger; other site 717231006264 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 717231006265 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 717231006266 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 717231006267 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 717231006268 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231006269 DctM-like transporters; Region: DctM; pfam06808 717231006270 putative acyltransferase; Provisional; Region: PRK05790 717231006271 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 717231006272 dimer interface [polypeptide binding]; other site 717231006273 active site 717231006274 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 717231006275 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 717231006276 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 717231006277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006278 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 717231006279 NAD(P) binding site [chemical binding]; other site 717231006280 active site 717231006281 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 717231006282 4Fe-4S binding domain; Region: Fer4; cl02805 717231006283 ferredoxin; Validated; Region: PRK07118 717231006284 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 717231006285 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 717231006286 inhibitor-cofactor binding pocket; inhibition site 717231006287 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006288 catalytic residue [active] 717231006289 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 717231006290 putative acyl-acceptor binding pocket; other site 717231006291 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 717231006292 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 717231006293 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 717231006294 putative acyl-acceptor binding pocket; other site 717231006295 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 717231006296 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 717231006297 active site 717231006298 motif I; other site 717231006299 motif II; other site 717231006300 ornithine carbamoyltransferase; Provisional; Region: PRK00779 717231006301 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 717231006302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006303 acetylornithine aminotransferase; Provisional; Region: PRK02627 717231006304 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 717231006305 inhibitor-cofactor binding pocket; inhibition site 717231006306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006307 catalytic residue [active] 717231006308 indolepyruvate ferredoxin oxidoreductase, alpha subunit; Region: IOR_alpha; TIGR03336 717231006309 4Fe-4S binding domain; Region: Fer4; cl02805 717231006310 AMMECR1; Region: AMMECR1; cl00911 717231006311 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 717231006312 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 717231006313 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 717231006314 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 717231006315 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006316 KEGG: ddf:DEFDS_2024 hypothetical protein; SPTR: Putative uncharacterized protein 717231006317 intracellular protease, PfpI family; Region: PfpI; TIGR01382 717231006318 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 717231006319 conserved cys residue [active] 717231006320 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 717231006321 anti sigma factor interaction site; other site 717231006322 regulatory phosphorylation site [posttranslational modification]; other site 717231006323 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 717231006324 anti sigma factor interaction site; other site 717231006325 regulatory phosphorylation site [posttranslational modification]; other site 717231006326 HEAT repeats; Region: HEAT_2; pfam13646 717231006327 HEAT repeats; Region: HEAT_2; pfam13646 717231006328 HEAT repeats; Region: HEAT_2; pfam13646 717231006329 HEAT repeats; Region: HEAT_2; pfam13646 717231006330 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 717231006331 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 717231006332 Walker A motif; other site 717231006333 ATP binding site [chemical binding]; other site 717231006334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006335 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 717231006336 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 717231006337 active site 717231006338 HslU subunit interaction site [polypeptide binding]; other site 717231006339 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006340 AAA domain; Region: AAA_32; pfam13654 717231006341 ATP-dependent protease Lon; Provisional; Region: PRK13765 717231006342 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 717231006343 heat shock protein 90; Provisional; Region: PRK05218 717231006344 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 717231006345 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 717231006346 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 717231006347 Ligand Binding Site [chemical binding]; other site 717231006348 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006349 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 717231006350 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 717231006351 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006353 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 717231006354 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 717231006355 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 717231006356 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 717231006357 Protein of unknown function (DUF2860); Region: DUF2860; pfam11059 717231006358 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 717231006359 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 717231006360 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 717231006361 Uncharacterized conserved protein [Function unknown]; Region: COG2006 717231006362 4Fe-4S binding domain; Region: Fer4; cl02805 717231006363 4Fe-4S binding domain; Region: Fer4; cl02805 717231006364 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 717231006365 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 717231006366 hypothetical protein; Provisional; Region: PRK08185 717231006367 intersubunit interface [polypeptide binding]; other site 717231006368 active site 717231006369 zinc binding site [ion binding]; other site 717231006370 Na+ binding site [ion binding]; other site 717231006371 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 717231006372 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 717231006373 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 717231006374 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 717231006375 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 717231006376 