-- dump date 20140620_040934 -- class Genbank::misc_feature -- table misc_feature_note -- id note 375451000001 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451000002 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451000003 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 375451000004 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375451000005 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375451000006 FMN-binding pocket [chemical binding]; other site 375451000007 flavin binding motif; other site 375451000008 phosphate binding motif [ion binding]; other site 375451000009 beta-alpha-beta structure motif; other site 375451000010 NAD binding pocket [chemical binding]; other site 375451000011 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 375451000012 catalytic loop [active] 375451000013 iron binding site [ion binding]; other site 375451000014 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 375451000015 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 375451000016 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 375451000017 non-specific DNA binding site [nucleotide binding]; other site 375451000018 salt bridge; other site 375451000019 sequence-specific DNA binding site [nucleotide binding]; other site 375451000020 Cupin domain; Region: Cupin_2; pfam07883 375451000021 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375451000022 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 375451000023 conserved cys residue [active] 375451000024 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451000025 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 375451000026 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 375451000027 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 375451000028 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451000029 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 375451000030 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 375451000031 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451000032 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 375451000033 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 375451000034 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 375451000035 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 375451000036 Walker A/P-loop; other site 375451000037 ATP binding site [chemical binding]; other site 375451000038 Q-loop/lid; other site 375451000039 ABC transporter signature motif; other site 375451000040 Walker B; other site 375451000041 D-loop; other site 375451000042 H-loop/switch region; other site 375451000043 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 375451000044 dimer interface [polypeptide binding]; other site 375451000045 conserved gate region; other site 375451000046 putative PBP binding loops; other site 375451000047 ABC-ATPase subunit interface; other site 375451000048 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 375451000049 dimer interface [polypeptide binding]; other site 375451000050 conserved gate region; other site 375451000051 ABC-ATPase subunit interface; other site 375451000052 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 375451000053 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375451000054 active site 375451000055 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451000056 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451000057 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451000058 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 375451000059 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451000060 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 375451000061 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 375451000062 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451000063 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451000064 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451000065 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451000066 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451000067 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451000068 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 375451000069 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 375451000070 non-specific DNA binding site [nucleotide binding]; other site 375451000071 salt bridge; other site 375451000072 sequence-specific DNA binding site [nucleotide binding]; other site 375451000073 Cupin domain; Region: Cupin_2; pfam07883 375451000074 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 375451000075 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 375451000076 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 375451000077 dimer interface [polypeptide binding]; other site 375451000078 active site 375451000079 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 375451000080 anti sigma factor interaction site; other site 375451000081 regulatory phosphorylation site [posttranslational modification]; other site 375451000082 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 375451000083 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 375451000084 ATP binding site [chemical binding]; other site 375451000085 Mg2+ binding site [ion binding]; other site 375451000086 G-X-G motif; other site 375451000087 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375451000088 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375451000089 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 375451000090 Predicted permeases [General function prediction only]; Region: COG0679 375451000091 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451000092 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451000093 catalytic residue [active] 375451000094 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 375451000095 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 375451000096 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 375451000097 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 375451000098 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 375451000099 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 375451000100 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 375451000101 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 375451000102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451000103 homodimer interface [polypeptide binding]; other site 375451000104 catalytic residue [active] 375451000105 hypothetical protein; Provisional; Region: PRK06102 375451000106 Amidase; Region: Amidase; cl11426 375451000107 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 375451000108 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375451000109 Uncharacterized conserved protein [Function unknown]; Region: COG2835 375451000110 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 375451000111 GRIP domain; Region: GRIP; cl03225 375451000112 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 375451000113 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 375451000114 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 375451000115 putative catalytic site [active] 375451000116 putative phosphate binding site [ion binding]; other site 375451000117 active site 375451000118 metal binding site A [ion binding]; metal-binding site 375451000119 DNA binding site [nucleotide binding] 375451000120 putative AP binding site [nucleotide binding]; other site 375451000121 putative metal binding site B [ion binding]; other site 375451000122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451000123 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451000124 active site 375451000125 phosphorylation site [posttranslational modification] 375451000126 intermolecular recognition site; other site 375451000127 dimerization interface [polypeptide binding]; other site 375451000128 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 375451000129 DNA binding site [nucleotide binding] 375451000130 GTP cyclohydrolase; Provisional; Region: PRK08815 375451000131 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 375451000132 dimerization interface [polypeptide binding]; other site 375451000133 active site 375451000134 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 375451000135 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 375451000136 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375451000137 catalytic residue [active] 375451000138 Gram-negative porin; Region: Porin_4; pfam13609 375451000139 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 375451000140 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 375451000141 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 375451000142 HIGH motif; other site 375451000143 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 375451000144 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451000145 active site 375451000146 KMSKS motif; other site 375451000147 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 375451000148 tRNA binding surface [nucleotide binding]; other site 375451000149 Lipopolysaccharide-assembly; Region: LptE; pfam04390 375451000150 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 375451000151 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 375451000152 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451000153 putative C-terminal domain interface [polypeptide binding]; other site 375451000154 putative GSH binding site (G-site) [chemical binding]; other site 375451000155 putative dimer interface [polypeptide binding]; other site 375451000156 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 375451000157 dimer interface [polypeptide binding]; other site 375451000158 N-terminal domain interface [polypeptide binding]; other site 375451000159 substrate binding pocket (H-site) [chemical binding]; other site 375451000160 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451000161 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 375451000162 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451000163 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451000164 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 375451000165 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 375451000166 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 375451000167 epoxyqueuosine reductase; Region: TIGR00276 375451000168 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 375451000169 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 375451000170 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451000171 C-terminal domain interface [polypeptide binding]; other site 375451000172 GSH binding site (G-site) [chemical binding]; other site 375451000173 dimer interface [polypeptide binding]; other site 375451000174 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 375451000175 N-terminal domain interface [polypeptide binding]; other site 375451000176 dimer interface [polypeptide binding]; other site 375451000177 substrate binding pocket (H-site) [chemical binding]; other site 375451000178 Transglycosylase; Region: Transgly; cl17702 375451000179 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 375451000180 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 375451000181 active site 375451000182 dimer interface [polypeptide binding]; other site 375451000183 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 375451000184 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 375451000185 active site 375451000186 FMN binding site [chemical binding]; other site 375451000187 substrate binding site [chemical binding]; other site 375451000188 3Fe-4S cluster binding site [ion binding]; other site 375451000189 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 375451000190 domain interface; other site 375451000191 Uncharacterized conserved protein [Function unknown]; Region: COG3791 375451000192 Uncharacterized conserved protein [Function unknown]; Region: COG3791 375451000193 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 375451000194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451000195 Bacitracin resistance protein BacA; Region: BacA; pfam02673 375451000196 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 375451000197 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 375451000198 putative NAD(P) binding site [chemical binding]; other site 375451000199 active site 375451000200 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375451000201 Sulfatase; Region: Sulfatase; cl17466 375451000202 Domain of unknown function DUF302; Region: DUF302; pfam03625 375451000203 Domain of unknown function DUF302; Region: DUF302; pfam03625 375451000204 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451000205 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451000206 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 375451000207 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 375451000208 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 375451000209 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 375451000210 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 375451000211 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 375451000212 Cysteine-rich domain; Region: CCG; pfam02754 375451000213 Cysteine-rich domain; Region: CCG; pfam02754 375451000214 D-lactate dehydrogenase; Provisional; Region: PRK11183 375451000215 FAD binding domain; Region: FAD_binding_4; pfam01565 375451000216 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 375451000217 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 375451000218 Paraquat-inducible protein A; Region: PqiA; pfam04403 375451000219 Paraquat-inducible protein A; Region: PqiA; pfam04403 375451000220 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 375451000221 mce related protein; Region: MCE; pfam02470 375451000222 Protein of unknown function (DUF330); Region: DUF330; pfam03886 375451000223 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 375451000224 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 375451000225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451000226 homodimer interface [polypeptide binding]; other site 375451000227 catalytic residue [active] 375451000228 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375451000229 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 375451000230 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 375451000231 active site 375451000232 FMN binding site [chemical binding]; other site 375451000233 substrate binding site [chemical binding]; other site 375451000234 3Fe-4S cluster binding site [ion binding]; other site 375451000235 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 375451000236 Histidine kinase; Region: HisKA_2; pfam07568 375451000237 RNA polymerase sigma factor; Provisional; Region: PRK12546 375451000238 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451000239 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 375451000240 DNA binding residues [nucleotide binding] 375451000241 two-component response regulator; Provisional; Region: PRK09191 375451000242 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 375451000243 DNA binding residues [nucleotide binding] 375451000244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451000245 active site 375451000246 phosphorylation site [posttranslational modification] 375451000247 intermolecular recognition site; other site 375451000248 dimerization interface [polypeptide binding]; other site 375451000249 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 375451000250 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 375451000251 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 375451000252 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451000253 catalytic residue [active] 375451000254 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 375451000255 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 375451000256 metal binding site [ion binding]; metal-binding site 375451000257 Pantoate-beta-alanine ligase; Region: PanC; cd00560 375451000258 pantoate--beta-alanine ligase; Region: panC; TIGR00018 375451000259 active site 375451000260 ATP-binding site [chemical binding]; other site 375451000261 pantoate-binding site; other site 375451000262 HXXH motif; other site 375451000263 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 375451000264 active site 375451000265 oligomerization interface [polypeptide binding]; other site 375451000266 metal binding site [ion binding]; metal-binding site 375451000267 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 375451000268 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 375451000269 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 375451000270 active site 375451000271 Zn binding site [ion binding]; other site 375451000272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451000273 Coenzyme A binding pocket [chemical binding]; other site 375451000274 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 375451000275 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 375451000276 putative NAD(P) binding site [chemical binding]; other site 375451000277 active site 375451000278 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 375451000279 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 375451000280 putative active site pocket [active] 375451000281 cleavage site 375451000282 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 375451000283 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 375451000284 TPP-binding site; other site 375451000285 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 375451000286 PYR/PP interface [polypeptide binding]; other site 375451000287 dimer interface [polypeptide binding]; other site 375451000288 TPP binding site [chemical binding]; other site 375451000289 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375451000290 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 375451000291 subunit interface [polypeptide binding]; other site 375451000292 Heme binding sites [chemical binding]; other site 375451000293 photosynthetic reaction center subunit M; Provisional; Region: PRK14504 375451000294 pheophytin binding site; other site 375451000295 chlorophyll binding site; other site 375451000296 quinone binding site; other site 375451000297 Fe binding site [ion binding]; other site 375451000298 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 375451000299 subunit M interface; other site 375451000300 subunit H interface; other site 375451000301 quinone binding site; other site 375451000302 bacteriopheophytin binding site; other site 375451000303 bacteriochlorophyll binding site; other site 375451000304 cytochrome C subunit interface; other site 375451000305 Fe binding site [ion binding]; other site 375451000306 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 375451000307 PufQ cytochrome subunit; Region: PufQ; pfam05398 375451000308 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 375451000309 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 375451000310 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 375451000311 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 375451000312 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 375451000313 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 375451000314 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 375451000315 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 375451000316 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 375451000317 putative NAD(P) binding site [chemical binding]; other site 375451000318 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 375451000319 S-adenosylmethionine binding site [chemical binding]; other site 375451000320 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 375451000321 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 375451000322 substrate binding pocket [chemical binding]; other site 375451000323 chain length determination region; other site 375451000324 substrate-Mg2+ binding site; other site 375451000325 catalytic residues [active] 375451000326 aspartate-rich region 1; other site 375451000327 active site lid residues [active] 375451000328 aspartate-rich region 2; other site 375451000329 phytoene desaturase; Region: crtI_fam; TIGR02734 375451000330 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451000331 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 375451000332 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 375451000333 TspO/MBR family; Region: TspO_MBR; pfam03073 375451000334 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 375451000335 active site lid residues [active] 375451000336 substrate binding pocket [chemical binding]; other site 375451000337 catalytic residues [active] 375451000338 substrate-Mg2+ binding site; other site 375451000339 aspartate-rich region 1; other site 375451000340 aspartate-rich region 2; other site 375451000341 phytoene desaturase; Region: crtI_fam; TIGR02734 375451000342 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451000343 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 375451000344 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 375451000345 Walker A motif; other site 375451000346 ATP binding site [chemical binding]; other site 375451000347 Walker B motif; other site 375451000348 arginine finger; other site 375451000349 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 375451000350 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 375451000351 metal ion-dependent adhesion site (MIDAS); other site 375451000352 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375451000353 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375451000354 Cytochrome c; Region: Cytochrom_C; cl11414 375451000355 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375451000356 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 375451000357 substrate-cofactor binding pocket; other site 375451000358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451000359 catalytic residue [active] 375451000360 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 375451000361 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 375451000362 diiron binding motif [ion binding]; other site 375451000363 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 375451000364 Bacterial PH domain; Region: DUF304; pfam03703 375451000365 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cd00226 375451000366 subunit C interaction residues; other site 375451000367 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 375451000368 subunit M interaction residues [polypeptide binding]; other site 375451000369 subunit L interaction residues [polypeptide binding]; other site 375451000370 putative proton transfer pathway, P1; other site 375451000371 putative proton transfer pathway, P2; other site 375451000372 PUCC protein; Region: PUCC; pfam03209 375451000373 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 375451000374 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 375451000375 S-adenosylmethionine binding site [chemical binding]; other site 375451000376 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 375451000377 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 375451000378 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 375451000379 P-loop; other site 375451000380 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 375451000381 Domain of unknown function (DUF3479); Region: DUF3479; pfam11965 375451000382 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 375451000383 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 375451000384 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 375451000385 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 375451000386 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 375451000387 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 375451000388 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 375451000389 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 375451000390 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 375451000391 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375451000392 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 375451000393 UbiA prenyltransferase family; Region: UbiA; pfam01040 375451000394 PUCC protein; Region: PUCC; pfam03209 375451000395 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 375451000396 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375451000397 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 375451000398 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 375451000399 nudix motif; other site 375451000400 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451000401 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451000402 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 375451000403 FHIPEP family; Region: FHIPEP; pfam00771 375451000404 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 375451000405 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 375451000406 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 375451000407 seryl-tRNA synthetase; Region: serS; TIGR00414 375451000408 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451000409 Integrase core domain; Region: rve; pfam00665 375451000410 Transposase; Region: HTH_Tnp_1; pfam01527 375451000411 Surface antigen; Region: Bac_surface_Ag; pfam01103 375451000412 Transposase; Region: HTH_Tnp_1; pfam01527 375451000413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451000414 HTH-like domain; Region: HTH_21; pfam13276 375451000415 Integrase core domain; Region: rve; pfam00665 375451000416 Integrase core domain; Region: rve_3; pfam13683 375451000417 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 375451000418 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 375451000419 FlgN protein; Region: FlgN; cl09176 375451000420 Rod binding protein; Region: Rod-binding; pfam10135 375451000421 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 375451000422 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 375451000423 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 375451000424 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 375451000425 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451000426 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451000427 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451000428 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 375451000429 dimer interface [polypeptide binding]; other site 375451000430 conserved gate region; other site 375451000431 putative PBP binding loops; other site 375451000432 ABC-ATPase subunit interface; other site 375451000433 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 375451000434 dimer interface [polypeptide binding]; other site 375451000435 conserved gate region; other site 375451000436 putative PBP binding loops; other site 375451000437 ABC-ATPase subunit interface; other site 375451000438 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451000439 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000440 Walker A/P-loop; other site 375451000441 ATP binding site [chemical binding]; other site 375451000442 Q-loop/lid; other site 375451000443 ABC transporter signature motif; other site 375451000444 Walker B; other site 375451000445 D-loop; other site 375451000446 H-loop/switch region; other site 375451000447 TOBE domain; Region: TOBE_2; pfam08402 375451000448 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 375451000449 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451000450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451000451 DNA-binding site [nucleotide binding]; DNA binding site 375451000452 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451000453 FCD domain; Region: FCD; pfam07729 375451000454 putative aminotransferase; Validated; Region: PRK07480 375451000455 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 375451000456 inhibitor-cofactor binding pocket; inhibition site 375451000457 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451000458 catalytic residue [active] 375451000459 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451000460 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000461 Walker A/P-loop; other site 375451000462 ATP binding site [chemical binding]; other site 375451000463 Q-loop/lid; other site 375451000464 ABC transporter signature motif; other site 375451000465 Walker B; other site 375451000466 D-loop; other site 375451000467 H-loop/switch region; other site 375451000468 TOBE domain; Region: TOBE_2; pfam08402 375451000469 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451000470 Uncharacterized conserved protein [Function unknown]; Region: COG5470 375451000471 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451000472 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 375451000473 dimer interface [polypeptide binding]; other site 375451000474 conserved gate region; other site 375451000475 putative PBP binding loops; other site 375451000476 ABC-ATPase subunit interface; other site 375451000477 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451000478 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 375451000479 dimer interface [polypeptide binding]; other site 375451000480 conserved gate region; other site 375451000481 putative PBP binding loops; other site 375451000482 ABC-ATPase subunit interface; other site 375451000483 Transglycosylase SLT domain; Region: SLT_2; pfam13406 375451000484 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451000485 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451000486 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451000487 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451000488 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451000489 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 375451000490 dimer interface [polypeptide binding]; other site 375451000491 N-terminal domain interface [polypeptide binding]; other site 375451000492 substrate binding pocket (H-site) [chemical binding]; other site 375451000493 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 375451000494 putative N-terminal domain interface [polypeptide binding]; other site 375451000495 ribonuclease R; Region: RNase_R; TIGR02063 375451000496 RNB domain; Region: RNB; pfam00773 375451000497 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 375451000498 RNA binding site [nucleotide binding]; other site 375451000499 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 375451000500 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 375451000501 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 375451000502 metal binding site [ion binding]; metal-binding site 375451000503 dimer interface [polypeptide binding]; other site 375451000504 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 375451000505 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 375451000506 trimer interface [polypeptide binding]; other site 375451000507 active site 375451000508 substrate binding site [chemical binding]; other site 375451000509 CoA binding site [chemical binding]; other site 375451000510 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 375451000511 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 375451000512 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451000513 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 375451000514 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 375451000515 FeS/SAM binding site; other site 375451000516 L-asparaginase II; Region: Asparaginase_II; pfam06089 375451000517 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 375451000518 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 375451000519 motif II; other site 375451000520 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 375451000521 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; cd01494 375451000522 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451000523 catalytic residue [active] 375451000524 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 375451000525 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 375451000526 ligand binding site [chemical binding]; other site 375451000527 NAD binding site [chemical binding]; other site 375451000528 dimerization interface [polypeptide binding]; other site 375451000529 catalytic site [active] 375451000530 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 375451000531 putative L-serine binding site [chemical binding]; other site 375451000532 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 375451000533 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451000534 NAD(P) binding site [chemical binding]; other site 375451000535 2-amino-3-ketobutyrate coenzyme A ligase; Provisional; Region: PRK06939 375451000536 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375451000537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451000538 catalytic residue [active] 375451000539 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451000540 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 375451000541 non-specific DNA binding site [nucleotide binding]; other site 375451000542 salt bridge; other site 375451000543 sequence-specific DNA binding site [nucleotide binding]; other site 375451000544 Cupin domain; Region: Cupin_2; pfam07883 375451000545 beta-ketothiolase; Provisional; Region: PRK09051 375451000546 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 375451000547 dimer interface [polypeptide binding]; other site 375451000548 active site 375451000549 ABC1 family; Region: ABC1; cl17513 375451000550 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 375451000551 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 375451000552 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 375451000553 S-adenosylmethionine binding site [chemical binding]; other site 375451000554 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 375451000555 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 375451000556 DNA binding site [nucleotide binding] 375451000557 catalytic residue [active] 375451000558 H2TH interface [polypeptide binding]; other site 375451000559 putative catalytic residues [active] 375451000560 turnover-facilitating residue; other site 375451000561 intercalation triad [nucleotide binding]; other site 375451000562 8OG recognition residue [nucleotide binding]; other site 375451000563 putative reading head residues; other site 375451000564 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 375451000565 enoyl-CoA hydratase; Provisional; Region: PRK05862 375451000566 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 375451000567 substrate binding site [chemical binding]; other site 375451000568 oxyanion hole (OAH) forming residues; other site 375451000569 trimer interface [polypeptide binding]; other site 375451000570 META domain; Region: META; pfam03724 375451000571 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 375451000572 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 375451000573 DnaA N-terminal domain; Region: DnaA_N; pfam11638 375451000574 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 375451000575 Walker A motif; other site 375451000576 ATP binding site [chemical binding]; other site 375451000577 Walker B motif; other site 375451000578 arginine finger; other site 375451000579 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 375451000580 DnaA box-binding interface [nucleotide binding]; other site 375451000581 DNA polymerase III subunit beta; Validated; Region: PRK05643 375451000582 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 375451000583 putative DNA binding surface [nucleotide binding]; other site 375451000584 dimer interface [polypeptide binding]; other site 375451000585 beta-clamp/clamp loader binding surface; other site 375451000586 beta-clamp/translesion DNA polymerase binding surface; other site 375451000587 recombination protein F; Reviewed; Region: recF; PRK00064 375451000588 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000589 Walker A/P-loop; other site 375451000590 ATP binding site [chemical binding]; other site 375451000591 Q-loop/lid; other site 375451000592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000593 ABC transporter signature motif; other site 375451000594 Walker B; other site 375451000595 D-loop; other site 375451000596 H-loop/switch region; other site 375451000597 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451000598 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 375451000599 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 375451000600 Mg2+ binding site [ion binding]; other