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 717231006377 active site 717231006378 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 717231006379 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 717231006380 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 717231006381 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 717231006382 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 717231006383 DNA binding residues [nucleotide binding] 717231006384 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 717231006385 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 717231006386 active site 717231006387 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 717231006388 Helix-turn-helix domains; Region: HTH; cl00088 717231006389 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 717231006390 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 717231006391 minor groove reading motif; other site 717231006392 helix-hairpin-helix signature motif; other site 717231006393 substrate binding pocket [chemical binding]; other site 717231006394 active site 717231006395 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 717231006396 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 717231006397 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 717231006398 catalytic residue [active] 717231006399 Helix-turn-helix domains; Region: HTH; cl00088 717231006400 Rrf2 family protein; Region: rrf2_super; TIGR00738 717231006401 serine O-acetyltransferase; Region: cysE; TIGR01172 717231006402 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 717231006403 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 717231006404 trimer interface [polypeptide binding]; other site 717231006405 active site 717231006406 substrate binding site [chemical binding]; other site 717231006407 CoA binding site [chemical binding]; other site 717231006408 [FeFe] hydrogenase, group B1/B3; Region: FeFe_hydrog_B1; TIGR04105 717231006409 4Fe-4S binding domain; Region: Fer4; cl02805 717231006410 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 717231006411 dimer interface [polypeptide binding]; other site 717231006412 ADP-ribose binding site [chemical binding]; other site 717231006413 active site 717231006414 nudix motif; other site 717231006415 metal binding site [ion binding]; metal-binding site 717231006416 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 717231006417 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 717231006418 Methyltransferase domain; Region: Methyltransf_31; pfam13847 717231006419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006420 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 717231006421 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 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 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 717231006430 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 717231006431 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 717231006432 Cl- selectivity filter; other site 717231006433 Cl- binding residues [ion binding]; other site 717231006434 pore gating glutamate residue; other site 717231006435 dimer interface [polypeptide binding]; other site 717231006436 FOG: CBS domain [General function prediction only]; Region: COG0517 717231006437 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 717231006438 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006439 Domain of unknown function DUF20; Region: UPF0118; pfam01594 717231006440 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 717231006441 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 717231006442 active site 717231006443 intersubunit interactions; other site 717231006444 catalytic residue [active] 717231006445 Protein of unknown function (DUF1517); Region: DUF1517; cl01807 717231006446 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 717231006447 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 717231006448 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 717231006449 G-X-X-G motif; other site 717231006450 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 717231006451 RxxxH motif; other site 717231006452 membrane protein insertase; Provisional; Region: PRK01318 717231006453 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 717231006454 Haemolytic domain; Region: Haemolytic; cl00506 717231006455 Ribonuclease P; Region: Ribonuclease_P; cl00457 717231006456 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 717231006457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006458 Domain of unknown function DUF87; Region: DUF87; pfam01935 717231006459 HerA helicase [Replication, recombination, and repair]; Region: COG0433 717231006460 NurA domain; Region: NurA; cl09134 717231006461 manually curated 717231006462 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Transposase, IS4 family protein 717231006463 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006464 Transposase domain (DUF772); Region: DUF772; cl15789 717231006465 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006466 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 717231006468 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006469 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 717231006470 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 717231006471 putative active site pocket [active] 717231006472 4-fold oligomerization interface [polypeptide binding]; other site 717231006473 metal binding residues [ion binding]; metal-binding site 717231006474 3-fold/trimer interface [polypeptide binding]; other site 717231006475 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 717231006476 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 717231006477 putative active site [active] 717231006478 oxyanion strand; other site 717231006479 catalytic triad [active] 717231006480 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 717231006481 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 717231006482 catalytic residues [active] 717231006483 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 717231006484 tetramer interfaces [polypeptide binding]; other site 717231006485 binuclear metal-binding site [ion binding]; other site 717231006486 competence damage-inducible protein A; Provisional; Region: PRK00549 717231006487 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 717231006488 putative MPT binding site; other site 717231006489 Competence-damaged protein; Region: CinA; cl00666 717231006490 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 717231006491 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 717231006492 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 717231006493 recombinase A; Provisional; Region: recA; PRK09354 717231006494 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 717231006495 hexamer interface [polypeptide binding]; other site 717231006496 Walker A motif; other site 717231006497 ATP binding site [chemical binding]; other site 717231006498 Walker B motif; other site 717231006499 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 717231006500 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006501 ATP binding site [chemical binding]; other site 717231006502 Walker B motif; other site 717231006503 RecX family; Region: RecX; cl00936 717231006504 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 717231006505 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 717231006506 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 717231006507 replicative DNA helicase; Region: DnaB; TIGR00665 717231006508 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 717231006509 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 717231006510 Walker A motif; other site 717231006511 ATP binding site [chemical binding]; other site 717231006512 Walker B motif; other site 717231006513 DNA binding loops [nucleotide binding] 717231006514 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 717231006515 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 717231006516 Peptidase family M48; Region: Peptidase_M48; cl12018 717231006517 prolyl-tRNA synthetase; Provisional; Region: PRK09194 717231006518 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 717231006519 dimer interface [polypeptide binding]; other site 717231006520 motif 1; other site 717231006521 active site 717231006522 motif 2; other site 717231006523 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 717231006524 putative deacylase active site [active] 717231006525 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 717231006526 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 717231006527 anticodon binding site; other site 717231006528 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 717231006529 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 717231006530 FeS/SAM binding site; other site 717231006531 Membrane transport protein; Region: Mem_trans; cl09117 717231006532 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 717231006533 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 717231006534 Walker A motif; other site 717231006535 ATP binding site [chemical binding]; other site 717231006536 Walker B motif; other site 717231006537 arginine finger; other site 717231006538 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 717231006539 DNA repair protein RadA; Provisional; Region: PRK11823 717231006540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006541 Walker A motif; other site 717231006542 ATP binding site [chemical binding]; other site 717231006543 Walker B motif; other site 717231006544 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 717231006545 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 717231006546 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 717231006547 NAD binding site [chemical binding]; other site 717231006548 homotetramer interface [polypeptide binding]; other site 717231006549 homodimer interface [polypeptide binding]; other site 717231006550 substrate binding site [chemical binding]; other site 717231006551 active site 717231006552 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 717231006553 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 717231006554 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 717231006555 Tetratricopeptide repeat; Region: TPR_6; pfam13174 717231006556 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 717231006557 Ferritin-like domain; Region: Ferritin; pfam00210 717231006558 ferroxidase diiron center [ion binding]; other site 717231006559 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231006560 CcmB protein; Region: CcmB; cl01016 717231006561 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 717231006562 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006563 Walker A/P-loop; other site 717231006564 ATP binding site [chemical binding]; other site 717231006565 Q-loop/lid; other site 717231006566 ABC transporter signature motif; other site 717231006567 Walker B; other site 717231006568 D-loop; other site 717231006569 H-loop/switch region; other site 717231006570 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 717231006571 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 717231006572 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 717231006573 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 717231006574 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 717231006575 RNA binding surface [nucleotide binding]; other site 717231006576 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 717231006577 dimer interface [polypeptide binding]; other site 717231006578 substrate binding site [chemical binding]; other site 717231006579 ATP binding site [chemical binding]; other site 717231006580 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 717231006581 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 717231006582 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 717231006583 generic binding surface II; other site 717231006584 generic binding surface I; other site 717231006585 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 717231006586 Walker A motif; other site 717231006587 Competence protein; Region: Competence; cl00471 717231006588 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 717231006589 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 717231006590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006591 ATP binding site [chemical binding]; other site 717231006592 substrate interface [chemical binding]; other site 717231006593 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 717231006594 thiS-thiF/thiG interaction site; other site 717231006595 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 717231006596 DHH family; Region: DHH; pfam01368 717231006597 DHHA1 domain; Region: DHHA1; pfam02272 717231006598 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 717231006599 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 717231006600 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 717231006601 synthetase active site [active] 717231006602 NTP binding site [chemical binding]; other site 717231006603 metal binding site [ion binding]; metal-binding site 717231006604 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 717231006605 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 717231006606 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 717231006607 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 717231006608 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 717231006609 S-adenosylmethionine binding site [chemical binding]; other site 717231006610 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 717231006611 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 717231006612 active site residues [active] 717231006613 dimer interface [polypeptide binding]; other site 717231006614 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 717231006615 Protein of unknown function (DUF493); Region: DUF493; cl01102 717231006616 