site 375451000601 G-X-G motif; other site 375451000602 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 375451000603 anchoring element; other site 375451000604 dimer interface [polypeptide binding]; other site 375451000605 ATP binding site [chemical binding]; other site 375451000606 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 375451000607 active site 375451000608 putative metal-binding site [ion binding]; other site 375451000609 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 375451000610 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 375451000611 catalytic residues [active] 375451000612 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 375451000613 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 375451000614 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 375451000615 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 375451000616 FeS/SAM binding site; other site 375451000617 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 375451000618 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 375451000619 Fe-S cluster binding site [ion binding]; other site 375451000620 active site 375451000621 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451000622 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451000623 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451000624 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 375451000625 intersubunit interface [polypeptide binding]; other site 375451000626 active site 375451000627 zinc binding site [ion binding]; other site 375451000628 Na+ binding site [ion binding]; other site 375451000629 KduI/IolB family; Region: KduI; pfam04962 375451000630 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451000631 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 375451000632 substrate binding site [chemical binding]; other site 375451000633 ATP binding site [chemical binding]; other site 375451000634 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 375451000635 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451000636 dimer interface [polypeptide binding]; other site 375451000637 PYR/PP interface [polypeptide binding]; other site 375451000638 TPP binding site [chemical binding]; other site 375451000639 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451000640 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 375451000641 TPP-binding site [chemical binding]; other site 375451000642 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451000643 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451000644 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451000645 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 375451000646 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451000647 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451000648 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451000649 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 375451000650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451000651 ligand binding site [chemical binding]; other site 375451000652 flexible hinge region; other site 375451000653 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 375451000654 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 375451000655 substrate binding site [chemical binding]; other site 375451000656 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375451000657 putative catalytic site [active] 375451000658 putative phosphate binding site [ion binding]; other site 375451000659 tartrate dehydrogenase; Region: TTC; TIGR02089 375451000660 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 375451000661 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451000662 EamA-like transporter family; Region: EamA; cl17759 375451000663 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 375451000664 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 375451000665 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 375451000666 dimerization interface [polypeptide binding]; other site 375451000667 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451000668 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451000669 DNA binding site [nucleotide binding] 375451000670 domain linker motif; other site 375451000671 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 375451000672 putative dimerization interface [polypeptide binding]; other site 375451000673 putative ligand binding site [chemical binding]; other site 375451000674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 375451000675 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 375451000676 hypothetical protein; Provisional; Region: PRK07475 375451000677 MarR family; Region: MarR_2; cl17246 375451000678 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451000679 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451000680 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451000681 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451000682 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451000683 DctM-like transporters; Region: DctM; pfam06808 375451000684 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 375451000685 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 375451000686 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 375451000687 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 375451000688 putative active site [active] 375451000689 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375451000690 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 375451000691 catalytic loop [active] 375451000692 iron binding site [ion binding]; other site 375451000693 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375451000694 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375451000695 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451000696 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451000697 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451000698 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 375451000699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451000700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451000701 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 375451000702 Helix-turn-helix domain; Region: HTH_18; pfam12833 375451000703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451000704 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451000705 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451000706 active site 375451000707 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 375451000708 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 375451000709 Walker A motif; other site 375451000710 ATP binding site [chemical binding]; other site 375451000711 Walker B motif; other site 375451000712 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 375451000713 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 375451000714 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375451000715 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375451000716 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 375451000717 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 375451000718 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 375451000719 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 375451000720 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 375451000721 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375451000722 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375451000723 SAF-like; Region: SAF_2; pfam13144 375451000724 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 375451000725 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 375451000726 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 375451000727 Transposase; Region: HTH_Tnp_1; pfam01527 375451000728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451000729 Integrase core domain; Region: rve; pfam00665 375451000730 Integrase core domain; Region: rve_3; pfam13683 375451000731 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 375451000732 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 375451000733 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 375451000734 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 375451000735 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 375451000736 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 375451000737 Uncharacterized conserved protein [Function unknown]; Region: COG3334 375451000738 flagellar motor protein MotA; Validated; Region: PRK09110 375451000739 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 375451000740 Integrase core domain; Region: rve_3; pfam13683 375451000741 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451000742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000743 Walker A/P-loop; other site 375451000744 ATP binding site [chemical binding]; other site 375451000745 Q-loop/lid; other site 375451000746 ABC transporter signature motif; other site 375451000747 Walker B; other site 375451000748 D-loop; other site 375451000749 H-loop/switch region; other site 375451000750 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 375451000751 TOBE domain; Region: TOBE_2; pfam08402 375451000752 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451000753 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 375451000754 dimer interface [polypeptide binding]; other site 375451000755 conserved gate region; other site 375451000756 putative PBP binding loops; other site 375451000757 ABC-ATPase subunit interface; other site 375451000758 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 375451000759 dimer interface [polypeptide binding]; other site 375451000760 conserved gate region; other site 375451000761 putative PBP binding loops; other site 375451000762 ABC-ATPase subunit interface; other site 375451000763 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451000764 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451000765 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 375451000766 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 375451000767 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 375451000768 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 375451000769 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 375451000770 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 375451000771 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 375451000772 hypothetical protein; Provisional; Region: PRK07236 375451000773 H+ Antiporter protein; Region: 2A0121; TIGR00900 375451000774 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 375451000775 putative substrate translocation pore; other site 375451000776 CCC1-related family of proteins; Region: CCC1_like; cl00278 375451000777 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 375451000778 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 375451000779 substrate binding site [chemical binding]; other site 375451000780 oxyanion hole (OAH) forming residues; other site 375451000781 trimer interface [polypeptide binding]; other site 375451000782 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 375451000783 classical (c) SDRs; Region: SDR_c; cd05233 375451000784 NAD(P) binding site [chemical binding]; other site 375451000785 active site 375451000786 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 375451000787 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 375451000788 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375451000789 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 375451000790 active site 375451000791 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 375451000792 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 375451000793 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 375451000794 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 375451000795 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 375451000796 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 375451000797 Thioredoxin; Region: Thioredoxin_4; pfam13462 375451000798 Protein of unknown function (DUF721); Region: DUF721; cl02324 375451000799 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 375451000800 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375451000801 minor groove reading motif; other site 375451000802 helix-hairpin-helix signature motif; other site 375451000803 substrate binding pocket [chemical binding]; other site 375451000804 active site 375451000805 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 375451000806 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 375451000807 DNA binding and oxoG recognition site [nucleotide binding] 375451000808 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 375451000809 DNA methylase; Region: N6_N4_Mtase; pfam01555 375451000810 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 375451000811 RNA/DNA hybrid binding site [nucleotide binding]; other site 375451000812 active site 375451000813 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 375451000814 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 375451000815 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 375451000816 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 375451000817 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 375451000818 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 375451000819 putative active site [active] 375451000820 catalytic site [active] 375451000821 putative metal binding site [ion binding]; other site 375451000822 Domain of unknown function (DUF897); Region: DUF897; pfam05982 375451000823 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 375451000824 active site clefts [active] 375451000825 zinc binding site [ion binding]; other site 375451000826 dimer interface [polypeptide binding]; other site 375451000827 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 375451000828 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 375451000829 interface (dimer of trimers) [polypeptide binding]; other site 375451000830 Substrate-binding/catalytic site; other site 375451000831 Zn-binding sites [ion binding]; other site 375451000832 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 375451000833 NlpC/P60 family; Region: NLPC_P60; cl17555 375451000834 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 375451000835 DNA Polymerase Y-family; Region: PolY_like; cd03468 375451000836 active site 375451000837 DNA binding site [nucleotide binding] 375451000838 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 375451000839 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451000840 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451000841 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 375451000842 Predicted permeases [General function prediction only]; Region: COG0679 375451000843 S-formylglutathione hydrolase; Region: PLN02442 375451000844 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 375451000845 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 375451000846 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 375451000847 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 375451000848 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 375451000849 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 375451000850 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 375451000851 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451000852 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 375451000853 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451000854 putative substrate translocation pore; other site 375451000855 Predicted ATPase [General function prediction only]; Region: COG1485 375451000856 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 375451000857 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 375451000858 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 375451000859 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 375451000860 CAAX protease self-immunity; Region: Abi; pfam02517 375451000861 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451000862 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451000863 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 375451000864 Q-loop/lid; other site 375451000865 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451000866 ABC transporter signature motif; other site 375451000867 Walker B; other site 375451000868 D-loop; other site 375451000869 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451000870 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 375451000871 ligand binding site [chemical binding]; other site 375451000872 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 375451000873 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 375451000874 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 375451000875 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 375451000876 protein binding site [polypeptide binding]; other site 375451000877 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 375451000878 Catalytic dyad [active] 375451000879 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 375451000880 Peptidase family M23; Region: Peptidase_M23; pfam01551 375451000881 phosphoglyceromutase; Provisional; Region: PRK05434 375451000882 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 375451000883 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 375451000884 putative active site [active] 375451000885 putative PHP Thumb interface [polypeptide binding]; other site 375451000886 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 375451000887 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 375451000888 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 375451000889 Bacteriophage Mu transposase; Region: DDE_2; pfam02914 375451000890 AAA domain; Region: AAA_22; pfam13401 375451000891 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 375451000892 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 375451000893 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 375451000894 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 375451000895 DNA polymerase I; Provisional; Region: PRK05755 375451000896 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 375451000897 active site 375451000898 metal binding site 1 [ion binding]; metal-binding site 375451000899 putative 5' ssDNA interaction site; other site 375451000900 metal binding site 3; metal-binding site 375451000901 metal binding site 2 [ion binding]; metal-binding site 375451000902 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 375451000903 putative DNA binding site [nucleotide binding]; other site 375451000904 putative metal binding site [ion binding]; other site 375451000905 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 375451000906 active site 375451000907 catalytic site [active] 375451000908 substrate binding site [chemical binding]; other site 375451000909 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 375451000910 active site 375451000911 DNA binding site [nucleotide binding] 375451000912 catalytic site [active] 375451000913 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 375451000914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 375451000915 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 375451000916 MoxR-like ATPases [General function prediction only]; Region: COG0714 375451000917 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375451000918 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 375451000919 Protein of unknown function DUF58; Region: DUF58; pfam01882 375451000920 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 375451000921 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 375451000922 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 375451000923 PAS fold; Region: PAS_7; pfam12860 375451000924 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 375451000925 dimer interface [polypeptide binding]; other site 375451000926 phosphorylation site [posttranslational modification] 375451000927 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 375451000928 ATP binding site [chemical binding]; other site 375451000929 Mg2+ binding site [ion binding]; other site 375451000930 G-X-G motif; other site 375451000931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451000932 active site 375451000933 phosphorylation site [posttranslational modification] 375451000934 intermolecular recognition site; other site 375451000935 Response regulator receiver domain; Region: Response_reg; pfam00072 375451000936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451000937 active site 375451000938 phosphorylation site [posttranslational modification] 375451000939 intermolecular recognition site; other site 375451000940 dimerization interface [polypeptide binding]; other site 375451000941 hypothetical protein; Validated; Region: PRK02101 375451000942 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 375451000943 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 375451000944 ATP binding site [chemical binding]; other site 375451000945 putative Mg++ binding site [ion binding]; other site 375451000946 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 375451000947 nucleotide binding region [chemical binding]; other site 375451000948 ATP-binding site [chemical binding]; other site 375451000949 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 375451000950 HRDC domain; Region: HRDC; pfam00570 375451000951 YGGT family; Region: YGGT; pfam02325 375451000952 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 375451000953 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 375451000954 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 375451000955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 375451000956 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 375451000957 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 375451000958 hypothetical protein; Provisional; Region: PRK09256 375451000959 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 375451000960 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 375451000961 catalytic site [active] 375451000962 putative active site [active] 375451000963 putative substrate binding site [chemical binding]; other site 375451000964 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 375451000965 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 375451000966 putative active site [active] 375451000967 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 375451000968 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 375451000969 OstA-like protein; Region: OstA; pfam03968 375451000970 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 375451000971 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 375451000972 Walker A/P-loop; other site 375451000973 ATP binding site [chemical binding]; other site 375451000974 Q-loop/lid; other site 375451000975 ABC transporter signature motif; other site 375451000976 Walker B; other site 375451000977 D-loop; other site 375451000978 H-loop/switch region; other site 375451000979 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 375451000980 30S subunit binding site; other site 375451000981 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 375451000982 active site 375451000983 phosphorylation site [posttranslational modification] 375451000984 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 375451000985 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 375451000986 active site 375451000987 tetramer interface; other site 375451000988 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 375451000989 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 375451000990 Ligand binding site; other site 375451000991 oligomer interface; other site 375451000992 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 375451000993 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375451000994 active site 375451000995 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 375451000996 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 375451000997 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 375451000998 nucleotide binding site [chemical binding]; other site 375451000999 NEF interaction site [polypeptide binding]; other site 375451001000 SBD interface [polypeptide binding]; other site 375451001001 chaperone protein DnaJ; Provisional; Region: PRK10767 375451001002 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 375451001003 HSP70 interaction site [polypeptide binding]; other site 375451001004 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 375451001005 Zn binding sites [ion binding]; other site 375451001006 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 375451001007 dimer interface [polypeptide binding]; other site 375451001008 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 375451001009 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 375451001010 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 375451001011 nucleotide binding region [chemical binding]; other site 375451001012 ATP-binding site [chemical binding]; other site 375451001013 SEC-C motif; Region: SEC-C; pfam02810 375451001014 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 375451001015 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375451001016 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 375451001017 heterotetramer interface [polypeptide binding]; other site 375451001018 active site pocket [active] 375451001019 cleavage site 375451001020 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 375451001021 active site 375451001022 8-oxo-dGMP binding site [chemical binding]; other site 375451001023 nudix motif; other site 375451001024 metal binding site [ion binding]; metal-binding site 375451001025 translation initiation factor IF-2; Region: IF-2; TIGR00487 375451001026 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 375451001027 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 375451001028 G1 box; other site 375451001029 putative GEF interaction site [polypeptide binding]; other site 375451001030 GTP/Mg2+ binding site [chemical binding]; other site 375451001031 Switch I region; other site 375451001032 G2 box; other site 375451001033 G3 box; other site 375451001034 Switch II region; other site 375451001035 G4 box; other site 375451001036 G5 box; other site 375451001037 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 375451001038 Translation-initiation factor 2; Region: IF-2; pfam11987 375451001039 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 375451001040 hypothetical protein; Provisional; Region: PRK09190 375451001041 Protein of unknown function (DUF448); Region: DUF448; pfam04296 375451001042 putative RNA binding cleft [nucleotide binding]; other site 375451001043 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 375451001044 NusA N-terminal domain; Region: NusA_N; pfam08529 375451001045 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 375451001046 RNA binding site [nucleotide binding]; other site 375451001047 homodimer interface [polypeptide binding]; other site 375451001048 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 375451001049 G-X-X-G motif; other site 375451001050 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 375451001051 G-X-X-G motif; other site 375451001052 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 375451001053 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 375451001054 ribosome maturation protein RimP; Reviewed; Region: PRK00092 375451001055 Sm and related proteins; Region: Sm_like; cl00259 375451001056 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 375451001057 putative oligomer interface [polypeptide binding]; other site 375451001058 putative RNA binding site [nucleotide binding]; other site 375451001059 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451001060 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 375451001061 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 375451001062 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 375451001063 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 375451001064 S-adenosylmethionine binding site [chemical binding]; other site 375451001065 MarR family; Region: MarR_2; pfam12802 375451001066 nitrilase; Region: PLN02798 375451001067 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 375451001068 putative active site [active] 375451001069 catalytic triad [active] 375451001070 dimer interface [polypeptide binding]; other site 375451001071 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 375451001072 GSH binding site [chemical binding]; other site 375451001073 catalytic residues [active] 375451001074 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 375451001075 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451001076 active site 375451001077 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 375451001078 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 375451001079 ferrochelatase; Reviewed; Region: hemH; PRK00035 375451001080 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 375451001081 C-terminal domain interface [polypeptide binding]; other site 375451001082 active site 375451001083 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 375451001084 active site 375451001085 N-terminal domain interface [polypeptide binding]; other site 375451001086 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375451001087 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 375451001088 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375451001089 Ion transport protein; Region: Ion_trans; pfam00520 375451001090 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 375451001091 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 375451001092 S-adenosylmethionine binding site [chemical binding]; other site 375451001093 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451001094 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451001095 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451001096 Walker A/P-loop; other site 375451001097 ATP binding site [chemical binding]; other site 375451001098 Q-loop/lid; other site 375451001099 ABC transporter signature motif; other site 375451001100 Walker B; other site 375451001101 D-loop; other site 375451001102 H-loop/switch region; other site 375451001103 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451001104 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451001105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451001106 Walker A/P-loop; other site 375451001107 ATP binding site [chemical binding]; other site 375451001108 Q-loop/lid; other site 375451001109 ABC transporter signature motif; other site 375451001110 Walker B; other site 375451001111 D-loop; other site 375451001112 H-loop/switch region; other site 375451001113 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 375451001114 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 375451001115 active site 375451001116 NTP binding site [chemical binding]; other site 375451001117 metal binding triad [ion binding]; metal-binding site 375451001118 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 375451001119 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 375451001120 putative active site [active] 375451001121 putative CoA binding site [chemical binding]; other site 375451001122 nudix motif; other site 375451001123 metal binding site [ion binding]; metal-binding site 375451001124 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 375451001125 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 375451001126 dimerization interface [polypeptide binding]; other site 375451001127 domain crossover interface; other site 375451001128 redox-dependent activation switch; other site 375451001129 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 375451001130 nudix motif; other site 375451001131 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451001132 Response regulator receiver domain; Region: Response_reg; pfam00072 375451001133 active site 375451001134 phosphorylation site [posttranslational modification] 375451001135 intermolecular recognition site; other site 375451001136 dimerization interface [polypeptide binding]; other site 375451001137 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 375451001138 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 375451001139 putative binding surface; other site 375451001140 active site 375451001141 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 375451001142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451001143 NAD(P) binding site [chemical binding]; other site 375451001144 active site 375451001145 threonine dehydratase; Validated; Region: PRK08639 375451001146 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 375451001147 tetramer interface [polypeptide binding]; other site 375451001148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451001149 catalytic residue [active] 375451001150 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 375451001151 argininosuccinate synthase; Provisional; Region: PRK13820 375451001152 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 375451001153 ANP binding site [chemical binding]; other site 375451001154 Substrate Binding Site II [chemical binding]; other site 375451001155 Substrate Binding Site I [chemical binding]; other site 375451001156 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 375451001157 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 375451001158 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451001159 substrate binding site [chemical binding]; other site 375451001160 dimer interface [polypeptide binding]; other site 375451001161 ATP binding site [chemical binding]; other site 375451001162 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 375451001163 Malic enzyme, N-terminal domain; Region: malic; pfam00390 375451001164 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 375451001165 putative NAD(P) binding site [chemical binding]; other site 375451001166 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 375451001167 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 375451001168 MutS domain I; Region: MutS_I; pfam01624 375451001169 MutS domain II; Region: MutS_II; pfam05188 375451001170 MutS domain III; Region: MutS_III; pfam05192 375451001171 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 375451001172 Walker A/P-loop; other site 375451001173 ATP binding site [chemical binding]; other site 375451001174 Q-loop/lid; other site 375451001175 ABC transporter signature motif; other site 375451001176 Walker B; other site 375451001177 D-loop; other site 375451001178 H-loop/switch region; other site 375451001179 GrpE; Region: GrpE; pfam01025 375451001180 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 375451001181 dimer interface [polypeptide binding]; other site 375451001182 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 375451001183 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 375451001184 ribonuclease PH; Reviewed; Region: rph; PRK00173 375451001185 Ribonuclease PH; Region: RNase_PH_bact; cd11362 375451001186 hexamer interface [polypeptide binding]; other site 375451001187 active site 375451001188 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 375451001189 active site 375451001190 dimerization interface [polypeptide binding]; other site 375451001191 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 375451001192 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 375451001193 FeS/SAM binding site; other site 375451001194 HemN C-terminal domain; Region: HemN_C; pfam06969 375451001195 ParB-like nuclease domain; Region: ParBc; pfam02195 375451001196 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 375451001197 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 375451001198 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 375451001199 P-loop; other site 375451001200 Magnesium ion binding site [ion binding]; other site 375451001201 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 375451001202 Magnesium ion binding site [ion binding]; other site 375451001203 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 375451001204 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 375451001205 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 375451001206 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 375451001207 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 375451001208 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 375451001209 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 