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 717231006617 Ligand Binding Site [chemical binding]; other site 717231006618 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231006619 NMT1-like family; Region: NMT1_2; cl15260 717231006620 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 717231006621 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 717231006622 GIY-YIG motif/motif A; other site 717231006623 active site 717231006624 catalytic site [active] 717231006625 putative DNA binding site [nucleotide binding]; other site 717231006626 metal binding site [ion binding]; metal-binding site 717231006627 UvrB/uvrC motif; Region: UVR; pfam02151 717231006628 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 717231006629 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 717231006630 rare lipoprotein A; Region: rlpA; TIGR00413 717231006631 Sporulation related domain; Region: SPOR; cl10051 717231006632 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 717231006633 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 717231006634 active site residue [active] 717231006635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 717231006636 Helix-turn-helix domains; Region: HTH; cl00088 717231006637 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 717231006638 putative dimerization interface [polypeptide binding]; other site 717231006639 multifunctional aminopeptidase A; Provisional; Region: PRK00913 717231006640 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 717231006641 interface (dimer of trimers) [polypeptide binding]; other site 717231006642 Substrate-binding/catalytic site; other site 717231006643 Zn-binding sites [ion binding]; other site 717231006644 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 717231006645 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 717231006646 putative active site pocket [active] 717231006647 dimerization interface [polypeptide binding]; other site 717231006648 putative catalytic residue [active] 717231006649 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006650 Transposase domain (DUF772); Region: DUF772; cl15789 717231006651 Transposase domain (DUF772); Region: DUF772; cl15789 717231006652 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 717231006653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 717231006654 active site 717231006655 phosphorylation site [posttranslational modification] 717231006656 intermolecular recognition site; other site 717231006657 dimerization interface [polypeptide binding]; other site 717231006658 Restriction endonuclease; Region: Mrr_cat; cl00516 717231006659 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 717231006660 RNA/DNA hybrid binding site [nucleotide binding]; other site 717231006661 active site 717231006662 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006663 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 717231006664 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 717231006665 GAF domain; Region: GAF_2; pfam13185 717231006666 GAF domain; Region: GAF; cl15785 717231006667 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 717231006668 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 717231006669 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 717231006670 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 717231006671 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 717231006672 domain_subunit interface; other site 717231006673 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 717231006674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006676 NAD(P) binding site [chemical binding]; other site 717231006677 4Fe-4S binding domain; Region: Fer4; cl02805 717231006678 pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional; Region: PRK14028 717231006679 4Fe-4S binding domain; Region: Fer4; cl02805 717231006680 4Fe-4S binding domain; Region: Fer4; cl02805 717231006681 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 717231006682 active site 717231006683 FMN binding site [chemical binding]; other site 717231006684 substrate binding site [chemical binding]; other site 717231006685 3Fe-4S cluster binding site [ion binding]; other site 717231006686 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 717231006687 active site 717231006688 aspartate aminotransferase; Provisional; Region: PRK05764 717231006689 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 717231006690 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006691 homodimer interface [polypeptide binding]; other site 717231006692 catalytic residue [active] 717231006693 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 717231006694 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 717231006695 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 717231006696 GTP1/OBG; Region: GTP1_OBG; pfam01018 717231006697 Obg GTPase; Region: Obg; cd01898 717231006698 G1 box; other site 717231006699 GTP/Mg2+ binding site [chemical binding]; other site 717231006700 Switch I region; other site 717231006701 G2 box; other site 717231006702 G3 box; other site 717231006703 Switch II region; other site 717231006704 G4 box; other site 717231006705 G5 box; other site 717231006706 Protein of unknown function (DUF721); Region: DUF721; cl02324 717231006707 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 717231006708 active site 717231006709 catalytic residues [active] 717231006710 metal binding site [ion binding]; metal-binding site 717231006711 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 717231006712 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 717231006713 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 717231006714 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 717231006715 RNA binding site [nucleotide binding]; other site 717231006716 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231006717 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 717231006718 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 717231006719 putative active site [active] 717231006720 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 717231006721 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 717231006722 putative active site [active] 717231006723 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 717231006724 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 717231006725 putative active site [active] 717231006726 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006727 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 717231006728 Peptidase family M23; Region: Peptidase_M23; pfam01551 717231006729 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 717231006730 heterotetramer interface [polypeptide binding]; other site 717231006731 active site pocket [active] 717231006732 cleavage site 717231006733 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 717231006734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006735 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 717231006736 