375451001210 trmE is a tRNA modification GTPase; Region: trmE; cd04164 375451001211 G1 box; other site 375451001212 GTP/Mg2+ binding site [chemical binding]; other site 375451001213 Switch I region; other site 375451001214 G2 box; other site 375451001215 Switch II region; other site 375451001216 G3 box; other site 375451001217 G4 box; other site 375451001218 G5 box; other site 375451001219 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 375451001220 transcription termination factor Rho; Provisional; Region: rho; PRK09376 375451001221 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 375451001222 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 375451001223 RNA binding site [nucleotide binding]; other site 375451001224 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 375451001225 multimer interface [polypeptide binding]; other site 375451001226 Walker A motif; other site 375451001227 ATP binding site [chemical binding]; other site 375451001228 Walker B motif; other site 375451001229 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 375451001230 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 375451001231 active site 375451001232 dimer interface [polypeptide binding]; other site 375451001233 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 375451001234 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 375451001235 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 375451001236 shikimate binding site; other site 375451001237 NAD(P) binding site [chemical binding]; other site 375451001238 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 375451001239 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 375451001240 CoA-binding site [chemical binding]; other site 375451001241 ATP-binding [chemical binding]; other site 375451001242 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 375451001243 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 375451001244 active site 375451001245 catalytic site [active] 375451001246 substrate binding site [chemical binding]; other site 375451001247 Preprotein translocase subunit SecB; Region: SecB; pfam02556 375451001248 SecA binding site; other site 375451001249 Preprotein binding site; other site 375451001250 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 375451001251 Tim44-like domain; Region: Tim44; pfam04280 375451001252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 375451001253 Smr domain; Region: Smr; pfam01713 375451001254 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 375451001255 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451001256 putative substrate translocation pore; other site 375451001257 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 375451001258 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 375451001259 Walker A motif; other site 375451001260 ATP binding site [chemical binding]; other site 375451001261 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 375451001262 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 375451001263 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 375451001264 active site 375451001265 HslU subunit interaction site [polypeptide binding]; other site 375451001266 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 375451001267 catalytic residues [active] 375451001268 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 375451001269 Part of AAA domain; Region: AAA_19; pfam13245 375451001270 Family description; Region: UvrD_C_2; pfam13538 375451001271 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 375451001272 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 375451001273 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 375451001274 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 375451001275 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 375451001276 Substrate binding site; other site 375451001277 metal-binding site 375451001278 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 375451001279 Phosphotransferase enzyme family; Region: APH; pfam01636 375451001280 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 375451001281 PAS fold; Region: PAS_7; pfam12860 375451001282 sensor histidine kinase RegB 375451001283 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 375451001284 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 375451001285 Cu(I) binding site [ion binding]; other site 375451001286 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 375451001287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451001288 active site 375451001289 phosphorylation site [posttranslational modification] 375451001290 intermolecular recognition site; other site 375451001291 dimerization interface [polypeptide binding]; other site 375451001292 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 375451001293 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 375451001294 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 375451001295 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 375451001296 Ligand binding site; other site 375451001297 metal-binding site 375451001298 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 375451001299 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 375451001300 homotetramer interface [polypeptide binding]; other site 375451001301 ligand binding site [chemical binding]; other site 375451001302 catalytic site [active] 375451001303 NAD binding site [chemical binding]; other site 375451001304 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 375451001305 EVE domain; Region: EVE; pfam01878 375451001306 YciI-like protein; Reviewed; Region: PRK12863 375451001307 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 375451001308 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 375451001309 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 375451001310 UGMP family protein; Validated; Region: PRK09604 375451001311 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 375451001312 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 375451001313 active site 375451001314 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 375451001315 HemY protein N-terminus; Region: HemY_N; pfam07219 375451001316 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 375451001317 Helix-turn-helix domain; Region: HTH_19; pfam12844 375451001318 sequence-specific DNA binding site [nucleotide binding]; other site 375451001319 salt bridge; other site 375451001320 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 375451001321 Fatty acid desaturase; Region: FA_desaturase; pfam00487 375451001322 putative di-iron ligands [ion binding]; other site 375451001323 enoyl-CoA hydratase; Validated; Region: PRK08139 375451001324 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 375451001325 substrate binding site [chemical binding]; other site 375451001326 oxyanion hole (OAH) forming residues; other site 375451001327 trimer interface [polypeptide binding]; other site 375451001328 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 375451001329 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451001330 RES domain; Region: RES; smart00953 375451001331 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 375451001332 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 375451001333 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 375451001334 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451001335 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451001336 Walker A/P-loop; other site 375451001337 ATP binding site [chemical binding]; other site 375451001338 Q-loop/lid; other site 375451001339 ABC transporter signature motif; other site 375451001340 Walker B; other site 375451001341 D-loop; other site 375451001342 H-loop/switch region; other site 375451001343 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451001344 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451001345 TM-ABC transporter signature motif; other site 375451001346 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 375451001347 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 375451001348 putative ligand binding site [chemical binding]; other site 375451001349 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451001350 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451001351 DNA binding site [nucleotide binding] 375451001352 domain linker motif; other site 375451001353 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 375451001354 putative dimerization interface [polypeptide binding]; other site 375451001355 putative ligand binding site [chemical binding]; other site 375451001356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 375451001357 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375451001358 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 375451001359 putative catalytic residues [active] 375451001360 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 375451001361 Fasciclin domain; Region: Fasciclin; pfam02469 375451001362 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375451001363 putative catalytic site [active] 375451001364 putative metal binding site [ion binding]; other site 375451001365 putative phosphate binding site [ion binding]; other site 375451001366 FecR protein; Region: FecR; pfam04773 375451001367 CHASE2 domain; Region: CHASE2; pfam05226 375451001368 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 375451001369 cyclase homology domain; Region: CHD; cd07302 375451001370 nucleotidyl binding site; other site 375451001371 metal binding site [ion binding]; metal-binding site 375451001372 dimer interface [polypeptide binding]; other site 375451001373 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 375451001374 Protein of unknown function (DUF993); Region: DUF993; pfam06187 375451001375 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 375451001376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451001377 NAD(P) binding site [chemical binding]; other site 375451001378 active site 375451001379 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451001380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451001381 active site 375451001382 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451001383 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451001384 active site 375451001385 catalytic tetrad [active] 375451001386 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 375451001387 active site 375451001388 catalytic site [active] 375451001389 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 375451001390 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 375451001391 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 375451001392 substrate binding site [chemical binding]; other site 375451001393 oxyanion hole (OAH) forming residues; other site 375451001394 trimer interface [polypeptide binding]; other site 375451001395 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 375451001396 Coenzyme A transferase; Region: CoA_trans; smart00882 375451001397 Coenzyme A transferase; Region: CoA_trans; cl17247 375451001398 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451001399 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451001400 active site 375451001401 catalytic tetrad [active] 375451001402 choline dehydrogenase; Validated; Region: PRK02106 375451001403 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451001404 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 375451001405 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 375451001406 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451001407 NAD(P) binding site [chemical binding]; other site 375451001408 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451001409 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451001410 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451001411 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451001412 Walker A/P-loop; other site 375451001413 ATP binding site [chemical binding]; other site 375451001414 Q-loop/lid; other site 375451001415 ABC transporter signature motif; other site 375451001416 Walker B; other site 375451001417 D-loop; other site 375451001418 H-loop/switch region; other site 375451001419 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451001420 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 375451001421 dimer interface [polypeptide binding]; other site 375451001422 conserved gate region; other site 375451001423 putative PBP binding loops; other site 375451001424 ABC-ATPase subunit interface; other site 375451001425 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451001426 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 375451001427 dimer interface [polypeptide binding]; other site 375451001428 conserved gate region; other site 375451001429 putative PBP binding loops; other site 375451001430 ABC-ATPase subunit interface; other site 375451001431 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451001432 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451001433 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 375451001434 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 375451001435 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 375451001436 HEAT repeats; Region: HEAT_2; pfam13646 375451001437 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 375451001438 TPR motif; other site 375451001439 binding surface 375451001440 Tetratricopeptide repeat; Region: TPR_16; pfam13432 375451001441 Oxygen tolerance; Region: BatD; pfam13584 375451001442 von Willebrand factor type A domain; Region: VWA_2; pfam13519 375451001443 metal ion-dependent adhesion site (MIDAS); other site 375451001444 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 375451001445 Tetratricopeptide repeat; Region: TPR_16; pfam13432 375451001446 TPR motif; other site 375451001447 binding surface 375451001448 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 375451001449 metal ion-dependent adhesion site (MIDAS); other site 375451001450 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 375451001451 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 375451001452 Protein of unknown function DUF58; Region: DUF58; pfam01882 375451001453 MoxR-like ATPases [General function prediction only]; Region: COG0714 375451001454 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 375451001455 Walker A motif; other site 375451001456 ATP binding site [chemical binding]; other site 375451001457 Walker B motif; other site 375451001458 arginine finger; other site 375451001459 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 375451001460 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 375451001461 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 375451001462 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375451001463 Sulfatase; Region: Sulfatase; pfam00884 375451001464 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 375451001465 putative hydrophobic ligand binding site [chemical binding]; other site 375451001466 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451001467 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 375451001468 active site residue [active] 375451001469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451001470 Transcriptional activator [Transcription]; Region: ChrR; COG3806 375451001471 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375451001472 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375451001473 Creatinine amidohydrolase; Region: Creatininase; pfam02633 375451001474 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 375451001475 dimer interface [polypeptide binding]; other site 375451001476 ADP-ribose binding site [chemical binding]; other site 375451001477 active site 375451001478 nudix motif; other site 375451001479 metal binding site [ion binding]; metal-binding site 375451001480 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451001481 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 375451001482 putative ligand binding site [chemical binding]; other site 375451001483 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 375451001484 TM-ABC transporter signature motif; other site 375451001485 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451001486 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 375451001487 TM-ABC transporter signature motif; other site 375451001488 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451001489 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451001490 Walker A/P-loop; other site 375451001491 ATP binding site [chemical binding]; other site 375451001492 Q-loop/lid; other site 375451001493 ABC transporter signature motif; other site 375451001494 Walker B; other site 375451001495 D-loop; other site 375451001496 H-loop/switch region; other site 375451001497 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451001498 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451001499 Walker A/P-loop; other site 375451001500 ATP binding site [chemical binding]; other site 375451001501 Q-loop/lid; other site 375451001502 ABC transporter signature motif; other site 375451001503 Walker B; other site 375451001504 D-loop; other site 375451001505 H-loop/switch region; other site 375451001506 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 375451001507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451001508 Zn binding site [ion binding]; other site 375451001509 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 375451001510 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451001511 Zn binding site [ion binding]; other site 375451001512 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 375451001513 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451001514 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 375451001515 acyl-activating enzyme (AAE) consensus motif; other site 375451001516 putative AMP binding site [chemical binding]; other site 375451001517 putative active site [active] 375451001518 putative CoA binding site [chemical binding]; other site 375451001519 bile acid transporter; Region: bass; TIGR00841 375451001520 Sodium Bile acid symporter family; Region: SBF; cl17470 375451001521 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 375451001522 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 375451001523 TPP-binding site; other site 375451001524 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 375451001525 PYR/PP interface [polypeptide binding]; other site 375451001526 dimer interface [polypeptide binding]; other site 375451001527 TPP binding site [chemical binding]; other site 375451001528 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375451001529 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 375451001530 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 375451001531 substrate binding pocket [chemical binding]; other site 375451001532 chain length determination region; other site 375451001533 substrate-Mg2+ binding site; other site 375451001534 catalytic residues [active] 375451001535 aspartate-rich region 1; other site 375451001536 active site lid residues [active] 375451001537 aspartate-rich region 2; other site 375451001538 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 375451001539 osmolarity response regulator; Provisional; Region: ompR; PRK09468 375451001540 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451001541 active site 375451001542 phosphorylation site [posttranslational modification] 375451001543 intermolecular recognition site; other site 375451001544 dimerization interface [polypeptide binding]; other site 375451001545 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 375451001546 DNA binding site [nucleotide binding] 375451001547 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375451001548 MarR family; Region: MarR_2; pfam12802 375451001549 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 375451001550 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375451001551 homodimer interface [polypeptide binding]; other site 375451001552 substrate-cofactor binding pocket; other site 375451001553 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451001554 catalytic residue [active] 375451001555 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451001556 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451001557 EamA-like transporter family; Region: EamA; pfam00892 375451001558 EamA-like transporter family; Region: EamA; cl17759 375451001559 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 375451001560 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 375451001561 Tetramer interface [polypeptide binding]; other site 375451001562 active site 375451001563 FMN-binding site [chemical binding]; other site 375451001564 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451001565 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 375451001566 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 375451001567 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 375451001568 dimer interface [polypeptide binding]; other site 375451001569 conserved gate region; other site 375451001570 putative PBP binding loops; other site 375451001571 ABC-ATPase subunit interface; other site 375451001572 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 375451001573 conserved gate region; other site 375451001574 putative PBP binding loops; other site 375451001575 ABC-ATPase subunit interface; other site 375451001576 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 375451001577 riboflavin synthase subunit beta; Provisional; Region: PRK12419 375451001578 active site 375451001579 homopentamer interface [polypeptide binding]; other site 375451001580 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 375451001581 putative glutathione S-transferase; Provisional; Region: PRK10357 375451001582 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451001583 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 375451001584 dimer interface [polypeptide binding]; other site 375451001585 N-terminal domain interface [polypeptide binding]; other site 375451001586 putative substrate binding pocket (H-site) [chemical binding]; other site 375451001587 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 375451001588 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 375451001589 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 375451001590 [2Fe-2S] cluster binding site [ion binding]; other site 375451001591 cytochrome b; Provisional; Region: CYTB; MTH00191 375451001592 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; cd00284 375451001593 intrachain domain interface; other site 375451001594 interchain domain interface [polypeptide binding]; other site 375451001595 heme bH binding site [chemical binding]; other site 375451001596 Qi binding site; other site 375451001597 heme bL binding site [chemical binding]; other site 375451001598 Qo binding site; other site 375451001599 interchain domain interface [polypeptide binding]; other site 375451001600 intrachain domain interface; other site 375451001601 Qi binding site; other site 375451001602 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 375451001603 Qo binding site; other site 375451001604 cytochrome c-550; Provisional; Region: psbV; cl17239 375451001605 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 375451001606 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 375451001607 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 375451001608 inhibitor-cofactor binding pocket; inhibition site 375451001609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451001610 catalytic residue [active] 375451001611 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 375451001612 WbqC-like protein family; Region: WbqC; pfam08889 375451001613 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375451001614 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 375451001615 S-adenosylmethionine binding site [chemical binding]; other site 375451001616 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 375451001617 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 375451001618 Ligand binding site; other site 375451001619 Putative Catalytic site; other site 375451001620 DXD motif; other site 375451001621 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 375451001622 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 375451001623 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 375451001624 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 375451001625 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 375451001626 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375451001627 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 375451001628 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 375451001629 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 375451001630 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 375451001631 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 375451001632 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 375451001633 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 375451001634 ligand binding site [chemical binding]; other site 375451001635 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 375451001636 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 375451001637 active site residue [active] 375451001638 Isochorismatase family; Region: Isochorismatase; pfam00857 375451001639 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 375451001640 catalytic triad [active] 375451001641 metal binding site [ion binding]; metal-binding site 375451001642 conserved cis-peptide bond; other site 375451001643 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 375451001644 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 375451001645 active site 375451001646 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375451001647 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451001648 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451001649 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 375451001650 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451001651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451001652 Walker A/P-loop; other site 375451001653 ATP binding site [chemical binding]; other site 375451001654 Q-loop/lid; other site 375451001655 ABC transporter signature motif; other site 375451001656 Walker B; other site 375451001657 D-loop; other site 375451001658 H-loop/switch region; other site 375451001659 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 375451001660 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451001661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451001662 Walker A/P-loop; other site 375451001663 ATP binding site [chemical binding]; other site 375451001664 Q-loop/lid; other site 375451001665 ABC transporter signature motif; other site 375451001666 Walker B; other site 375451001667 D-loop; other site 375451001668 H-loop/switch region; other site 375451001669 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 375451001670 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 375451001671 methionine sulfoxide reductase A; Provisional; Region: PRK14054 375451001672 methionine sulfoxide reductase B; Provisional; Region: PRK00222 375451001673 SelR domain; Region: SelR; pfam01641 375451001674 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 375451001675 catalytic residues [active] 375451001676 dimer interface [polypeptide binding]; other site 375451001677 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 375451001678 S-adenosylmethionine binding site [chemical binding]; other site 375451001679 EamA-like transporter family; Region: EamA; pfam00892 375451001680 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 375451001681 EamA-like transporter family; Region: EamA; pfam00892 375451001682 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451001683 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 375451001684 IHF dimer interface [polypeptide binding]; other site 375451001685 IHF - DNA interface [nucleotide binding]; other site 375451001686 AMP nucleosidase; Provisional; Region: PRK08292 375451001687 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 375451001688 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 375451001689 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 375451001690 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 375451001691 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 375451001692 active site 375451001693 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 375451001694 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 375451001695 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451001696 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451001697 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451001698 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451001699 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451001700 hypothetical protein; Provisional; Region: PRK07490 375451001701 intersubunit interface [polypeptide binding]; other site 375451001702 active site 375451001703 Zn2+ binding site [ion binding]; other site 375451001704 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 375451001705 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 375451001706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451001707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451001708 active site 375451001709 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 375451001710 CoA binding domain; Region: CoA_binding_2; pfam13380 375451001711 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 375451001712 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 375451001713 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 375451001714 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 375451001715 substrate binding site [chemical binding]; other site 375451001716 oxyanion hole (OAH) forming residues; other site 375451001717 trimer interface [polypeptide binding]; other site 375451001718 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 375451001719 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375451001720 putative NAD(P) binding site [chemical binding]; other site 375451001721 VPLPA-CTERM protein sorting domain; Region: VPLPA-CTERM; TIGR03370 375451001722 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 375451001723 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 375451001724 substrate binding site [chemical binding]; other site 375451001725 ligand binding site [chemical binding]; other site 375451001726 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451001727 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 375451001728 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 375451001729 Protein of unknown function (DUF502); Region: DUF502; cl01107 375451001730 Protein of unknown function, DUF599; Region: DUF599; pfam04654 375451001731 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 375451001732 FAD binding domain; Region: FAD_binding_4; pfam01565 375451001733 FAD binding domain; Region: FAD_binding_4; pfam01565 375451001734 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 375451001735 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 375451001736 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 375451001737 Cysteine-rich domain; Region: CCG; pfam02754 375451001738 Cysteine-rich domain; Region: CCG; pfam02754 375451001739 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 375451001740 active site 375451001741 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 375451001742 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 375451001743 putative dimer interface [polypeptide binding]; other site 375451001744 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451001745 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_3; cd06336 375451001746 putative ligand binding site [chemical binding]; other site 375451001747 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 375451001748 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451001749 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 375451001750 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 375451001751 NAD binding site [chemical binding]; other site 375451001752 catalytic residues [active] 375451001753 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 375451001754 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 375451001755 dimer interface [polypeptide binding]; other site 375451001756 decamer (pentamer of dimers) interface [polypeptide binding]; other site 375451001757 catalytic triad [active] 375451001758 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375451001759 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 375451001760 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375451001761 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 375451001762 Probable Catalytic site; other site 375451001763 metal-binding site 375451001764 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 375451001765 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 375451001766 trimer interface [polypeptide binding]; other site 375451001767 RNase E interface [polypeptide binding]; other site 375451001768 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 375451001769 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 375451001770 RNase E interface [polypeptide binding]; other site 375451001771 trimer interface [polypeptide binding]; other site 375451001772 active site 375451001773 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 375451001774 putative nucleic acid binding region [nucleotide binding]; other site 375451001775 G-X-X-G motif; other site 375451001776 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 375451001777 RNA binding site [nucleotide binding]; other site 375451001778 domain interface; other site 375451001779 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 375451001780 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 375451001781 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 375451001782 Ligand Binding Site [chemical binding]; other site 375451001783 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451001784 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 375451001785 16S/18S rRNA binding site [nucleotide binding]; other site 375451001786 S13e-L30e interaction site [polypeptide binding]; other site 375451001787 25S rRNA binding site [nucleotide binding]; other site 375451001788 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 375451001789 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 375451001790 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 375451001791 RNA binding site [nucleotide binding]; other site 375451001792 active site 375451001793 Predicted periplasmic protein [Function unknown]; Region: COG3698 375451001794 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 375451001795 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 375451001796 dihydrodipicolinate reductase; Provisional; Region: PRK00048 375451001797 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 375451001798 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 375451001799 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 375451001800 NusB family; Region: NusB; pfam01029 375451001801 putative RNA binding site [nucleotide binding]; other site 375451001802 16S rRNA methyltransferase B; Provisional; Region: PRK10901 375451001803 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 375451001804 S-adenosylmethionine binding site [chemical binding]; other site 375451001805 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 375451001806 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 375451001807 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 375451001808 purine monophosphate binding site [chemical binding]; other site 375451001809 dimer interface [polypeptide binding]; other site 375451001810 putative catalytic residues [active] 375451001811 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 375451001812 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 375451001813 lipoprotein signal peptidase; Provisional; Region: PRK14782 375451001814 lipoprotein signal peptidase; Provisional; Region: PRK14787 375451001815 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 375451001816 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 375451001817 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 375451001818 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 375451001819 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 375451001820 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 375451001821 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 375451001822 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 375451001823 NAD(P) binding site [chemical binding]; other site 375451001824 catalytic residues [active] 375451001825 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 375451001826 NAD(P) binding site [chemical binding]; other site 375451001827 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 375451001828 intersubunit interface [polypeptide binding]; other site 375451001829 active site 375451001830 catalytic residue [active] 375451001831 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 375451001832 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 375451001833 ATP binding site [chemical binding]; other site 375451001834 Mg2+ binding site [ion binding]; other site 375451001835 G-X-G motif; other site 375451001836 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 375451001837 ATP binding site [chemical binding]; other site 375451001838 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 375451001839 RmuC family; Region: RmuC; pfam02646 375451001840 mannonate dehydratase; Provisional; Region: PRK03906 375451001841 mannonate dehydratase; Region: uxuA; TIGR00695 375451001842 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451001843 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451001844 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451001845 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451001846 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451001847 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451001848 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451001849 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451001850 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451001851 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451001852 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 375451001853 substrate binding site [chemical binding]; other site 375451001854 ATP binding site [chemical binding]; other site 375451001855 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451001856 EamA-like transporter family; Region: EamA; pfam00892 375451001857 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375451001858 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451001859 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 375451001860 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451001861 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451001862 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451001863 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 375451001864 galactarate dehydratase; Region: galactar-dH20; TIGR03248 375451001865 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 375451001866 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 375451001867 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451001868 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451001869 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451001870 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375451001871 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 375451001872 active site pocket [active] 375451001873 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451001874 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451001875 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451001876 DNA-binding site [nucleotide binding]; DNA binding site 375451001877 FCD domain; Region: FCD; pfam07729 375451001878 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375451001879 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 375451001880 putative NAD(P) binding site [chemical binding]; other site 375451001881 active site 375451001882 putative substrate binding site [chemical binding]; other site 375451001883 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375451001884 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451001885 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375451001886 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 375451001887 NAD binding site [chemical binding]; other site 375451001888 homotetramer interface [polypeptide binding]; other site 375451001889 homodimer interface [polypeptide binding]; other site 375451001890 active site 375451001891 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 375451001892 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 375451001893 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375451001894 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 375451001895 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451001896 putative ligand binding site [chemical binding]; other site 375451001897 NAD binding site [chemical binding]; other site 375451001898 catalytic site [active] 375451001899 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375451001900 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 375451001901 active site pocket [active] 375451001902 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 375451001903 Putative zinc-finger; Region: zf-HC2; pfam13490 375451001904 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 375451001905 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 375451001906 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451001907 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 375451001908 DNA binding residues [nucleotide binding] 375451001909 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451001910 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 375451001911 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 375451001912 MFS/sugar transport protein; Region: MFS_2; pfam13347 375451001913 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 375451001914 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451001915 NAD(P) binding site [chemical binding]; other site 375451001916 active site 375451001917 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 375451001918 active site 375451001919 ligand binding site [chemical binding]; other site 375451001920 homodimer interface [polypeptide binding]; other site 375451001921 NAD(P) binding site [chemical binding]; other site 375451001922 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451001923 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 375451001924 C-terminal domain interface [polypeptide binding]; other site 375451001925 GSH binding site (G-site) [chemical binding]; other site 375451001926 dimer interface [polypeptide binding]; other site 375451001927 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 375451001928 dimer interface [polypeptide binding]; other site 375451001929 substrate binding pocket (H-site) [chemical binding]; other site 375451001930 N-terminal domain interface [polypeptide binding]; other site 375451001931 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451001932 catalytic core [active] 375451001933 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 375451001934 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451001935 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 375451001936 acyl-activating enzyme (AAE) consensus motif; other site 375451001937 putative AMP binding site [chemical binding]; other site 375451001938 putative active site [active] 375451001939 putative CoA binding site [chemical binding]; other site 375451001940 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451001941 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451001942 Walker A/P-loop; other site 375451001943 ATP binding site [chemical binding]; other site 375451001944 Q-loop/lid; other site 375451001945 ABC transporter signature motif; other site 375451001946 Walker B; other site 375451001947 D-loop; other site 375451001948 H-loop/switch region; other site 375451001949 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 375451001950 TM-ABC transporter signature motif; other site 375451001951 Short C-terminal domain; Region: SHOCT; pfam09851 375451001952 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451001953 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 375451001954 TM-ABC transporter signature motif; other site 375451001955 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_1; cd06334 375451001956 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451001957 putative ligand binding site [chemical binding]; other site 375451001958 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451001959 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451001960 Walker A/P-loop; other site 375451001961 ATP binding site [chemical binding]; other site 375451001962 Q-loop/lid; other site 375451001963 ABC transporter signature motif; other site 375451001964 Walker B; other site 375451001965 D-loop; other site 375451001966 H-loop/switch region; other site 375451001967 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451001968 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 375451001969 acyl-activating enzyme (AAE) consensus motif; other site 375451001970 active site 375451001971 AMP binding site [chemical binding]; other site 375451001972 CoA binding site [chemical binding]; other site 375451001973 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451001974 conserved hypothetical protein 375451001975 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 375451001976 DNA polymerase IV; Provisional; Region: PRK02794 375451001977 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 375451001978 active site 375451001979 DNA binding site [nucleotide binding] 375451001980 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 375451001981 active site 375451001982 dimer interface [polypeptide binding]; other site 375451001983 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 375451001984 Clp amino terminal domain; Region: Clp_N; pfam02861 375451001985 Clp amino terminal domain; Region: Clp_N; pfam02861 375451001986 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 375451001987 Walker A motif; other site 375451001988 ATP binding site [chemical binding]; other site 375451001989 Walker B motif; other site 375451001990 arginine finger; other site 375451001991 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 375451001992 Walker A motif; other site 375451001993 ATP binding site [chemical binding]; other site 375451001994 Walker B motif; other site 375451001995 arginine finger; other site 375451001996 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 375451001997 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 375451001998 Fasciclin domain; Region: Fasciclin; pfam02469 375451001999 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 375451002000 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 375451002001 motif II; other site 375451002002 TMAO/DMSO reductase; Reviewed; Region: PRK05363 375451002003 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 375451002004 Moco binding site; other site 375451002005 metal coordination site [ion binding]; other site 375451002006 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 375451002007 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 375451002008 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 375451002009 S-adenosylmethionine binding site [chemical binding]; other site 375451002010 DctM-like transporters; Region: DctM; pfam06808 375451002011 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451002012 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451002013 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451002014 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451002015 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451002016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002017 DNA-binding site [nucleotide binding]; DNA binding site 375451002018 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 375451002019 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 375451002020 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 375451002021 inhibitor site; inhibition site 375451002022 active site 375451002023 dimer interface [polypeptide binding]; other site 375451002024 catalytic residue [active] 375451002025 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 375451002026 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451002027 substrate binding site [chemical binding]; other site 375451002028 ATP binding site [chemical binding]; other site 375451002029 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 375451002030 dimer interface [polypeptide binding]; other site 375451002031 substrate binding site [chemical binding]; other site 375451002032 ATP binding site [chemical binding]; other site 375451002033 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 375451002034 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 375451002035 thiS-thiF/thiG interaction site; other site 375451002036 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 375451002037 ThiS interaction site; other site 375451002038 putative active site [active] 375451002039 tetramer interface [polypeptide binding]; other site 375451002040 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 375451002041 active site 375451002042 thiamine phosphate binding site [chemical binding]; other site 375451002043 pyrophosphate binding site [ion binding]; other site 375451002044 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 375451002045 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 375451002046 ATP binding site [chemical binding]; other site 375451002047 substrate interface [chemical binding]; other site 375451002048 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 375451002049 active site residue [active] 375451002050 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 375451002051 NMT1/THI5 like; Region: NMT1; pfam09084 375451002052 Putative transcription activator [Transcription]; Region: TenA; COG0819 375451002053 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451002054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002055 Walker A/P-loop; other site 375451002056 ATP binding site [chemical binding]; other site 375451002057 Q-loop/lid; other site 375451002058 ABC transporter signature motif; other site 375451002059 Walker B; other site 375451002060 D-loop; other site 375451002061 H-loop/switch region; other site 375451002062 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 375451002063 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451002064 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 375451002065 dimer interface [polypeptide binding]; other site 375451002066 conserved gate region; other site 375451002067 putative PBP binding loops; other site 375451002068 ABC-ATPase subunit interface; other site 375451002069 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 375451002070 Amidinotransferase; Region: Amidinotransf; cl12043 375451002071 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451002072 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451002073 acriflavin resistance protein 375451002074 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 375451002075 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 375451002076 nucleophilic elbow; other site 375451002077 catalytic triad; other site 375451002078 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 375451002079 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 375451002080 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375451002081 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 375451002082 active site 375451002083 nucleophile elbow; other site 375451002084 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 375451002085 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 375451002086 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 375451002087 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 375451002088 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 375451002089 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 375451002090 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 375451002091 Walker A/P-loop; other site 375451002092 ATP binding site [chemical binding]; other site 375451002093 Q-loop/lid; other site 375451002094 ABC transporter signature motif; other site 375451002095 Walker B; other site 375451002096 D-loop; other site 375451002097 H-loop/switch region; other site 375451002098 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 375451002099 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 375451002100 ring oligomerisation interface [polypeptide binding]; other site 375451002101 ATP/Mg binding site [chemical binding]; other site 375451002102 stacking interactions; other site 375451002103 hinge regions; other site 375451002104 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 375451002105 oligomerisation interface [polypeptide binding]; other site 375451002106 mobile loop; other site 375451002107 roof hairpin; other site 375451002108 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375451002109 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 375451002110 protein binding site [polypeptide binding]; other site 375451002111 Peptidase family M48; Region: Peptidase_M48; cl12018 375451002112 D-alanyl-alanine synthetase A; Provisional; Region: PRK14570 375451002113 transposase 375451002114 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 375451002115 high affinity sulphate transporter 1; Region: sulP; TIGR00815 375451002116 Sulfate transporter family; Region: Sulfate_transp; pfam00916 375451002117 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 375451002118 Putative phosphatase (DUF442); Region: DUF442; cl17385 375451002119 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 375451002120 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451002121 Predicted transporter component [General function prediction only]; Region: COG2391 375451002122 Sulphur transport; Region: Sulf_transp; pfam04143 375451002123 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 375451002124 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 375451002125 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451002126 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 375451002127 ligand binding site [chemical binding]; other site 375451002128 flexible hinge region; other site 375451002129 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 375451002130 putative switch regulator; other site 375451002131 non-specific DNA interactions [nucleotide binding]; other site 375451002132 DNA binding site [nucleotide binding] 375451002133 sequence specific DNA binding site [nucleotide binding]; other site 375451002134 putative cAMP binding site [chemical binding]; other site 375451002135 Transcriptional regulator; Region: Rrf2; cl17282 375451002136 Rrf2 family protein; Region: rrf2_super; TIGR00738 375451002137 antioxidant, AhpC/Tsa family 375451002138 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 375451002139 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 375451002140 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 375451002141 TniQ; Region: TniQ; pfam06527 375451002142 AAA domain; Region: AAA_22; pfam13401 375451002143 DNA-sulfur modification-associated; Region: DndB; pfam14072 375451002144 DGQHR domain; Region: DGQHR; TIGR03187 375451002145 hypothetical protein; Provisional; Region: PRK06850 375451002146 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 375451002147 Active Sites [active] 375451002148 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 375451002149 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002150 Walker A/P-loop; other site 375451002151 ATP binding site [chemical binding]; other site 375451002152 Domain of unknown function (DUF1832); Region: DUF1832; pfam08870 375451002153 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 375451002154 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 375451002155 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451002156 catalytic residue [active] 375451002157 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 375451002158 DNA binding residues [nucleotide binding] 375451002159 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_a; cd09179 375451002160 putative active site [active] 375451002161 catalytic site [active] 375451002162 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 375451002163 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 375451002164 ATP binding site [chemical binding]; other site 375451002165 putative Mg++ binding site [ion binding]; other site 375451002166 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 375451002167 nucleotide binding region [chemical binding]; other site 375451002168 ATP-binding site [chemical binding]; other site 375451002169 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 375451002170 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002171 Walker A/P-loop; other site 375451002172 ATP binding site [chemical binding]; other site 375451002173 dnd system-associated protein 4; Region: dnd_assoc_4; TIGR04062 375451002174 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 375451002175 DGQHR domain; Region: DGQHR; TIGR03187 375451002176 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 375451002177 non-specific DNA binding site [nucleotide binding]; other site 375451002178 salt bridge; other site 375451002179 sequence-specific DNA binding site [nucleotide binding]; other site 375451002180 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 375451002181 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 375451002182 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 375451002183 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 375451002184 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 375451002185 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 375451002186 FeS/SAM binding site; other site 375451002187 Uncharacterized conserved protein [Function unknown]; Region: COG1359 375451002188 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451002189 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 375451002190 ligand binding site [chemical binding]; other site 375451002191 flexible hinge region; other site 375451002192 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 375451002193 non-specific DNA interactions [nucleotide binding]; other site 375451002194 DNA binding site [nucleotide binding] 375451002195 sequence specific DNA binding site [nucleotide binding]; other site 375451002196 putative cAMP binding site [chemical binding]; other site 375451002197 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 375451002198 active site 375451002199 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451002200 D-cysteine desulfhydrase; Validated; Region: PRK03910 375451002201 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 375451002202 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451002203 catalytic residue [active] 375451002204 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451002205 cell density-dependent motility repressor; Provisional; Region: PRK10082 375451002206 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375451002207 dimerization interface [polypeptide binding]; other site 375451002208 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 375451002209 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 375451002210 Predicted membrane protein [Function unknown]; Region: COG2855 375451002211 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 375451002212 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451002213 PYR/PP interface [polypeptide binding]; other site 375451002214 dimer interface [polypeptide binding]; other site 375451002215 TPP binding site [chemical binding]; other site 375451002216 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451002217 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 375451002218 TPP-binding site [chemical binding]; other site 375451002219 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451002220 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451002221 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451002222 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 375451002223 Ligand Binding Site [chemical binding]; other site 375451002224 DctM-like transporters; Region: DctM; pfam06808 375451002225 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451002226 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 375451002227 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451002228 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 375451002229 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 375451002230 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002231 DNA-binding site [nucleotide binding]; DNA binding site 375451002232 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 375451002233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002234 homodimer interface [polypeptide binding]; other site 375451002235 catalytic residue [active] 375451002236 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375451002237 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 375451002238 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 375451002239 non-specific DNA binding site [nucleotide binding]; other site 375451002240 salt bridge; other site 375451002241 sequence-specific DNA binding site [nucleotide binding]; other site 375451002242 Cupin domain; Region: Cupin_2; pfam07883 375451002243 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 375451002244 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 375451002245 inhibitor-cofactor binding pocket; inhibition site 375451002246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002247 catalytic residue [active] 375451002248 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 375451002249 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 375451002250 NAD(P) binding site [chemical binding]; other site 375451002251 catalytic residues [active] 375451002252 butyrate kinase; Provisional; Region: PRK03011 375451002253 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 375451002254 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 375451002255 active site 375451002256 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 375451002257 biotin carboxylase-like protein; Validated; Region: PRK06524 375451002258 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451002259 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451002260 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 375451002261 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 375451002262 DctM-like transporters; Region: DctM; pfam06808 375451002263 Predicted amidohydrolase [General function prediction only]; Region: COG0388 375451002264 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 375451002265 active site 375451002266 catalytic triad [active] 375451002267 dimer interface [polypeptide binding]; other site 375451002268 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 375451002269 putative dimer interface [polypeptide binding]; other site 375451002270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451002271 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451002272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002273 DNA-binding site [nucleotide binding]; DNA binding site 375451002274 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 375451002275 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451002276 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_3; cd06336 375451002277 putative ligand binding site [chemical binding]; other site 375451002278 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451002279 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 375451002280 TM-ABC transporter signature motif; other site 375451002281 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451002282 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 375451002283 TM-ABC transporter signature motif; other site 375451002284 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451002285 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451002286 Walker A/P-loop; other site 375451002287 ATP binding site [chemical binding]; other site 375451002288 Q-loop/lid; other site 375451002289 ABC transporter signature motif; other site 375451002290 Walker B; other site 375451002291 D-loop; other site 375451002292 H-loop/switch region; other site 375451002293 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451002294 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451002295 Walker A/P-loop; other site 375451002296 ATP binding site [chemical binding]; other site 375451002297 Q-loop/lid; other site 375451002298 ABC transporter signature motif; other site 375451002299 Walker B; other site 375451002300 D-loop; other site 375451002301 H-loop/switch region; other site 375451002302 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451002303 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 375451002304 putative heme binding pocket [chemical binding]; other site 375451002305 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 375451002306 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 375451002307 putative ligand binding site [chemical binding]; other site 375451002308 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 375451002309 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451002310 Walker A/P-loop; other site 375451002311 ATP binding site [chemical binding]; other site 375451002312 Q-loop/lid; other site 375451002313 ABC transporter signature motif; other site 375451002314 Walker B; other site 375451002315 D-loop; other site 375451002316 H-loop/switch region; other site 375451002317 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375451002318 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451002319 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451002320 TM-ABC transporter signature motif; other site 375451002321 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 375451002322 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451002323 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451002324 TM-ABC transporter signature motif; other site 375451002325 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 375451002326 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451002327 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451002328 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451002329 MoxR-like ATPases [General function prediction only]; Region: COG0714 375451002330 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 375451002331 Walker A motif; other site 375451002332 ATP binding site [chemical binding]; other site 375451002333 Walker B motif; other site 375451002334 arginine finger; other site 375451002335 Protein of unknown function DUF58; Region: DUF58; pfam01882 375451002336 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 375451002337 metal ion-dependent adhesion site (MIDAS); other site 375451002338 von Willebrand factor type A domain; Region: VWA_2; pfam13519 375451002339 metal ion-dependent adhesion site (MIDAS); other site 375451002340 Oxygen tolerance; Region: BatD; pfam13584 375451002341 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451002342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451002343 active site 375451002344 phosphorylation site [posttranslational modification] 375451002345 intermolecular recognition site; other site 375451002346 dimerization interface [polypeptide binding]; other site 375451002347 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451002348 DNA binding residues [nucleotide binding] 375451002349 dimerization interface [polypeptide binding]; other site 375451002350 FIST N domain; Region: FIST; pfam08495 375451002351 Uncharacterized conserved protein [Function unknown]; Region: COG3287 375451002352 FIST C domain; Region: FIST_C; pfam10442 375451002353 PAS fold; Region: PAS_7; pfam12860 375451002354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451002355 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 375451002356 dimer interface [polypeptide binding]; other site 375451002357 phosphorylation site [posttranslational modification] 375451002358 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 375451002359 ATP binding site [chemical binding]; other site 375451002360 Mg2+ binding site [ion binding]; other site 375451002361 G-X-G motif; other site 375451002362 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375451002363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451002364 active site 375451002365 phosphorylation site [posttranslational modification] 375451002366 intermolecular recognition site; other site 375451002367 dimerization interface [polypeptide binding]; other site 375451002368 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 375451002369 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 375451002370 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 375451002371 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375451002372 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 375451002373 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 375451002374 substrate binding site [chemical binding]; other site 375451002375 catalytic Zn binding site [ion binding]; other site 375451002376 NAD binding site [chemical binding]; other site 375451002377 structural Zn binding site [ion binding]; other site 375451002378 dimer interface [polypeptide binding]; other site 375451002379 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 375451002380 S-formylglutathione hydrolase; Region: PLN02442 375451002381 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375451002382 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 375451002383 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 375451002384 Trp docking motif [polypeptide binding]; other site 375451002385 dimer interface [polypeptide binding]; other site 375451002386 active site 375451002387 small subunit binding site [polypeptide binding]; other site 375451002388 c-type cytochrome, methanol metabolism-related; Region: 4cys_cytochr; TIGR03874 375451002389 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375451002390 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 375451002391 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 375451002392 substrate binding pocket [chemical binding]; other site 375451002393 membrane-bound complex binding site; other site 375451002394 hinge residues; other site 375451002395 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 375451002396 active site residue [active] 375451002397 Predicted secreted protein [Function unknown]; Region: COG5501 375451002398 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 375451002399 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 375451002400 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 375451002401 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 375451002402 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 375451002403 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 375451002404 putative hydrophobic ligand binding site [chemical binding]; other site 375451002405 protein interface [polypeptide binding]; other site 375451002406 gate; other site 375451002407 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 375451002408 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 375451002409 ligand binding site [chemical binding]; other site 375451002410 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 375451002411 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 375451002412 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 375451002413 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 375451002414 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 375451002415 NMT1/THI5 like; Region: NMT1; pfam09084 375451002416 substrate binding pocket [chemical binding]; other site 375451002417 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451002418 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 375451002419 dimer interface [polypeptide binding]; other site 375451002420 conserved gate region; other site 375451002421 putative PBP binding loops; other site 375451002422 ABC-ATPase subunit interface; other site 375451002423 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375451002424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002425 Walker A/P-loop; other site 375451002426 ATP binding site [chemical