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 717231006737 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 717231006738 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 717231006739 substrate binding site [chemical binding]; other site 717231006740 glutamase interaction surface [polypeptide binding]; other site 717231006741 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 717231006742 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 717231006743 putative substrate translocation pore; other site 717231006744 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 717231006745 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231006746 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 717231006747 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 717231006748 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 717231006749 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 717231006750 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 717231006751 Family description; Region: UvrD_C_2; cl15862 717231006752 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 717231006753 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 717231006754 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006755 Family description; Region: UvrD_C_2; cl15862 717231006756 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 717231006757 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231006758 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 717231006759 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231006760 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 717231006761 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 717231006762 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 717231006763 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 717231006764 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 717231006765 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 717231006766 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 717231006767 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 717231006768 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 717231006769 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 717231006770 putative MPT binding site; other site 717231006771 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006772 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 717231006773 Walker A/P-loop; other site 717231006774 ATP binding site [chemical binding]; other site 717231006775 Q-loop/lid; other site 717231006776 ABC transporter signature motif; other site 717231006777 Walker B; other site 717231006778 D-loop; other site 717231006779 H-loop/switch region; other site 717231006780 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 717231006781 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 717231006782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 717231006783 dimer interface [polypeptide binding]; other site 717231006784 conserved gate region; other site 717231006785 putative PBP binding loops; other site 717231006786 ABC-ATPase subunit interface; other site 717231006787 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 717231006788 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 717231006789 dimer interface [polypeptide binding]; other site 717231006790 putative functional site; other site 717231006791 putative MPT binding site; other site 717231006792 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 717231006793 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 717231006794 FeS/SAM binding site; other site 717231006795 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 717231006796 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 717231006797 5S rRNA interface [nucleotide binding]; other site 717231006798 CTC domain interface [polypeptide binding]; other site 717231006799 L16 interface [polypeptide binding]; other site 717231006800 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 717231006801 Transposase domain (DUF772); Region: DUF772; cl15789 717231006802 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006803 Transposase domain (DUF772); Region: DUF772; cl15789 717231006804 DsrE/DsrF-like family; Region: DrsE; cl00672 717231006805 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 717231006806 aspartate racemase; Region: asp_race; TIGR00035 717231006807 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 717231006808 putative deacylase active site [active] 717231006809 phosphoglycolate phosphatase; Provisional; Region: PRK13222 717231006810 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 717231006811 motif II; other site 717231006812 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 717231006813 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 717231006814 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 717231006815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231006816 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 717231006817 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 717231006818 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 717231006819 Radical SAM superfamily; Region: Radical_SAM; pfam04055 717231006820 FeS/SAM binding site; other site 717231006821 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 717231006822 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 717231006823 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 717231006824 homodimer interface [polypeptide binding]; other site 717231006825 NAD binding pocket [chemical binding]; other site 717231006826 ATP binding pocket [chemical binding]; other site 717231006827 Mg binding site [ion binding]; other site 717231006828 active-site loop [active] 717231006829 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 717231006830 active site 717231006831 nucleophile elbow; other site 717231006832 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 717231006833 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 717231006834 putative active site [active] 717231006835 putative NTP binding site [chemical binding]; other site 717231006836 putative nucleic acid binding site [nucleotide binding]; other site 717231006837 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 717231006838 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231006839 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231006840 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 717231006841 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 717231006842 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 717231006843 putative [4Fe-4S] binding site [ion binding]; other site 717231006844 putative molybdopterin cofactor binding site [chemical binding]; other site 717231006845 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 717231006846 molybdopterin cofactor binding site; other site 717231006847 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 717231006848 COGs: COG4584 Transposase and inactivated