binding]; other site 375451002427 Q-loop/lid; other site 375451002428 ABC transporter signature motif; other site 375451002429 Walker B; other site 375451002430 D-loop; other site 375451002431 H-loop/switch region; other site 375451002432 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 375451002433 Imelysin; Region: Peptidase_M75; pfam09375 375451002434 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 375451002435 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 375451002436 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 375451002437 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 375451002438 dimerization interface [polypeptide binding]; other site 375451002439 DPS ferroxidase diiron center [ion binding]; other site 375451002440 ion pore; other site 375451002441 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 375451002442 Imelysin; Region: Peptidase_M75; cl09159 375451002443 Hemin uptake protein hemP; Region: hemP; pfam10636 375451002444 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451002445 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 375451002446 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 375451002447 dimer interface [polypeptide binding]; other site 375451002448 conserved gate region; other site 375451002449 putative PBP binding loops; other site 375451002450 ABC-ATPase subunit interface; other site 375451002451 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 375451002452 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451002453 Predicted permease; Region: DUF318; cl17795 375451002454 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 375451002455 DNA binding residues [nucleotide binding] 375451002456 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 375451002457 dimer interface [polypeptide binding]; other site 375451002458 putative metal binding site [ion binding]; other site 375451002459 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 375451002460 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 375451002461 ABC-ATPase subunit interface; other site 375451002462 dimer interface [polypeptide binding]; other site 375451002463 putative PBP binding regions; other site 375451002464 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 375451002465 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 375451002466 ABC-ATPase subunit interface; other site 375451002467 dimer interface [polypeptide binding]; other site 375451002468 putative PBP binding regions; other site 375451002469 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 375451002470 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 375451002471 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 375451002472 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 375451002473 intersubunit interface [polypeptide binding]; other site 375451002474 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 375451002475 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375451002476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002477 DNA-binding site [nucleotide binding]; DNA binding site 375451002478 FCD domain; Region: FCD; pfam07729 375451002479 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 375451002480 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 375451002481 tetramerization interface [polypeptide binding]; other site 375451002482 NAD(P) binding site [chemical binding]; other site 375451002483 catalytic residues [active] 375451002484 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 375451002485 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 375451002486 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 375451002487 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 375451002488 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 375451002489 active site 375451002490 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 375451002491 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 375451002492 nucleotide binding site/active site [active] 375451002493 HIT family signature motif; other site 375451002494 catalytic residue [active] 375451002495 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 375451002496 SmpB-tmRNA interface; other site 375451002497 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 375451002498 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 375451002499 active site residue [active] 375451002500 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 375451002501 active site residue [active] 375451002502 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 375451002503 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 375451002504 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002505 homodimer interface [polypeptide binding]; other site 375451002506 catalytic residue [active] 375451002507 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 375451002508 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375451002509 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375451002510 Transglycosylase; Region: Transgly; pfam00912 375451002511 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 375451002512 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 375451002513 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 375451002514 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 375451002515 VacJ like lipoprotein; Region: VacJ; cl01073 375451002516 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 375451002517 homotrimer interaction site [polypeptide binding]; other site 375451002518 putative active site [active] 375451002519 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 375451002520 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 375451002521 active site 375451002522 catalytic site [active] 375451002523 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 375451002524 Protein of unknown function, DUF482; Region: DUF482; pfam04339 375451002525 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 375451002526 aromatic arch; other site 375451002527 DCoH dimer interaction site [polypeptide binding]; other site 375451002528 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 375451002529 DCoH tetramer interaction site [polypeptide binding]; other site 375451002530 substrate binding site [chemical binding]; other site 375451002531 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451002532 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 375451002533 catalytic triad [active] 375451002534 dimer interface [polypeptide binding]; other site 375451002535 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 375451002536 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451002537 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451002538 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 375451002539 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 375451002540 S-adenosylmethionine binding site [chemical binding]; other site 375451002541 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 375451002542 active site 375451002543 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 375451002544 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 375451002545 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 375451002546 putative MPT binding site; other site 375451002547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451002548 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375451002549 Coenzyme A binding pocket [chemical binding]; other site 375451002550 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 375451002551 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 375451002552 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 375451002553 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451002554 ligand binding site [chemical binding]; other site 375451002555 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451002556 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451002557 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 375451002558 putative effector binding pocket; other site 375451002559 dimerization interface [polypeptide binding]; other site 375451002560 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 375451002561 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 375451002562 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 375451002563 active site 375451002564 FMN binding site [chemical binding]; other site 375451002565 2,4-decadienoyl-CoA binding site; other site 375451002566 catalytic residue [active] 375451002567 4Fe-4S cluster binding site [ion binding]; other site 375451002568 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 375451002569 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451002570 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 375451002571 putative active site [active] 375451002572 Ap4A binding site [chemical binding]; other site 375451002573 nudix motif; other site 375451002574 putative metal binding site [ion binding]; other site 375451002575 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 375451002576 Coenzyme A binding pocket [chemical binding]; other site 375451002577 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 375451002578 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451002579 substrate binding site [chemical binding]; other site 375451002580 ATP binding site [chemical binding]; other site 375451002581 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 375451002582 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375451002583 minor groove reading motif; other site 375451002584 helix-hairpin-helix signature motif; other site 375451002585 substrate binding pocket [chemical binding]; other site 375451002586 active site 375451002587 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 375451002588 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451002589 Helix-turn-helix domain; Region: HTH_18; pfam12833 375451002590 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 375451002591 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 375451002592 DNA binding site [nucleotide binding] 375451002593 active site 375451002594 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375451002595 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451002596 ligand binding site [chemical binding]; other site 375451002597 Predicted flavoprotein [General function prediction only]; Region: COG0431 375451002598 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375451002599 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451002600 Uncharacterized conserved protein [Function unknown]; Region: COG4121 375451002601 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451002602 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451002603 catalytic residue [active] 375451002604 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 375451002605 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 375451002606 dimer interface [polypeptide binding]; other site 375451002607 active site 375451002608 catalytic residue [active] 375451002609 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 375451002610 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 375451002611 4Fe-4S binding domain; Region: Fer4; pfam00037 375451002612 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 375451002613 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_2; cd02763 375451002614 putative [Fe4-S4] binding site [ion binding]; other site 375451002615 putative molybdopterin cofactor binding site [chemical binding]; other site 375451002616 The MopB_CT_2 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. This CD is...; Region: MopB_CT_2; cd02783 375451002617 putative molybdopterin cofactor binding site; other site 375451002618 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 375451002619 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451002620 PYR/PP interface [polypeptide binding]; other site 375451002621 dimer interface [polypeptide binding]; other site 375451002622 TPP binding site [chemical binding]; other site 375451002623 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451002624 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 375451002625 TPP-binding site [chemical binding]; other site 375451002626 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 375451002627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002628 DNA-binding site [nucleotide binding]; DNA binding site 375451002629 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 375451002630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002631 homodimer interface [polypeptide binding]; other site 375451002632 catalytic residue [active] 375451002633 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 375451002634 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 375451002635 aminotransferase; Validated; Region: PRK07678 375451002636 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 375451002637 inhibitor-cofactor binding pocket; inhibition site 375451002638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002639 catalytic residue [active] 375451002640 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 375451002641 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 375451002642 substrate binding pocket [chemical binding]; other site 375451002643 membrane-bound complex binding site; other site 375451002644 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451002645 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375451002646 Walker A/P-loop; other site 375451002647 ATP binding site [chemical binding]; other site 375451002648 Q-loop/lid; other site 375451002649 ABC transporter signature motif; other site 375451002650 Walker B; other site 375451002651 D-loop; other site 375451002652 H-loop/switch region; other site 375451002653 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451002654 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 375451002655 dimer interface [polypeptide binding]; other site 375451002656 conserved gate region; other site 375451002657 putative PBP binding loops; other site 375451002658 ABC-ATPase subunit interface; other site 375451002659 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 375451002660 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 375451002661 putative di-iron ligands [ion binding]; other site 375451002662 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 375451002663 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 375451002664 ATP binding site [chemical binding]; other site 375451002665 putative Mg++ binding site [ion binding]; other site 375451002666 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 375451002667 nucleotide binding region [chemical binding]; other site 375451002668 ATP-binding site [chemical binding]; other site 375451002669 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 375451002670 RNA binding site [nucleotide binding]; other site 375451002671 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375451002672 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 375451002673 homodimer interface [polypeptide binding]; other site 375451002674 substrate-cofactor binding pocket; other site 375451002675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002676 catalytic residue [active] 375451002677 FOG: WD40 repeat [General function prediction only]; Region: COG2319 375451002678 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 375451002679 structural tetrad; other site 375451002680 Cytochrome c; Region: Cytochrom_C; cl11414 375451002681 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 375451002682 dimerization interface [polypeptide binding]; other site 375451002683 putative DNA binding site [nucleotide binding]; other site 375451002684 putative Zn2+ binding site [ion binding]; other site 375451002685 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 375451002686 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 375451002687 putative active site [active] 375451002688 putative FMN binding site [chemical binding]; other site 375451002689 putative substrate binding site [chemical binding]; other site 375451002690 putative catalytic residue [active] 375451002691 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 375451002692 TIGR02300 family protein; Region: FYDLN_acid 375451002693 Protein of unknown function DUF45; Region: DUF45; pfam01863 375451002694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002695 DNA-binding site [nucleotide binding]; DNA binding site 375451002696 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 375451002697 FCD domain; Region: FCD; pfam07729 375451002698 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 375451002699 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 375451002700 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451002701 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451002702 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 375451002703 putative DNA binding site [nucleotide binding]; other site 375451002704 putative Zn2+ binding site [ion binding]; other site 375451002705 AsnC family; Region: AsnC_trans_reg; pfam01037 375451002706 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 375451002707 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 375451002708 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 375451002709 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 375451002710 active site 375451002711 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375451002712 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 375451002713 homodimer interface [polypeptide binding]; other site 375451002714 substrate-cofactor binding pocket; other site 375451002715 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451002716 catalytic residue [active] 375451002717 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 375451002718 putative active site [active] 375451002719 putative catalytic site [active] 375451002720 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 375451002721 pyruvate kinase; Provisional; Region: PRK06247 375451002722 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 375451002723 domain interfaces; other site 375451002724 active site 375451002725 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 375451002726 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 375451002727 23S rRNA binding site [nucleotide binding]; other site 375451002728 L21 binding site [polypeptide binding]; other site 375451002729 L13 binding site [polypeptide binding]; other site 375451002730 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; pfam10707 375451002731 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 375451002732 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 375451002733 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 375451002734 dimer interface [polypeptide binding]; other site 375451002735 motif 1; other site 375451002736 active site 375451002737 motif 2; other site 375451002738 motif 3; other site 375451002739 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 375451002740 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 375451002741 putative tRNA-binding site [nucleotide binding]; other site 375451002742 B3/4 domain; Region: B3_4; pfam03483 375451002743 tRNA synthetase B5 domain; Region: B5; smart00874 375451002744 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 375451002745 dimer interface [polypeptide binding]; other site 375451002746 motif 1; other site 375451002747 motif 3; other site 375451002748 motif 2; other site 375451002749 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 375451002750 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 375451002751 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 375451002752 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 375451002753 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451002754 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 375451002755 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 375451002756 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375451002757 Virulence factor SrfB; Region: SrfB; pfam07520 375451002758 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 375451002759 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 375451002760 Putative bacterial virulence factor; Region: Virul_Fac; pfam10139 375451002761 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 375451002762 metal ion-dependent adhesion site (MIDAS); other site 375451002763 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 375451002764 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002765 Walker A/P-loop; other site 375451002766 ATP binding site [chemical binding]; other site 375451002767 Q-loop/lid; other site 375451002768 ABC transporter signature motif; other site 375451002769 Walker B; other site 375451002770 D-loop; other site 375451002771 H-loop/switch region; other site 375451002772 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 375451002773 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375451002774 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 375451002775 [2Fe-2S] cluster binding site [ion binding]; other site 375451002776 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 375451002777 putative alpha subunit interface [polypeptide binding]; other site 375451002778 putative active site [active] 375451002779 putative substrate binding site [chemical binding]; other site 375451002780 Fe binding site [ion binding]; other site 375451002781 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 375451002782 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 375451002783 hexamer interface [polypeptide binding]; other site 375451002784 ligand binding site [chemical binding]; other site 375451002785 putative active site [active] 375451002786 NAD(P) binding site [chemical binding]; other site 375451002787 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451002788 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 375451002789 putative DNA binding site [nucleotide binding]; other site 375451002790 putative Zn2+ binding site [ion binding]; other site 375451002791 AsnC family; Region: AsnC_trans_reg; pfam01037 375451002792 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 375451002793 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 375451002794 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 375451002795 COQ9; Region: COQ9; pfam08511 375451002796 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 375451002797 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 375451002798 NAD(P) binding site [chemical binding]; other site 375451002799 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 375451002800 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 375451002801 NADP binding site [chemical binding]; other site 375451002802 dimer interface [polypeptide binding]; other site 375451002803 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 375451002804 B1 nucleotide binding pocket [chemical binding]; other site 375451002805 B2 nucleotide binding pocket [chemical binding]; other site 375451002806 CAS motifs; other site 375451002807 active site 375451002808 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 375451002809 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 375451002810 homotrimer interaction site [polypeptide binding]; other site 375451002811 putative active site [active] 375451002812 recombination protein RecR; Reviewed; Region: recR; PRK00076 375451002813 RecR protein; Region: RecR; pfam02132 375451002814 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 375451002815 putative active site [active] 375451002816 putative metal-binding site [ion binding]; other site 375451002817 tetramer interface [polypeptide binding]; other site 375451002818 hypothetical protein; Validated; Region: PRK00153 375451002819 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 375451002820 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 375451002821 Walker A motif; other site 375451002822 ATP binding site [chemical binding]; other site 375451002823 Walker B motif; other site 375451002824 arginine finger; other site 375451002825 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 375451002826 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 375451002827 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 375451002828 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 375451002829 putative NAD(P) binding site [chemical binding]; other site 375451002830 catalytic Zn binding site [ion binding]; other site 375451002831 DctM-like transporters; Region: DctM; pfam06808 375451002832 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451002833 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451002834 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451002835 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 375451002836 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451002837 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451002838 DNA-binding site [nucleotide binding]; DNA binding site 375451002839 FCD domain; Region: FCD; pfam07729 375451002840 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 375451002841 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 375451002842 dimer interface [polypeptide binding]; other site 375451002843 conserved gate region; other site 375451002844 ABC-ATPase subunit interface; other site 375451002845 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 375451002846 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 375451002847 dimer interface [polypeptide binding]; other site 375451002848 conserved gate region; other site 375451002849 ABC-ATPase subunit interface; other site 375451002850 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 375451002851 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 375451002852 Walker A/P-loop; other site 375451002853 ATP binding site [chemical binding]; other site 375451002854 Q-loop/lid; other site 375451002855 ABC transporter signature motif; other site 375451002856 Walker B; other site 375451002857 D-loop; other site 375451002858 H-loop/switch region; other site 375451002859 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 375451002860 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 375451002861 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451002862 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451002863 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 375451002864 dimer interface [polypeptide binding]; other site 375451002865 conserved gate region; other site 375451002866 putative PBP binding loops; other site 375451002867 ABC-ATPase subunit interface; other site 375451002868 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 375451002869 dimer interface [polypeptide binding]; other site 375451002870 conserved gate region; other site 375451002871 putative PBP binding loops; other site 375451002872 ABC-ATPase subunit interface; other site 375451002873 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451002874 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451002875 Walker A/P-loop; other site 375451002876 ATP binding site [chemical binding]; other site 375451002877 Q-loop/lid; other site 375451002878 ABC transporter signature motif; other site 375451002879 Walker B; other site 375451002880 D-loop; other site 375451002881 H-loop/switch region; other site 375451002882 TOBE domain; Region: TOBE_2; pfam08402 375451002883 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451002884 catalytic core [active] 375451002885 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 375451002886 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 375451002887 hinge; other site 375451002888 active site 375451002889 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 375451002890 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 375451002891 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 375451002892 NAD binding site [chemical binding]; other site 375451002893 dimerization interface [polypeptide binding]; other site 375451002894 product binding site; other site 375451002895 substrate binding site [chemical binding]; other site 375451002896 zinc binding site [ion binding]; other site 375451002897 catalytic residues [active] 375451002898 hypothetical protein; Provisional; Region: PRK02853 375451002899 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 375451002900 Low molecular weight phosphatase family; Region: LMWPc; cd00115 375451002901 active site 375451002902 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 375451002903 substrate binding site [chemical binding]; other site 375451002904 homodimer interface [polypeptide binding]; other site 375451002905 heme binding site [chemical binding]; other site 375451002906 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 375451002907 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451002908 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375451002909 Gram-negative porin; Region: Porin_4; pfam13609 375451002910 DNA methylase; Region: N6_N4_Mtase; cl17433 375451002911 MT-A70; Region: MT-A70; cl01947 375451002912 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 375451002913 GTP-binding protein LepA; Provisional; Region: PRK05433 375451002914 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 375451002915 G1 box; other site 375451002916 putative GEF interaction site [polypeptide binding]; other site 375451002917 GTP/Mg2+ binding site [chemical binding]; other site 375451002918 Switch I region; other site 375451002919 G2 box; other site 375451002920 G3 box; other site 375451002921 Switch II region; other site 375451002922 G4 box; other site 375451002923 G5 box; other site 375451002924 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 375451002925 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 375451002926 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 375451002927 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 375451002928 Entericidin EcnA/B family; Region: Entericidin; cl02322 375451002929 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 375451002930 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 375451002931 putative active site [active] 375451002932 NodB motif; other site 375451002933 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 375451002934 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 375451002935 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 375451002936 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451002937 catalytic core [active] 375451002938 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 375451002939 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375451002940 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 375451002941 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 375451002942 putative ADP-binding pocket [chemical binding]; other site 375451002943 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 375451002944 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451002945 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451002946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375451002947 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 375451002948 dimer interface [polypeptide binding]; other site 375451002949 conserved gate region; other site 375451002950 putative PBP binding loops; other site 375451002951 ABC-ATPase subunit interface; other site 375451002952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451002953 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 375451002954 dimer interface [polypeptide binding]; other site 375451002955 conserved gate region; other site 375451002956 putative PBP binding loops; other site 375451002957 ABC-ATPase subunit interface; other site 375451002958 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451002959 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_4; cd08500 375451002960 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 375451002961 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451002962 Walker A/P-loop; other site 375451002963 ATP binding site [chemical binding]; other site 375451002964 Q-loop/lid; other site 375451002965 ABC transporter signature motif; other site 375451002966 Walker B; other site 375451002967 D-loop; other site 375451002968 H-loop/switch region; other site 375451002969 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451002970 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451002971 Walker A/P-loop; other site 375451002972 ATP binding site [chemical binding]; other site 375451002973 Q-loop/lid; other site 375451002974 ABC transporter signature motif; other site 375451002975 Walker B; other site 375451002976 D-loop; other site 375451002977 H-loop/switch region; other site 375451002978 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451002979 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 375451002980 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 375451002981 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 375451002982 substrate binding site [chemical binding]; other site 375451002983 hexamer interface [polypeptide binding]; other site 375451002984 metal binding site [ion binding]; metal-binding site 375451002985 AMP-binding domain protein; Validated; Region: PRK08315 375451002986 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451002987 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 375451002988 acyl-activating enzyme (AAE) consensus motif; other site 375451002989 putative AMP binding site [chemical binding]; other site 375451002990 putative active site [active] 375451002991 putative CoA binding site [chemical binding]; other site 375451002992 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375451002993 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 375451002994 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 375451002995 putative NAD(P) binding site [chemical binding]; other site 375451002996 catalytic Zn binding site [ion binding]; other site 375451002997 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 375451002998 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 375451002999 NADP binding site [chemical binding]; other site 375451003000 homodimer interface [polypeptide binding]; other site 375451003001 active site 375451003002 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 375451003003 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 375451003004 active site 375451003005 catalytic site [active] 375451003006 substrate binding site [chemical binding]; other site 375451003007 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 375451003008 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 375451003009 ligand binding site [chemical binding]; other site 375451003010 flexible hinge region; other site 375451003011 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 375451003012 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375451003013 metal binding triad; other site 375451003014 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 375451003015 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 375451003016 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 375451003017 Na binding site [ion binding]; other site 375451003018 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 375451003019 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 375451003020 adenylate kinase; Reviewed; Region: adk; PRK00279 375451003021 AMP-binding site [chemical binding]; other site 375451003022 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 375451003023 acetyl-CoA synthetase; Provisional; Region: PRK00174 375451003024 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 375451003025 active site 375451003026 CoA binding site [chemical binding]; other site 375451003027 acyl-activating enzyme (AAE) consensus motif; other site 375451003028 AMP binding site [chemical binding]; other site 375451003029 acetate binding site [chemical binding]; other site 375451003030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 375451003031 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375451003032 Predicted permeases [General function prediction only]; Region: RarD; COG2962 375451003033 EamA-like transporter family; Region: EamA; pfam00892 375451003034 Transglycosylase SLT domain; Region: SLT_2; pfam13406 375451003035 murein hydrolase B; Provisional; Region: PRK10760; cl17906 375451003036 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451003037 TIGR03545 family protein; Region: TIGR03545 375451003038 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451003039 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375451003040 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 375451003041 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451003042 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 375451003043 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 375451003044 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451003045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451003046 Walker A/P-loop; other site 375451003047 ATP binding site [chemical binding]; other site 375451003048 Q-loop/lid; other site 375451003049 ABC transporter signature motif; other site 375451003050 Walker B; other site 375451003051 D-loop; other site 375451003052 H-loop/switch region; other site 375451003053 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 375451003054 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451003055 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375451003056 ligand binding site [chemical binding]; other site 375451003057 hypothetical protein; Provisional; Region: PRK11171 375451003058 Cupin domain; Region: Cupin_2; pfam07883 375451003059 Cupin domain; Region: Cupin_2; pfam07883 375451003060 serine acetyltransferase; Provisional; Region: cysE; PRK11132 375451003061 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 375451003062 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 375451003063 trimer interface [polypeptide binding]; other site 375451003064 active site 375451003065 substrate binding site [chemical binding]; other site 375451003066 CoA binding site [chemical binding]; other site 375451003067 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451003068 EamA-like transporter family; Region: EamA; cl17759 375451003069 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 375451003070 active site 1 [active] 375451003071 dimer interface [polypeptide binding]; other site 375451003072 hexamer interface [polypeptide binding]; other site 375451003073 active site 2 [active] 375451003074 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 375451003075 glutathionine S-transferase; Provisional; Region: PRK10542 375451003076 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 375451003077 C-terminal domain interface [polypeptide binding]; other site 375451003078 GSH binding site (G-site) [chemical binding]; other site 375451003079 dimer interface [polypeptide binding]; other site 375451003080 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 375451003081 N-terminal domain interface [polypeptide binding]; other site 375451003082 dimer interface [polypeptide binding]; other site 375451003083 substrate binding pocket (H-site) [chemical binding]; other site 375451003084 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451003085 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451003086 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 375451003087 dimerization interface [polypeptide binding]; other site 375451003088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451003089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451003090 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 375451003091 NADH(P)-binding; Region: NAD_binding_10; pfam13460 375451003092 NAD binding site [chemical binding]; other site 375451003093 substrate binding site [chemical binding]; other site 375451003094 putative active site [active] 375451003095 NACHT domain; Region: NACHT; pfam05729 375451003096 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 375451003097 Walker A motif; other site 375451003098 ATP binding site [chemical binding]; other site 375451003099 Walker B motif; other site 375451003100 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 375451003101 Transposase; Region: HTH_Tnp_1; pfam01527 375451003102 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451003103 HTH-like domain; Region: HTH_21; pfam13276 375451003104 Integrase core domain; Region: rve; pfam00665 375451003105 Integrase core domain; Region: rve_3; pfam13683 375451003106 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 375451003107 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 375451003108 putative active site [active] 375451003109 putative nucleic acid binding site [nucleotide binding]; other site 375451003110 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 375451003111 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 375451003112 FeS/SAM binding site; other site 375451003113 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 375451003114 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 375451003115 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 375451003116 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 375451003117 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 375451003118 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 375451003119 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451003120 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451003121 active site 375451003122 phosphorylation site [posttranslational modification] 375451003123 intermolecular recognition site; other site 375451003124 dimerization interface [polypeptide binding]; other site 375451003125 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 375451003126 DNA binding site [nucleotide binding] 375451003127 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451003128 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 375451003129 dimerization interface [polypeptide binding]; other site 375451003130 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 375451003131 dimer interface [polypeptide binding]; other site 375451003132 phosphorylation site [posttranslational modification] 375451003133 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 375451003134 ATP binding site [chemical binding]; other site 375451003135 Mg2+ binding site [ion binding]; other site 375451003136 G-X-G motif; other site 375451003137 ABC-2 type transporter; Region: ABC2_membrane; cl17235 375451003138 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 375451003139 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 375451003140 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451003141 Walker A/P-loop; other site 375451003142 ATP binding site [chemical binding]; other site 375451003143 Q-loop/lid; other site 375451003144 ABC transporter signature motif; other site 375451003145 Walker B; other site 375451003146 D-loop; other site 375451003147 H-loop/switch region; other site 375451003148 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 375451003149 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 375451003150 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451003151 catalytic residue [active] 375451003152 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 375451003153 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 375451003154 CoA-ligase; Region: Ligase_CoA; pfam00549 375451003155 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 375451003156 CoA binding domain; Region: CoA_binding; smart00881 375451003157 CoA-ligase; Region: Ligase_CoA; pfam00549 375451003158 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451003159 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 375451003160 dimerization interface [polypeptide binding]; other site 375451003161 ligand binding site [chemical binding]; other site 375451003162 NADP binding site [chemical binding]; other site 375451003163 catalytic site [active] 375451003164 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 375451003165 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 375451003166 dimer interface [polypeptide binding]; other site 375451003167 active site 375451003168 glycine-pyridoxal phosphate binding site [chemical binding]; other site 375451003169 folate binding site [chemical binding]; other site 375451003170 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 375451003171 HSP70 interaction site [polypeptide binding]; other site 375451003172 HAMP domain; Region: HAMP; pfam00672 375451003173 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375451003174 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451003175 dimer interface [polypeptide binding]; other site 375451003176 putative CheW interface [polypeptide binding]; other site 375451003177 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451003178 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451003179 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 375451003180 substrate binding pocket [chemical binding]; other site 375451003181 dimerization interface [polypeptide binding]; other site 375451003182 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451003183 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451003184 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 375451003185 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 375451003186 iron-sulfur cluster [ion binding]; other site 375451003187 [2Fe-2S] cluster binding site [ion binding]; other site 375451003188 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 375451003189 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 375451003190 dimer interface [polypeptide binding]; other site 375451003191 anticodon binding site; other site 375451003192 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451003193 motif 1; other site 375451003194 dimer interface [polypeptide binding]; other site 375451003195 active site 375451003196 motif 2; other site 375451003197 GAD domain; Region: GAD; pfam02938 375451003198 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451003199 active site 375451003200 motif 3; other site 375451003201 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 375451003202 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375451003203 Response regulator receiver domain; Region: Response_reg; pfam00072 375451003204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451003205 active site 375451003206 phosphorylation site [posttranslational modification] 375451003207 intermolecular recognition site; other site 375451003208 dimerization interface [polypeptide binding]; other site 375451003209 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451003210 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 375451003211 dimer interface [polypeptide binding]; other site 375451003212 substrate binding site [chemical binding]; other site 375451003213 metal binding site [ion binding]; metal-binding site 375451003214 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 375451003215 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 375451003216 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 375451003217 putative FMN binding site [chemical binding]; other site 375451003218 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 375451003219 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 375451003220 active site 375451003221 Zn binding site [ion binding]; other site 375451003222 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 375451003223 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 375451003224 active site 375451003225 HIGH motif; other site 375451003226 dimer interface [polypeptide binding]; other site 375451003227 KMSKS motif; other site 375451003228 Rhomboid family; Region: Rhomboid; pfam01694 375451003229 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 375451003230 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 375451003231 PII uridylyl-transferase; Provisional; Region: PRK05092 375451003232 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375451003233 metal binding triad; other site 375451003234 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 375451003235 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 375451003236 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375451003237 Zn2+ binding site [ion binding]; other site 375451003238 Mg2+ binding site [ion binding]; other site 375451003239 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 375451003240 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 375451003241 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451003242 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 375451003243 putative ligand binding site [chemical binding]; other site 375451003244 Predicted methyltransferases [General function prediction only]; Region: COG0313 375451003245 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 375451003246 putative SAM binding site [chemical binding]; other site 375451003247 putative homodimer interface [polypeptide binding]; other site 375451003248 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 375451003249 glutathione synthetase; Provisional; Region: PRK05246 375451003250 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 375451003251 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 375451003252 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 375451003253 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 375451003254 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 375451003255 Walker A motif; other site 375451003256 ATP binding site [chemical binding]; other site 375451003257 Walker B motif; other site 375451003258 arginine finger; other site 375451003259 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 375451003260 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 375451003261 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451003262 putative C-terminal domain interface [polypeptide binding]; other site 375451003263 putative GSH binding site (G-site) [chemical binding]; other site 375451003264 putative dimer interface [polypeptide binding]; other site 375451003265 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 375451003266 putative N-terminal domain interface [polypeptide binding]; other site 375451003267 putative dimer interface [polypeptide binding]; other site 375451003268 putative substrate binding pocket (H-site) [chemical binding]; other site 375451003269 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451003270 catalytic core [active] 375451003271 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 375451003272 homotrimer interface [polypeptide binding]; other site 375451003273 Walker A motif; other site 375451003274 GTP binding site [chemical binding]; other site 375451003275 Walker B motif; other site 375451003276 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 375451003277 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451003278 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 375451003279 DNA binding residues [nucleotide binding] 375451003280 Protein of unknown function, DUF399; Region: DUF399; pfam04187 375451003281 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 375451003282 Flavoprotein; Region: Flavoprotein; pfam02441 375451003283 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 375451003284 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 375451003285 trimer interface [polypeptide binding]; other site 375451003286 active site 375451003287 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 375451003288 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 375451003289 ATP binding site [chemical binding]; other site 375451003290 substrate interface [chemical binding]; other site 375451003291 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 375451003292 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 375451003293 active site 375451003294 Zn binding site [ion binding]; other site 375451003295 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 375451003296 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 375451003297 putative ligand binding site [chemical binding]; other site 375451003298 NAD binding site [chemical binding]; other site 375451003299 dimerization interface [polypeptide binding]; other site 375451003300 catalytic site [active] 375451003301 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 375451003302 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 375451003303 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 375451003304 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375451003305 rod shape-determining protein MreC; Provisional; Region: PRK13922 375451003306 rod shape-determining protein MreC; Region: MreC; pfam04085 375451003307 rod shape-determining protein MreB; Provisional; Region: PRK13927 375451003308 MreB and similar proteins; Region: MreB_like; cd10225 375451003309 nucleotide binding site [chemical binding]; other site 375451003310 Mg binding site [ion binding]; other site 375451003311 putative protofilament interaction site [polypeptide binding]; other site 375451003312 RodZ interaction site [polypeptide binding]; other site 375451003313 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 375451003314 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 375451003315 substrate binding pocket [chemical binding]; other site 375451003316 membrane-bound complex binding site; other site 375451003317 hinge residues; other site 375451003318 2-isopropylmalate synthase; Validated; Region: PRK00915 375451003319 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 375451003320 active site 375451003321 catalytic residues [active] 375451003322 metal binding site [ion binding]; metal-binding site 375451003323 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 375451003324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451003325 NAD(P) binding site [chemical binding]; other site 375451003326 active site 375451003327 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 375451003328 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 375451003329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 375451003330 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 375451003331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 375451003332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 375451003333 MORN repeat; Region: MORN; cl14787 375451003334 NAD synthetase; Provisional; Region: PRK13981 375451003335 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 375451003336 multimer interface [polypeptide binding]; other site 375451003337 active site 375451003338 catalytic triad [active] 375451003339 protein interface 1 [polypeptide binding]; other site 375451003340 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 375451003341 homodimer interface [polypeptide binding]; other site 375451003342 NAD binding pocket [chemical binding]; other site 375451003343 ATP binding pocket [chemical binding]; other site 375451003344 Mg binding site [ion binding]; other site 375451003345 active-site loop [active] 375451003346 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 375451003347 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 375451003348 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451003349 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 375451003350 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 375451003351 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451003352 active site 375451003353 HIGH motif; other site 375451003354 nucleotide binding site [chemical binding]; other site 375451003355 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 375451003356 active site 375451003357 KMSKS motif; other site 375451003358 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375451003359 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 375451003360 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 375451003361 putative active site pocket [active] 375451003362 dimerization interface [polypeptide binding]; other site 375451003363 putative catalytic residue [active] 375451003364 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 375451003365 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451003366 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 375451003367 lipoyl attachment site [posttranslational modification]; other site 375451003368 glycine dehydrogenase; Provisional; Region: PRK05367 375451003369 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 375451003370 tetramer interface [polypeptide binding]; other site 375451003371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451003372 catalytic residue [active] 375451003373 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 375451003374 tetramer interface [polypeptide binding]; other site 375451003375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451003376 catalytic residue [active] 375451003377 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 375451003378 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 375451003379 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451003380 Walker A/P-loop; other site 375451003381 ATP binding site [chemical binding]; other site 375451003382 Q-loop/lid; other site 375451003383 ABC transporter signature motif; other site 375451003384 Walker B; other site 375451003385 D-loop; other site 375451003386 H-loop/switch region; other site 375451003387 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 375451003388 active site 375451003389 catalytic triad [active] 375451003390 oxyanion hole [active] 375451003391 switch loop; other site 375451003392 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451003393 DNA-binding site [nucleotide binding]; DNA binding site 375451003394 RNA-binding motif; other site 375451003395 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451003396 DNA-binding site [nucleotide binding]; DNA binding site 375451003397 RNA-binding motif; other site 375451003398 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 375451003399 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 375451003400 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 375451003401 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 375451003402 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451003403 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451003404 ABC transporter; Region: ABC_tran_2; pfam12848 375451003405 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451003406 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 375451003407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 375451003408 MOSC domain; Region: MOSC; pfam03473 375451003409 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 375451003410 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 375451003411 active site 375451003412 (T/H)XGH motif; other site 375451003413 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 375451003414 tellurite resistance protein terB; Region: terB; cd07176 375451003415 putative metal binding site [ion binding]; other site 375451003416 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 375451003417 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451003418 active site 375451003419 nucleotide binding site [chemical binding]; other site 375451003420 HIGH motif; other site 375451003421 KMSKS motif; other site 375451003422 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 375451003423 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 375451003424 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 375451003425 excinuclease ABC subunit B; Provisional; Region: PRK05298 375451003426 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 375451003427 ATP binding site [chemical binding]; other site 375451003428 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 375451003429 nucleotide binding region [chemical binding]; other site 375451003430 ATP-binding site [chemical binding]; other site 375451003431 Ultra-violet resistance protein B; Region: UvrB; pfam12344 375451003432 UvrB/uvrC motif; Region: UVR; pfam02151 375451003433 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 375451003434 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 375451003435 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 375451003436 active site 375451003437 metal binding site [ion binding]; metal-binding site 375451003438 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 375451003439 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 375451003440 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 375451003441 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 375451003442 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 375451003443 putative NADH binding site [chemical binding]; other site 375451003444 putative active site [active] 375451003445 nudix motif; other site 375451003446 putative metal binding site [ion binding]; other site 375451003447 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 375451003448 hydrophobic ligand binding site; other site 375451003449 prephenate dehydratase; Provisional; Region: PRK11899 375451003450 Prephenate dehydratase; Region: PDT; pfam00800 375451003451 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 375451003452 putative L-Phe binding site [chemical binding]; other site 375451003453 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375451003454 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 375451003455 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_14; cd08497 375451003456 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 375451003457 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 375451003458 dimer interface [polypeptide binding]; other site 375451003459 conserved gate region; other site 375451003460 putative PBP binding loops; other site 375451003461 ABC-ATPase subunit interface; other site 375451003462 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 375451003463 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 375451003464 dimer interface [polypeptide binding]; other site 375451003465 conserved gate region; other site 375451003466 putative PBP binding loops; other site 375451003467 ABC-ATPase subunit interface; other site 375451003468 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 375451003469 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451003470 Walker A/P-loop; other site 375451003471 ATP binding site [chemical binding]; other site 375451003472 Q-loop/lid; other site 375451003473 ABC transporter signature motif; other site 375451003474 Walker B; other site 375451003475 D-loop; other site 375451003476 H-loop/switch region; other site 375451003477 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 375451003478 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451003479 Walker A/P-loop; other site 375451003480 ATP binding site [chemical binding]; other site 375451003481 Q-loop/lid; other site 375451003482 ABC transporter signature motif; other site 375451003483 Walker B; other site 375451003484 D-loop; other site 375451003485 H-loop/switch region; other site 375451003486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451003487 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 375451003488 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 375451003489 FeS/SAM binding site; other site 375451003490 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 375451003491 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451003492 ligand binding site [chemical binding]; other site 375451003493 flexible hinge region; other site 375451003494 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 375451003495 putative switch regulator; other site 375451003496 non-specific DNA interactions [nucleotide binding]; other site 375451003497 DNA binding site [nucleotide binding] 375451003498 sequence specific DNA binding site [nucleotide binding]; other site 375451003499 putative cAMP binding site [chemical binding]; other site 375451003500 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 375451003501 Ligand Binding Site [chemical binding]; other site 375451003502 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 375451003503 Low-spin heme binding site [chemical binding]; other site 375451003504 Putative water exit pathway; other site 375451003505 Binuclear center (active site) [active] 375451003506 Putative proton exit pathway; other site 375451003507 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 375451003508 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 375451003509 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 375451003510 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 375451003511 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375451003512 Cytochrome c; Region: Cytochrom_C; pfam00034 375451003513 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 375451003514 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375451003515 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 375451003516 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 375451003517 FixH; Region: FixH; pfam05751 375451003518 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 375451003519 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375451003520 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 375451003521 metal-binding site [ion binding] 375451003522 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375451003523 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 375451003524 motif II; other site 375451003525 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 375451003526 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 375451003527 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 375451003528 Uncharacterized conserved protein [Function unknown]; Region: COG2127 375451003529 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 375451003530 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 375451003531 S-adenosylmethionine binding site [chemical binding]; other site 375451003532 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 375451003533 classical (c) SDRs; Region: SDR_c; cd05233 375451003534 NAD(P) binding site [chemical binding]; other site 375451003535 active site 375451003536 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 375451003537 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 375451003538 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 375451003539 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 375451003540 domain interfaces; other site 375451003541 active site 375451003542 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 375451003543 substrate binding site [chemical binding]; other site 375451003544 active site 375451003545 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451003546 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451003547 DctM-like transporters; Region: DctM; pfam06808 375451003548 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451003549 Domain of unknown function (DUF309); Region: DUF309; pfam03745 375451003550 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 375451003551 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451003552 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 375451003553 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375451003554 FAD binding domain; Region: FAD_binding_4; pfam01565 375451003555 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 375451003556 Amidohydrolase; Region: Amidohydro_4; pfam13147 375451003557 active site 375451003558 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 375451003559 homotrimer interaction site [polypeptide binding]; other site 375451003560 putative active site [active] 375451003561 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451003562 EamA-like transporter family; Region: EamA; pfam00892 375451003563 ATPase MipZ; Region: MipZ; pfam09140 375451003564 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 375451003565 P-loop; other site 375451003566 Magnesium ion binding site [ion binding]; other site 375451003567 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 375451003568 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 375451003569 active site 375451003570 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 375451003571 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 375451003572 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 375451003573 RimM N-terminal domain; Region: RimM; pfam01782 375451003574 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 375451003575 PRC-barrel domain; Region: PRC; pfam05239 375451003576 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 375451003577 chorismate mutase; Provisional; Region: PRK09239 375451003578 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451003579 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451003580 signal recognition particle protein; Provisional; Region: PRK10867 375451003581 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 375451003582 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 375451003583 P loop; other site 375451003584 GTP binding site [chemical binding]; other site 375451003585 Signal peptide binding domain; Region: SRP_SPB; pfam02978 375451003586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451003587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451003588 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 375451003589 dimerization interface [polypeptide binding]; other site 375451003590 EamA-like transporter family; Region: EamA; pfam00892 375451003591 EamA-like transporter family; Region: EamA; pfam00892 375451003592 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 375451003593 dimerization interface [polypeptide binding]; other site 375451003594 putative DNA binding site [nucleotide binding]; other site 375451003595 putative Zn2+ binding site [ion binding]; other site 375451003596 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 375451003597 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 375451003598 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 375451003599 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 375451003600 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 375451003601 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 375451003602 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 375451003603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451003604 DNA-binding site [nucleotide binding]; DNA binding site 375451003605 FCD domain; Region: FCD; pfam07729 375451003606 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 375451003607 AAA domain; Region: AAA_23; pfam13476 375451003608 Walker A/P-loop; other site 375451003609 ATP binding site [chemical binding]; other site 375451003610 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 375451003611 Walker B; other site 375451003612 D-loop; other site 375451003613 H-loop/switch region; other site 375451003614 Transglycosylase SLT domain; Region: SLT_2; pfam13406 375451003615 murein hydrolase B; Provisional; Region: PRK10760; cl17906 375451003616 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451003617 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 375451003618 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 375451003619 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 375451003620 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451003621 catalytic residue [active] 375451003622 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375451003623 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451003624 active site 375451003625 phosphorylation site [posttranslational modification] 375451003626 intermolecular recognition site; other site 375451003627 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 375451003628 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451003629 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 375451003630 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 375451003631 putative dimer interface [polypeptide binding]; other site 375451003632 N-terminal domain interface [polypeptide binding]; other site 375451003633 putative substrate binding pocket (H-site) [chemical binding]; other site 375451003634 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 375451003635 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 375451003636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451003637 homodimer interface [polypeptide binding]; other site 375451003638 catalytic residue [active] 375451003639 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 375451003640 active site 375451003641 catalytic residues [active] 375451003642 metal binding site [ion binding]; metal-binding site 375451003643 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 375451003644 active site 375451003645 catalytic residues [active] 375451003646 metal binding site [ion binding]; metal-binding site 375451003647 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 375451003648 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 375451003649 putative active site [active] 375451003650 substrate binding site [chemical binding]; other site 375451003651 putative cosubstrate binding site; other site 375451003652 catalytic site [active] 375451003653 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 375451003654 substrate binding site [chemical binding]; other site 375451003655 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451003656 Protein export membrane protein; Region: SecD_SecF; cl14618 375451003657 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375451003658 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451003659 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451003660 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451003661 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 375451003662 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451003663 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451003664 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451003665 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451003666 Fatty acyltransferase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: fatty_acyltransferase_like; cd01846 375451003667 active site 375451003668 catalytic triad [active] 375451003669 oxyanion hole [active] 375451003670 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 375451003671 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375451003672 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 375451003673 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 375451003674 Predicted membrane protein [Function unknown]; Region: COG2860 375451003675 UPF0126 domain; Region: UPF0126; pfam03458 375451003676 UPF0126 domain; Region: UPF0126; pfam03458 375451003677 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 375451003678 RNA/DNA hybrid binding site [nucleotide binding]; other site 375451003679 active site 375451003680 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 375451003681 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375451003682 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 375451003683 S-adenosylmethionine binding site [chemical binding]; other site 375451003684 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 375451003685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375451003686 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 375451003687 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 375451003688 Uncharacterized conserved protein [Function unknown]; Region: COG1432 375451003689 LabA_like proteins; Region: LabA; cd10911 375451003690 putative metal binding site [ion binding]; other site 375451003691 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 375451003692 catalytic center binding site [active] 375451003693 ATP binding site [chemical binding]; other site 375451003694 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 375451003695 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 375451003696 HD domain; Region: HD_4; pfam13328 375451003697 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 375451003698 synthetase active site [active] 375451003699 NTP binding site [chemical binding]; other site 375451003700 metal binding site [ion binding]; metal-binding site 375451003701 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 375451003702 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 375451003703 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 375451003704 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 375451003705 active site 375451003706 hydrophilic channel; other site 375451003707 dimerization interface [polypeptide binding]; other site 375451003708 catalytic residues [active] 375451003709 active site lid [active] 375451003710 LysE type translocator; Region: LysE; cl00565 375451003711 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 375451003712 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 375451003713 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 375451003714 Catalytic site [active] 375451003715 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 375451003716 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 375451003717 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 375451003718 dimerization interface [polypeptide binding]; other site 375451003719 active site 375451003720 metal binding site [ion binding]; metal-binding site 375451003721 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 375451003722 dsRNA binding site [nucleotide binding]; other site 375451003723 GTPase Era; Reviewed; Region: era; PRK00089 375451003724 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 375451003725 G1 box; other site 375451003726 GTP/Mg2+ binding site [chemical binding]; other site 375451003727 Switch I region; other site 375451003728 G2 box; other site 375451003729 Switch II region; other site 375451003730 G3 box; other site 375451003731 G4 box; other site 375451003732 G5 box; other site 375451003733 KH domain; Region: KH_2; pfam07650 375451003734 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 375451003735 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 375451003736 Recombination protein O N terminal; Region: RecO_N; pfam11967 375451003737 Recombination protein O C terminal; Region: RecO_C; pfam02565 375451003738 META domain; Region: META; pfam03724 375451003739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451003740 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451003741 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451003742 active site 375451003743 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451003744 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 375451003745 non-specific DNA binding site [nucleotide binding]; other site 375451003746 salt bridge; other site 375451003747 sequence-specific DNA binding site [nucleotide binding]; other site 375451003748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451003749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451003750 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 375451003751 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 375451003752 active site 375451003753 substrate-binding site [chemical binding]; other site 375451003754 metal-binding site [ion binding] 375451003755 ATP binding site [chemical binding]; other site 375451003756 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451003757 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451003758 active site 375451003759 phosphorylation site [posttranslational modification] 375451003760 intermolecular recognition site; other site 375451003761 dimerization interface [polypeptide binding]; other site 375451003762 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 375451003763 DNA binding site [nucleotide binding] 375451003764 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 375451003765 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451003766 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 375451003767 dimer interface [polypeptide binding]; other site 375451003768 phosphorylation site [posttranslational modification] 375451003769 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 375451003770 ATP binding site [chemical binding]; other site 375451003771 Mg2+ binding site [ion binding]; other site 375451003772 G-X-G motif; other site 375451003773 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 375451003774 Hpr binding site; other site 375451003775 active site 375451003776 homohexamer subunit interaction site [polypeptide binding]; other site 375451003777 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 375451003778 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; cl00025 375451003779 active pocket/dimerization site; other site 375451003780 active site 375451003781 phosphorylation site [posttranslational modification] 375451003782 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 375451003783 dimerization domain swap beta strand [polypeptide binding]; other site 375451003784 regulatory protein interface [polypeptide binding]; other site 375451003785 active site 375451003786 regulatory phosphorylation site [posttranslational modification]; other site 375451003787 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 375451003788 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375451003789 putative acyl-acceptor binding pocket; other site 375451003790 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 375451003791 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 375451003792 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375451003793 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 375451003794 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 375451003795 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 375451003796 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 375451003797 Ligand binding site [chemical binding]; other site 375451003798 Electron transfer flavoprotein domain; Region: ETF; pfam01012 375451003799 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 375451003800 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 375451003801 short chain dehydrogenase; Provisional; Region: PRK05993 375451003802 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 375451003803 NADP binding site [chemical binding]; other site 375451003804 active site 375451003805 steroid binding site; other site 375451003806 Bacterial SH3 domain homologues; Region: SH3b; smart00287 375451003807 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 375451003808 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 375451003809 CAP-like domain; other site 375451003810 active site 375451003811 primary dimer interface [polypeptide binding]; other site 375451003812 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375451003813 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 375451003814 Cytochrome P450; Region: p450; cl12078 375451003815 elongation factor Tu; Reviewed; Region: PRK00049 375451003816 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 375451003817 G1 box; other site 375451003818 GEF interaction site [polypeptide binding]; other site 375451003819 GTP/Mg2+ binding site [chemical binding]; other site 375451003820 Switch I region; other site 375451003821 G2 box; other site 375451003822 G3 box; other site 375451003823 Switch II region; other site 375451003824 G4 box; other site 375451003825 G5 box; other site 375451003826 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 375451003827 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 375451003828 Antibiotic Binding Site [chemical binding]; other site 375451003829 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 375451003830 intracellular protease, PfpI family; Region: PfpI; TIGR01382 375451003831 conserved cys residue [active] 375451003832 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 375451003833 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 375451003834 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 375451003835 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 375451003836 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451003837 DNA-binding site [nucleotide binding]; DNA binding site 375451003838 RNA-binding motif; other site 375451003839 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 375451003840 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 375451003841 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 375451003842 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 375451003843 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 375451003844 putative translocon binding site; other site 375451003845 protein-rRNA interface [nucleotide binding]; other site 375451003846 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 375451003847 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 375451003848 G-X-X-G motif; other site 375451003849 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 375451003850 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 375451003851 23S rRNA interface [nucleotide binding]; other site 375451003852 5S rRNA interface [nucleotide binding]; other site 375451003853 putative antibiotic binding site [chemical binding]; other site 375451003854 L25 interface [polypeptide binding]; other site 375451003855 L27 interface [polypeptide binding]; other site 375451003856 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; cl17879 375451003857 ornithine cyclodeaminase; Validated; Region: PRK07589 375451003858 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 375451003859 agmatinase; Region: agmatinase; TIGR01230 375451003860 Arginase family; Region: Arginase; cd09989 375451003861 active site 375451003862 Mn binding site [ion binding]; other site 375451003863 oligomer interface [polypeptide binding]; other site 375451003864 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451003865 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 375451003866 23S rRNA interface [nucleotide binding]; other site 375451003867 putative translocon interaction site; other site 375451003868 signal recognition particle (SRP54) interaction site; other site 375451003869 L23 interface [polypeptide binding]; other site 375451003870 trigger factor interaction site; other site 375451003871 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 375451003872 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 375451003873 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 375451003874 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 375451003875 RNA binding site [nucleotide binding]; other site 375451003876 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 375451003877 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 375451003878 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 375451003879 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 375451003880 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 375451003881 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 375451003882 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 375451003883 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 375451003884 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 375451003885 5S rRNA interface [nucleotide binding]; other site 375451003886 23S rRNA interface [nucleotide binding]; other site 375451003887 L5 interface [polypeptide binding]; other site 375451003888 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 375451003889 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 375451003890 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 375451003891 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 375451003892 23S rRNA binding site [nucleotide binding]; other site 375451003893 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 375451003894 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 375451003895 SecY translocase; Region: SecY; pfam00344 375451003896 adenylate kinase; Reviewed; Region: adk; PRK00279 375451003897 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 375451003898 AMP-binding site [chemical binding]; other site 375451003899 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 375451003900 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 375451003901 30S ribosomal protein S13; Region: bact_S13; TIGR03631 375451003902 30S ribosomal protein S11; Validated; Region: PRK05309 375451003903 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 375451003904 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 375451003905 alphaNTD - beta interaction site [polypeptide binding]; other site 375451003906 alphaNTD homodimer interface [polypeptide binding]; other site 375451003907 alphaNTD - beta' interaction site [polypeptide binding]; other site 375451003908 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 375451003909 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 375451003910 recombination factor protein RarA; Reviewed; Region: PRK13342 375451003911 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 375451003912 Walker A motif; other site 375451003913 ATP binding site [chemical binding]; other site 375451003914 Walker B motif; other site 375451003915 arginine finger; other site 375451003916 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 375451003917 CrcB-like protein; Region: CRCB; cl09114 375451003918 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 375451003919 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 375451003920 RNA binding surface [nucleotide binding]; other site 375451003921 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375451003922 active site 375451003923 phosphoglycolate phosphatase; Provisional; Region: PRK13222 375451003924 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 375451003925 motif II; other site 375451003926 ATP12 chaperone protein; Region: ATP12; pfam07542 375451003927 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 375451003928 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 375451003929 substrate binding pocket [chemical binding]; other site 375451003930 membrane-bound complex binding site; other site 375451003931 hinge residues; other site 375451003932 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 375451003933 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 375451003934 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 375451003935 dimer interface [polypeptide binding]; other site 375451003936 conserved gate region; other site 375451003937 putative PBP binding loops; other site 375451003938 ABC-ATPase subunit interface; other site 375451003939 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 375451003940 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 375451003941 dimer interface [polypeptide binding]; other site 375451003942 conserved gate region; other site 375451003943 putative PBP binding loops; other site 375451003944 ABC-ATPase subunit interface; other site 375451003945 Protein of unknown function (DUF1602); Region: DUF1602; pfam07673 375451003946 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451003947 catalytic core [active] 375451003948 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 375451003949 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 375451003950 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 375451003951 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 375451003952 feedback inhibition sensing region; other site 375451003953 homohexameric interface [polypeptide binding]; other site 375451003954 nucleotide binding site [chemical binding]; other site 375451003955 N-acetyl-L-glutamate binding site [chemical binding]; other site 375451003956 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 375451003957 G1 box; other site 375451003958 GTP/Mg2+ binding site [chemical binding]; other site 375451003959 Switch I region; other site 375451003960 G2 box; other site 375451003961 G3 box; other site 375451003962 Switch II region; other site 375451003963 G4 box; other site 375451003964 G5 box; other site 375451003965 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 375451003966 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 375451003967 MOSC domain; Region: MOSC; pfam03473 375451003968 membrane protein insertase; Provisional; Region: PRK01318 375451003969 Domain of unknown function (DUF4380); Region: DUF4380; pfam14315 375451003970 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 375451003971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451003972 metal binding site [ion binding]; metal-binding site 375451003973 active site 375451003974 I-site; other site 375451003975 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 375451003976 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 375451003977 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 375451003978 Ligand Binding Site [chemical binding]; other site 375451003979 Haemolytic domain; Region: Haemolytic; pfam01809 375451003980 Ribonuclease P; Region: Ribonuclease_P; pfam00825 375451003981 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 375451003982 Uncharacterized conserved protein [Function unknown]; Region: COG0398 375451003983 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 375451003984 mercuric reductase; Validated; Region: PRK06370 375451003985 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451003986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451003987 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375451003988 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451003989 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 375451003990 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 375451003991 ATP binding site [chemical binding]; other site 375451003992 Mg2+ binding site [ion binding]; other site 375451003993 G-X-G motif; other site 375451003994 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 375451003995 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 375451003996 Amidinotransferase; Region: Amidinotransf; cl12043 375451003997 malonyl-CoA synthase; Validated; Region: PRK07514 375451003998 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 375451003999 acyl-activating enzyme (AAE) consensus motif; other site 375451004000 active site 375451004001 AMP binding site [chemical binding]; other site 375451004002 CoA binding site [chemical binding]; other site 375451004003 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 375451004004 DctM-like transporters; Region: DctM; pfam06808 375451004005 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451004006 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451004007 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451004008 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451004009 transcriptional regulator NanR; Provisional; Region: PRK03837 375451004010 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451004011 DNA-binding site [nucleotide binding]; DNA binding site 375451004012 FCD domain; Region: FCD; pfam07729 375451004013 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 375451004014 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 375451004015 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 375451004016 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 375451004017 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451004018 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451004019 Walker A/P-loop; other site 375451004020 ATP binding site [chemical binding]; other site 375451004021 Q-loop/lid; other site 375451004022 ABC transporter signature motif; other site 375451004023 Walker B; other site 375451004024 D-loop; other site 375451004025 H-loop/switch region; other site 375451004026 TOBE domain; Region: TOBE; pfam03459 375451004027 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451004028 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 375451004029 dimer interface [polypeptide binding]; other site 375451004030 conserved gate region; other site 375451004031 ABC-ATPase subunit interface; other site 375451004032 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 375451004033 dimer interface [polypeptide binding]; other site 375451004034 conserved gate region; other site 375451004035 putative PBP binding loops; other site 375451004036 ABC-ATPase subunit interface; other site 375451004037 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451004038 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451004039 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451004040 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451004041 DNA binding site [nucleotide binding] 375451004042 domain linker motif; other site 375451004043 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 375451004044 dimerization interface [polypeptide binding]; other site 375451004045 ligand binding site [chemical binding]; other site 375451004046 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451004047 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 375451004048 ATP binding site [chemical binding]; other site 375451004049 Mg2+ binding site [ion binding]; other site 375451004050 G-X-G motif; other site 375451004051 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451004052 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451004053 HAMP domain; Region: HAMP; pfam00672 375451004054 dimerization interface [polypeptide binding]; other site 375451004055 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 375451004056 ATP binding site [chemical binding]; other site 375451004057 Mg2+ binding site [ion binding]; other site 375451004058 G-X-G motif; other site 375451004059 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451004060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451004061 active site 375451004062 phosphorylation site [posttranslational modification] 375451004063 intermolecular recognition site; other site 375451004064 dimerization interface [polypeptide binding]; other site 375451004065 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 375451004066 Ornithine decarboxylase antizyme; Region: ODC_AZ; pfam02100 375451004067 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 375451004068 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 375451004069 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 375451004070 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 375451004071 Predicted amidohydrolase [General function prediction only]; Region: COG0388 375451004072 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 375451004073 putative active site [active] 375451004074 catalytic triad [active] 375451004075 putative dimer interface [polypeptide binding]; other site 375451004076 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 375451004077 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451004078 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 375451004079 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 375451004080 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 375451004081 putative active site [active] 375451004082 N-formylglutamate amidohydrolase; Region: FGase; cl01522 375451004083 Isochorismatase family; Region: Isochorismatase; pfam00857 375451004084 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 375451004085 catalytic triad [active] 375451004086 conserved cis-peptide bond; other site 375451004087 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451004088 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451004089 Walker A/P-loop; other site 375451004090 ATP binding site [chemical binding]; other site 375451004091 Q-loop/lid; other site 375451004092 ABC transporter signature motif; other site 375451004093 Walker B; other site 375451004094 D-loop; other site 375451004095 H-loop/switch region; other site 375451004096 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451004097 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 375451004098 ligand binding site [chemical binding]; other site 375451004099 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451004100 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451004101 Walker A/P-loop; other site 375451004102 ATP binding site [chemical binding]; other site 375451004103 Q-loop/lid; other site 375451004104 ABC transporter signature motif; other site 375451004105 Walker B; other site 375451004106 D-loop; other site 375451004107 H-loop/switch region; other site 375451004108 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 375451004109 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451004110 TM-ABC transporter signature motif; other site 375451004111 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451004112 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 375451004113 TM-ABC transporter signature motif; other site 375451004114 Predicted transporter component [General function prediction only]; Region: COG2391 375451004115 Sulphur transport; Region: Sulf_transp; pfam04143 375451004116 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 375451004117 dimerization interface [polypeptide binding]; other site 375451004118 putative DNA binding site [nucleotide binding]; other site 375451004119 putative Zn2+ binding site [ion binding]; other site 375451004120 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451004121 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 375451004122 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 375451004123 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 375451004124 catalytic residues [active] 375451004125 Cytochrome c; Region: Cytochrom_C; pfam00034 375451004126 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 375451004127 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 375451004128 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 375451004129 Cytochrome c [Energy production and conversion]; Region: COG3258 375451004130 Cytochrome c [Energy production and conversion]; Region: COG3258 375451004131 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 375451004132 active site 375451004133 metal binding site [ion binding]; metal-binding site 375451004134 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 375451004135 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 375451004136 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 375451004137 Moco binding site; other site 375451004138 metal coordination site [ion binding]; other site 375451004139 Cytochrome c; Region: Cytochrom_C; pfam00034 375451004140 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375451004141 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375451004142 Cytochrome c; Region: Cytochrom_C; cl11414 375451004143 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 375451004144 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 375451004145 Sulphur transport; Region: Sulf_transp; pfam04143 375451004146 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451004147 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375451004148 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375451004149 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 375451004150 DctM-like transporters; Region: DctM; pfam06808 375451004151 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 375451004152 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 375451004153 dimerization interface [polypeptide binding]; other site 375451004154 active site 375451004155 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 375451004156 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 375451004157 active site 375451004158 thymidine phosphorylase; Provisional; Region: PRK04350 375451004159 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 375451004160 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 375451004161 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 375451004162 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 375451004163 Amidohydrolase; Region: Amidohydro_5; pfam13594 375451004164 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cd01292 375451004165 active site 375451004166 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 375451004167 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375451004168 MarR family; Region: MarR; pfam01047 375451004169 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 375451004170 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 375451004171 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375451004172 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 375451004173 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375451004174 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375451004175 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451004176 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451004177 hypothetical protein; Provisional; Region: PRK04334 375451004178 Amino acid synthesis; Region: AA_synth; pfam06684 375451004179 Amino acid synthesis; Region: AA_synth; pfam06684 375451004180 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451004181 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451004182 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451004183 DctM-like transporters; Region: DctM; pfam06808 375451004184 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451004185 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451004186 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451004187 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 375451004188 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 375451004189 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375451004190 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375451004191 nitrous-oxide reductase; Validated; Region: PRK02888 375451004192 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 375451004193 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 375451004194 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 375451004195 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 375451004196 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451004197 Walker A/P-loop; other site 375451004198 ATP binding site [chemical binding]; other site 375451004199 Q-loop/lid; other site 375451004200 ABC transporter signature motif; other site 375451004201 Walker B; other site 375451004202 D-loop; other site 375451004203 H-loop/switch region; other site 375451004204 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 375451004205 NosL; Region: NosL; pfam05573 375451004206 ApbE family; Region: ApbE; pfam02424 375451004207 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451004208 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 375451004209 ligand binding site [chemical binding]; other site 375451004210 flexible hinge region; other site 375451004211 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 375451004212 putative switch regulator; other site 375451004213 non-specific DNA interactions [nucleotide binding]; other site 375451004214 DNA binding site [nucleotide binding] 375451004215 sequence specific DNA binding site [nucleotide binding]; other site 375451004216 putative cAMP binding site [chemical binding]; other site 375451004217 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451004218 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 375451004219 ligand binding site [chemical binding]; other site 375451004220 flexible hinge region; other site 375451004221 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 375451004222 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 375451004223 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 375451004224 Subunit I/III interface [polypeptide binding]; other site 375451004225 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 375451004226 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 375451004227 metal ion-dependent adhesion site (MIDAS); other site 375451004228 MoxR-like ATPases [General function prediction only]; Region: COG0714 375451004229 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 375451004230 Walker A motif; other site 375451004231 ATP binding site [chemical binding]; other site 375451004232 Walker B motif; other site 375451004233 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 375451004234 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 375451004235 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 375451004236 Binuclear center (active site) [active] 375451004237 K-pathway; other site 375451004238 Putative proton exit pathway; other site 375451004239 Cytochrome c; Region: Cytochrom_C; pfam00034 375451004240 Cytochrome c2 [Energy production and conversion]; Region: COG3474 375451004241 FMN-binding domain; Region: FMN_bind; cl01081 375451004242 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 375451004243 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375451004244 4Fe-4S binding domain; Region: Fer4_5; pfam12801 375451004245 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375451004246 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375451004247 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 375451004248 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375451004249 active site 375451004250 SAM binding site [chemical binding]; other site 375451004251 homodimer interface [polypeptide binding]; other site 375451004252 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375451004253 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375451004254 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 375451004255 