derivatives; KEGG: toc:Toce_1959 integrase catalytic region; SPTR: Integrase catalytic region 717231006849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 717231006850 Integrase core domain; Region: rve; cl01316 717231006851 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006852 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 717231006853 InterPro IPR002559; KEGG: pop:POPTR_597343 hypothetical protein; PFAM: Transposase, IS4-like; SPTR: Probable transposase 717231006854 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006855 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006856 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 717231006857 Predicted permease; Region: DUF318; pfam03773 717231006858 Predicted permeases [General function prediction only]; Region: COG0701 717231006859 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) 717231006860 Low molecular weight phosphatase family; Region: LMWPc; cd00115 717231006861 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 717231006862 active site 717231006863 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 717231006864 Moco binding site; other site 717231006865 metal coordination site [ion binding]; other site 717231006866 Predicted acetyltransferase [General function prediction only]; Region: COG3153 717231006867 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 717231006868 Coenzyme A binding pocket [chemical binding]; other site 717231006869 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 717231006870 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 717231006871 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 717231006872 DNA-binding site [nucleotide binding]; DNA binding site 717231006873 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 717231006874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006875 homodimer interface [polypeptide binding]; other site 717231006876 catalytic residue [active] 717231006877 KEGG: aeh:Mlg_0129 transposase, IS4 family protein; SPTR: Transposase 717231006878 Transposase [DNA replication, recombination, and repair]; Region: COG5421 717231006879 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 717231006880 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 717231006881 substrate binding site [chemical binding]; other site 717231006882 oxyanion hole (OAH) forming residues; other site 717231006883 trimer interface [polypeptide binding]; other site 717231006884 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 717231006885 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 717231006886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 717231006887 homodimer interface [polypeptide binding]; other site 717231006888 catalytic residue [active] 717231006889 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; cl00986 717231006890 EamA-like transporter family; Region: EamA; cl01037 717231006891 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 717231006892 CHASE domain; Region: CHASE; cl01369 717231006893 PAS domain S-box; Region: sensory_box; TIGR00229 717231006894 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 717231006895 putative active site [active] 717231006896 heme pocket [chemical binding]; other site 717231006897 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 717231006898 PAS fold; Region: PAS_3; pfam08447 717231006899 putative active site [active] 717231006900 heme pocket [chemical binding]; other site 717231006901 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 717231006902 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 717231006903 dimer interface [polypeptide binding]; other site 717231006904 phosphorylation site [posttranslational modification] 717231006905 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 717231006906 ATP binding site [chemical binding]; other site 717231006907 Mg2+ binding site [ion binding]; other site 717231006908 G-X-G motif; other site 717231006909 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 717231006910 O-Antigen ligase; Region: Wzy_C; cl04850 717231006911 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 717231006912 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 717231006913 substrate binding site [chemical binding]; other site 717231006914 hexamer interface [polypeptide binding]; other site 717231006915 metal binding site [ion binding]; metal-binding site 717231006916 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 717231006917 KEGG: ddf:DEFDS_1440 hypothetical protein; SPTR: Putative uncharacterized protein 717231006918 Progressive ankylosis protein (ANKH); Region: ANKH; pfam07260 717231006919 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 717231006920 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 717231006921 substrate binding pocket [chemical binding]; other site 717231006922 membrane-bound complex binding site; other site 717231006923 hinge residues; other site 717231006924 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 717231006925 N-acetyl-D-glucosamine binding site [chemical binding]; other site 717231006926 catalytic residue [active] 717231006927 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 717231006928 Transposase; Region: DEDD_Tnp_IS110; pfam01548 717231006929 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 717231006930 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 717231006931 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 717231006932 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 717231006933 active site 717231006934 ATP binding site [chemical binding]; other site 717231006935 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 717231006936 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 717231006937 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 717231006938 Bacitracin resistance protein BacA; Region: BacA; cl00858 717231006939 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 717231006940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 717231006941 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 717231006942 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 717231006943 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 717231006944 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 717231006945 phosphate binding site [ion binding]; other site 717231006946 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 717231006947 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 717231006948 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 717231006949 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 717231006950 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 717231006951 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 717231006952 AMIN domain; Region: AMIN; pfam11741 717231006953 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 717231006954 active site 717231006955 metal binding site [ion binding]; metal-binding site 717231006956 Family of unknown function (DUF490); Region: DUF490; pfam04357 717231006957 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 717231006958 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 717231006959 Surface antigen; Region: Bac_surface_Ag; cl03097 717231006960 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 717231006961 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 717231006962 dimer interface [polypeptide binding]; other site 717231006963 decamer (pentamer of dimers) interface [polypeptide binding]; other site 717231006964 catalytic triad [active] 717231006965 peroxidatic and resolving cysteines [active] 717231006966 acetyl-CoA synthetase; Provisional; Region: PRK04319 717231006967 AMP-binding enzyme; Region: AMP-binding; cl15778 717231006968 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 717231006969 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 717231006970 substrate binding site [chemical binding]; other site 717231006971 oxyanion hole (OAH) forming residues; other site 717231006972 trimer interface [polypeptide binding]; other site 717231006973 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 717231006974 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 717231006975 substrate binding site [chemical binding]; other site 717231006976 oxyanion hole (OAH) forming residues; other site 717231006977 trimer interface [polypeptide binding]; other site 717231006978 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 717231006979 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 717231006980 domain interfaces; other site 717231006981 active site 717231006982 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 717231006983 active site 717231006984 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 717231006985 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 717231006986 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 717231006987 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 717231006988 Transposase domain (DUF772); Region: DUF772; cl15789 717231006989 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 717231006990 Transposase domain (DUF772); Region: DUF772; cl15789 717231006991 magnesium Mg(2+) and cobalt Co(2+) transport protein (corA); Region: corA; TIGR00383 717231006992 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 717231006993 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 717231006994 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 717231006995 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 717231006996 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 717231006997 S-adenosylmethionine binding site [chemical binding]; other site 717231006998 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 717231006999 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 717231007000 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 717231007001 HIT family signature motif; other site 717231007002 catalytic residue [active] 717231007003 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 717231007004 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 717231007005 ring oligomerisation interface [polypeptide binding]; other site 717231007006 ATP/Mg binding site [chemical binding]; other site 717231007007 stacking interactions; other site 717231007008 hinge regions; other site 717231007009 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 717231007010 oligomerisation interface [polypeptide binding]; other site 717231007011 mobile loop; other site 717231007012 roof hairpin; other site 717231007013 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 717231007014 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 717231007015 substrate binding site [chemical binding]; other site 717231007016 ligand binding site [chemical binding]; other site 717231007017 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 717231007018 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 717231007019 substrate binding site [chemical binding]; other site 717231007020 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 717231007021 DctM-like transporters; Region: DctM; pfam06808 717231007022 NMT1-like family; Region: NMT1_2; cl15260 717231007023 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 717231007024 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 717231007025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 717231007026 active site 717231007027 phosphorylation site [posttranslational modification] 717231007028 intermolecular recognition site; other site 717231007029 dimerization interface [polypeptide binding]; other site 717231007030 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 717231007031 Walker A motif; other site 717231007032 ATP binding site [chemical binding]; other site 717231007033 Walker B motif; other site 717231007034 arginine finger; other site 717231007035 Helix-turn-helix domains; Region: HTH; cl00088 717231007036 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 717231007037 dimerization interface [polypeptide binding]; other site 717231007038 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 717231007039 dimer interface [polypeptide binding]; other site 717231007040 phosphorylation site [posttranslational modification] 717231007041 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 717231007042 ATP binding site [chemical binding]; other site 717231007043 Mg2+ binding site [ion binding]; other site 717231007044 G-X-G motif; other site 717231007045 Sodium:solute symporter family; Region: SSF; cl00456 717231007046 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 717231007047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 717231007048 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 717231007049 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 717231007050 Nitrogen regulatory protein P-II; Region: P-II; cl00412 717231007051 Nitrogen regulatory protein P-II; Region: P-II; smart00938 717231007052 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 717231007053 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 717231007054 HSP70 interaction site [polypeptide binding]; other site 717231007055 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 717231007056 substrate binding site [polypeptide binding]; other site 717231007057 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 717231007058 Zn binding sites [ion binding]; other site 717231007059 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 717231007060 dimer interface [polypeptide binding]; other site 717231007061 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 717231007062 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 717231007063 dimer interface [polypeptide binding]; other site 717231007064 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 717231007065 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 717231007066 HrcA protein C terminal domain; Region: HrcA; pfam01628 717231007067 Protein of unknown function DUF72; Region: DUF72; cl00777