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451004256 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451004257 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451004258 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451004259 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 375451004260 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 375451004261 FeS/SAM binding site; other site 375451004262 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 375451004263 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 375451004264 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 375451004265 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 375451004266 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 375451004267 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 375451004268 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 375451004269 putative active site [active] 375451004270 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375451004271 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 375451004272 substrate-cofactor binding pocket; other site 375451004273 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004274 catalytic residue [active] 375451004275 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 375451004276 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 375451004277 active site 375451004278 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375451004279 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 375451004280 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 375451004281 active site 375451004282 choline dehydrogenase; Validated; Region: PRK02106 375451004283 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451004284 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375451004285 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 375451004286 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 375451004287 DctM-like transporters; Region: DctM; pfam06808 375451004288 VCBS repeat; Region: VCBS_repeat; TIGR01965 375451004289 VCBS repeat; Region: VCBS_repeat; TIGR01965 375451004290 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451004291 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451004292 active site 375451004293 catalytic tetrad [active] 375451004294 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451004295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375451004296 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451004297 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451004298 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375451004299 putative metal binding site [ion binding]; other site 375451004300 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375451004301 putative catalytic site [active] 375451004302 putative phosphate binding site [ion binding]; other site 375451004303 putative metal binding site [ion binding]; other site 375451004304 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 375451004305 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 375451004306 catalytic residues [active] 375451004307 argininosuccinate lyase; Provisional; Region: PRK00855 375451004308 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 375451004309 active sites [active] 375451004310 tetramer interface [polypeptide binding]; other site 375451004311 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 375451004312 diaminopimelate decarboxylase; Region: lysA; TIGR01048 375451004313 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 375451004314 active site 375451004315 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375451004316 substrate binding site [chemical binding]; other site 375451004317 catalytic residues [active] 375451004318 dimer interface [polypeptide binding]; other site 375451004319 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 375451004320 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 375451004321 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 375451004322 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451004323 Walker A/P-loop; other site 375451004324 ATP binding site [chemical binding]; other site 375451004325 Q-loop/lid; other site 375451004326 ABC transporter signature motif; other site 375451004327 Walker B; other site 375451004328 D-loop; other site 375451004329 H-loop/switch region; other site 375451004330 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 375451004331 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375451004332 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 375451004333 putative acyl-acceptor binding pocket; other site 375451004334 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 375451004335 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 375451004336 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 375451004337 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451004338 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375451004339 MAPEG family; Region: MAPEG; pfam01124 375451004340 MAPEG family; Region: MAPEG; cl09190 375451004341 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 375451004342 E3 interaction surface; other site 375451004343 lipoyl attachment site [posttranslational modification]; other site 375451004344 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 375451004345 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 375451004346 E3 interaction surface; other site 375451004347 lipoyl attachment site [posttranslational modification]; other site 375451004348 e3 binding domain; Region: E3_binding; pfam02817 375451004349 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 375451004350 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 375451004351 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 375451004352 TPP-binding site [chemical binding]; other site 375451004353 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 375451004354 dimer interface [polypeptide binding]; other site 375451004355 PYR/PP interface [polypeptide binding]; other site 375451004356 TPP binding site [chemical binding]; other site 375451004357 Protein of unknown function (DUF805); Region: DUF805; pfam05656 375451004358 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 375451004359 CoA binding domain; Region: CoA_binding; pfam02629 375451004360 CoA-ligase; Region: Ligase_CoA; pfam00549 375451004361 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 375451004362 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 375451004363 CoA-ligase; Region: Ligase_CoA; pfam00549 375451004364 malate dehydrogenase; Reviewed; Region: PRK06223 375451004365 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 375451004366 NAD(P) binding site [chemical binding]; other site 375451004367 dimer interface [polypeptide binding]; other site 375451004368 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375451004369 substrate binding site [chemical binding]; other site 375451004370 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375451004371 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 375451004372 NnrU protein; Region: NnrU; pfam07298 375451004373 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 375451004374 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 375451004375 putative active site [active] 375451004376 putative catalytic site [active] 375451004377 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 375451004378 putative active site [active] 375451004379 putative catalytic site [active] 375451004380 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 375451004381 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 375451004382 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 375451004383 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 375451004384 Iron-sulfur protein interface; other site 375451004385 proximal quinone binding site [chemical binding]; other site 375451004386 SdhD (CybS) interface [polypeptide binding]; other site 375451004387 proximal heme binding site [chemical binding]; other site 375451004388 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 375451004389 putative SdhC subunit interface [polypeptide binding]; other site 375451004390 putative proximal heme binding site [chemical binding]; other site 375451004391 putative Iron-sulfur protein interface [polypeptide binding]; other site 375451004392 putative proximal quinone binding site; other site 375451004393 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 375451004394 L-aspartate oxidase; Provisional; Region: PRK06175 375451004395 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 375451004396 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 375451004397 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 375451004398 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 375451004399 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 375451004400 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 375451004401 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 375451004402 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 375451004403 B12 binding site [chemical binding]; other site 375451004404 cobalt ligand [ion binding]; other site 375451004405 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 375451004406 putative acyl-acceptor binding pocket; other site 375451004407 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 375451004408 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 375451004409 putative NAD(P) binding site [chemical binding]; other site 375451004410 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 375451004411 Autoinducer binding domain; Region: Autoind_bind; pfam03472 375451004412 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451004413 DNA binding residues [nucleotide binding] 375451004414 dimerization interface [polypeptide binding]; other site 375451004415 Autoinducer synthetase; Region: Autoind_synth; cl17404 375451004416 AAA domain; Region: AAA_30; pfam13604 375451004417 Family description; Region: UvrD_C_2; pfam13538 375451004418 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 375451004419 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375451004420 hypothetical protein; Provisional; Region: PRK10621 375451004421 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451004422 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 375451004423 TM-ABC transporter signature motif; other site 375451004424 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451004425 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 375451004426 TM-ABC transporter signature motif; other site 375451004427 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 375451004428 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451004429 Walker A/P-loop; other site 375451004430 ATP binding site [chemical binding]; other site 375451004431 Q-loop/lid; other site 375451004432 ABC transporter signature motif; other site 375451004433 Walker B; other site 375451004434 D-loop; other site 375451004435 H-loop/switch region; other site 375451004436 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375451004437 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 375451004438 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 375451004439 ligand binding site [chemical binding]; other site 375451004440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451004441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375451004442 Coenzyme A binding pocket [chemical binding]; other site 375451004443 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 375451004444 Glycoprotease family; Region: Peptidase_M22; pfam00814 375451004445 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 375451004446 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 375451004447 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 375451004448 Ligand Binding Site [chemical binding]; other site 375451004449 Sensors of blue-light using FAD; Region: BLUF; pfam04940 375451004450 aminotransferase; Provisional; Region: PRK13356 375451004451 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 375451004452 homodimer interface [polypeptide binding]; other site 375451004453 substrate-cofactor binding pocket; other site 375451004454 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004455 catalytic residue [active] 375451004456 Peptidase family M48; Region: Peptidase_M48; cl12018 375451004457 Protein of unknown function, DUF393; Region: DUF393; pfam04134 375451004458 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 375451004459 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 375451004460 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 375451004461 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 375451004462 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 375451004463 FeS/SAM binding site; other site 375451004464 AsmA family; Region: AsmA; pfam05170 375451004465 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 375451004466 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 375451004467 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 375451004468 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 375451004469 ligand binding site [chemical binding]; other site 375451004470 active site 375451004471 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 375451004472 active site residue [active] 375451004473 glucosyltransferase MdoH; Provisional; Region: PRK05454 375451004474 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 375451004475 active site 375451004476 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 375451004477 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 375451004478 OpgC protein; Region: OpgC_C; pfam10129 375451004479 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 375451004480 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 375451004481 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375451004482 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 375451004483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451004484 PYR/PP interface [polypeptide binding]; other site 375451004485 dimer interface [polypeptide binding]; other site 375451004486 TPP binding site [chemical binding]; other site 375451004487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451004488 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 375451004489 TPP-binding site [chemical binding]; other site 375451004490 GcrA cell cycle regulator; Region: GcrA; cl11564 375451004491 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 375451004492 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 375451004493 inhibitor-cofactor binding pocket; inhibition site 375451004494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004495 catalytic residue [active] 375451004496 ornithine carbamoyltransferase; Provisional; Region: PRK00779 375451004497 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 375451004498 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 375451004499 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 375451004500 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 375451004501 ATP binding site [chemical binding]; other site 375451004502 putative Mg++ binding site [ion binding]; other site 375451004503 helicase superfamily c-terminal domain; Region: HELICc; smart00490 375451004504 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 375451004505 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 375451004506 membrane ATPase/protein kinase; Provisional; Region: PRK09435 375451004507 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 375451004508 Walker A; other site 375451004509 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 375451004510 Protein of unknown function (DUF461); Region: DUF461; pfam04314 375451004511 NAD-dependent deacetylase; Provisional; Region: PRK00481 375451004512 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 375451004513 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 375451004514 Predicted amidohydrolase [General function prediction only]; Region: COG0388 375451004515 putative active site [active] 375451004516 catalytic triad [active] 375451004517 putative dimer interface [polypeptide binding]; other site 375451004518 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 375451004519 rRNA binding site [nucleotide binding]; other site 375451004520 predicted 30S ribosome binding site; other site 375451004521 Maf-like protein; Region: Maf; pfam02545 375451004522 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 375451004523 active site 375451004524 dimer interface [polypeptide binding]; other site 375451004525 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 375451004526 Domain of unknown function (DUF329); Region: DUF329; cl01144 375451004527 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 375451004528 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 375451004529 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 375451004530 TrkA-N domain; Region: TrkA_N; pfam02254 375451004531 Transcriptional regulator; Region: Rrf2; cl17282 375451004532 Rrf2 family protein; Region: rrf2_super; TIGR00738 375451004533 NnrS protein; Region: NnrS; pfam05940 375451004534 NnrU protein; Region: NnrU; pfam07298 375451004535 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 375451004536 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 375451004537 FeS/SAM binding site; other site 375451004538 HemN C-terminal domain; Region: HemN_C; pfam06969 375451004539 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 375451004540 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 375451004541 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 375451004542 FeS/SAM binding site; other site 375451004543 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 375451004544 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 375451004545 putative active site [active] 375451004546 catalytic site [active] 375451004547 putative metal binding site [ion binding]; other site 375451004548 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 375451004549 Bacterial sugar transferase; Region: Bac_transf; pfam02397 375451004550 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375451004551 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 375451004552 conserved cys residue [active] 375451004553 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451004554 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 375451004555 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451004556 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 375451004557 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 375451004558 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 375451004559 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 375451004560 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451004561 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 375451004562 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 375451004563 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451004564 putative substrate translocation pore; other site 375451004565 PAS domain; Region: PAS_9; pfam13426 375451004566 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451004567 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451004568 metal binding site [ion binding]; metal-binding site 375451004569 active site 375451004570 I-site; other site 375451004571 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 375451004572 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451004573 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451004574 active site 375451004575 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 375451004576 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451004577 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451004578 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 375451004579 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 375451004580 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451004581 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451004582 DNA-binding site [nucleotide binding]; DNA binding site 375451004583 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 375451004584 UTRA domain; Region: UTRA; pfam07702 375451004585 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 375451004586 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451004587 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 375451004588 Walker A/P-loop; other site 375451004589 ATP binding site [chemical binding]; other site 375451004590 Q-loop/lid; other site 375451004591 ABC transporter signature motif; other site 375451004592 Walker B; other site 375451004593 D-loop; other site 375451004594 H-loop/switch region; other site 375451004595 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375451004596 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451004597 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451004598 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 375451004599 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 375451004600 active site 375451004601 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 375451004602 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 375451004603 dimer interface [polypeptide binding]; other site 375451004604 active site 375451004605 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 375451004606 dimer interface [polypeptide binding]; other site 375451004607 active site 375451004608 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 375451004609 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451004610 DNA-binding site [nucleotide binding]; DNA binding site 375451004611 UTRA domain; Region: UTRA; pfam07702 375451004612 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 375451004613 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451004614 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451004615 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 375451004616 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451004617 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 375451004618 dimer interface [polypeptide binding]; other site 375451004619 conserved gate region; other site 375451004620 putative PBP binding loops; other site 375451004621 ABC-ATPase subunit interface; other site 375451004622 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451004623 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451004624 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451004625 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451004626 Walker A/P-loop; other site 375451004627 ATP binding site [chemical binding]; other site 375451004628 Q-loop/lid; other site 375451004629 ABC transporter signature motif; other site 375451004630 Walker B; other site 375451004631 D-loop; other site 375451004632 H-loop/switch region; other site 375451004633 TOBE domain; Region: TOBE_2; pfam08402 375451004634 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 375451004635 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 375451004636 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375451004637 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 375451004638 FtsX-like permease family; Region: FtsX; pfam02687 375451004639 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 375451004640 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451004641 Walker A/P-loop; other site 375451004642 ATP binding site [chemical binding]; other site 375451004643 Q-loop/lid; other site 375451004644 ABC transporter signature motif; other site 375451004645 Walker B; other site 375451004646 D-loop; other site 375451004647 H-loop/switch region; other site 375451004648 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 375451004649 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 375451004650 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 375451004651 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 375451004652 elongation factor P; Validated; Region: PRK00529 375451004653 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 375451004654 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 375451004655 RNA binding site [nucleotide binding]; other site 375451004656 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 375451004657 RNA binding site [nucleotide binding]; other site 375451004658 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 375451004659 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 375451004660 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451004661 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 375451004662 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 375451004663 Probable Catalytic site; other site 375451004664 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451004665 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451004666 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451004667 Walker A/P-loop; other site 375451004668 ATP binding site [chemical binding]; other site 375451004669 Q-loop/lid; other site 375451004670 ABC transporter signature motif; other site 375451004671 Walker B; other site 375451004672 D-loop; other site 375451004673 H-loop/switch region; other site 375451004674 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 375451004675 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451004676 catalytic residue [active] 375451004677 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 375451004678 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 375451004679 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004680 homodimer interface [polypeptide binding]; other site 375451004681 catalytic residue [active] 375451004682 enoyl-CoA hydratase; Provisional; Region: PRK07509 375451004683 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 375451004684 substrate binding site [chemical binding]; other site 375451004685 oxyanion hole (OAH) forming residues; other site 375451004686 trimer interface [polypeptide binding]; other site 375451004687 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 375451004688 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451004689 active site 375451004690 HIGH motif; other site 375451004691 nucleotide binding site [chemical binding]; other site 375451004692 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 375451004693 active site 375451004694 KMSKS motif; other site 375451004695 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 375451004696 tRNA binding surface [nucleotide binding]; other site 375451004697 anticodon binding site; other site 375451004698 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 375451004699 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341 375451004700 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 375451004701 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375451004702 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451004703 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451004704 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 375451004705 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 375451004706 CoenzymeA binding site [chemical binding]; other site 375451004707 subunit interaction site [polypeptide binding]; other site 375451004708 PHB binding site; other site 375451004709 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 375451004710 FAD binding site [chemical binding]; other site 375451004711 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 375451004712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451004713 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 375451004714 putative dimerization interface [polypeptide binding]; other site 375451004715 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 375451004716 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 375451004717 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 375451004718 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 375451004719 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 375451004720 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 375451004721 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 375451004722 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 375451004723 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375451004724 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451004725 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 375451004726 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451004727 Walker A/P-loop; other site 375451004728 ATP binding site [chemical binding]; other site 375451004729 Q-loop/lid; other site 375451004730 ABC transporter signature motif; other site 375451004731 Walker B; other site 375451004732 D-loop; other site 375451004733 H-loop/switch region; other site 375451004734 classical (c) SDRs; Region: SDR_c; cd05233 375451004735 short chain dehydrogenase; Provisional; Region: PRK07023 375451004736 NAD(P) binding site [chemical binding]; other site 375451004737 active site 375451004738 Domain of unknown function DUF302; Region: DUF302; pfam03625 375451004739 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451004740 Protein export membrane protein; Region: SecD_SecF; cl14618 375451004741 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451004742 HlyD family secretion protein; Region: HlyD_2; pfam12700 375451004743 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451004744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 375451004745 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 375451004746 Trp docking motif [polypeptide binding]; other site 375451004747 active site 375451004748 PQQ-like domain; Region: PQQ_2; pfam13360 375451004749 PQQ-like domain; Region: PQQ_2; pfam13360 375451004750 GTP-binding protein Der; Reviewed; Region: PRK00093 375451004751 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 375451004752 G1 box; other site 375451004753 GTP/Mg2+ binding site [chemical binding]; other site 375451004754 Switch I region; other site 375451004755 G2 box; other site 375451004756 Switch II region; other site 375451004757 G3 box; other site 375451004758 G4 box; other site 375451004759 G5 box; other site 375451004760 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 375451004761 G1 box; other site 375451004762 GTP/Mg2+ binding site [chemical binding]; other site 375451004763 Switch I region; other site 375451004764 G2 box; other site 375451004765 G3 box; other site 375451004766 Switch II region; other site 375451004767 G4 box; other site 375451004768 G5 box; other site 375451004769 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 375451004770 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 375451004771 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 375451004772 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 375451004773 NAD(P) binding site [chemical binding]; other site 375451004774 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 375451004775 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451004776 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 375451004777 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 375451004778 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 375451004779 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451004780 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451004781 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 375451004782 DNA primase; Validated; Region: dnaG; PRK05667 375451004783 CHC2 zinc finger; Region: zf-CHC2; cl17510 375451004784 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 375451004785 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 375451004786 active site 375451004787 metal binding site [ion binding]; metal-binding site 375451004788 interdomain interaction site; other site 375451004789 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 375451004790 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 375451004791 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 375451004792 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 375451004793 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 375451004794 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451004795 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 375451004796 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 375451004797 DNA binding residues [nucleotide binding] 375451004798 Transcriptional activator HlyU; Region: HlyU; pfam10115 375451004799 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 375451004800 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 375451004801 ATP cone domain; Region: ATP-cone; pfam03477 375451004802 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 375451004803 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 375451004804 catalytic motif [active] 375451004805 Zn binding site [ion binding]; other site 375451004806 RibD C-terminal domain; Region: RibD_C; cl17279 375451004807 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 375451004808 Lumazine binding domain; Region: Lum_binding; pfam00677 375451004809 Lumazine binding domain; Region: Lum_binding; pfam00677 375451004810 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 375451004811 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 375451004812 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 375451004813 dimerization interface [polypeptide binding]; other site 375451004814 active site 375451004815 6,7-dimethyl-8-ribityllumazine synthase; Provisional; Region: ribH; PRK00061 375451004816 active site 375451004817 homopentamer interface [polypeptide binding]; other site 375451004818 transcription antitermination factor NusB; Region: nusB; TIGR01951 375451004819 putative RNA binding site [nucleotide binding]; other site 375451004820 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 375451004821 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451004822 Coenzyme A binding pocket [chemical binding]; other site 375451004823 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 375451004824 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375451004825 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451004826 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 375451004827 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 375451004828 RNA binding surface [nucleotide binding]; other site 375451004829 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 375451004830 active site 375451004831 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 375451004832 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 375451004833 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451004834 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 375451004835 DNA binding residues [nucleotide binding] 375451004836 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 375451004837 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 375451004838 active site 375451004839 Zn binding site [ion binding]; other site 375451004840 ATP-dependent DNA ligase; Validated; Region: PRK09247 375451004841 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 375451004842 active site 375451004843 DNA binding site [nucleotide binding] 375451004844 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 375451004845 DNA binding site [nucleotide binding] 375451004846 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 375451004847 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 375451004848 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375451004849 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 375451004850 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 375451004851 SCP-2 sterol transfer family; Region: SCP2; pfam02036 375451004852 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 375451004853 binding surface 375451004854 TPR repeat; Region: TPR_11; pfam13414 375451004855 TPR motif; other site 375451004856 TPR repeat; Region: TPR_11; pfam13414 375451004857 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375451004858 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 375451004859 ATP binding site [chemical binding]; other site 375451004860 putative Mg++ binding site [ion binding]; other site 375451004861 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 375451004862 nucleotide binding region [chemical binding]; other site 375451004863 ATP-binding site [chemical binding]; other site 375451004864 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 375451004865 RNA binding surface [nucleotide binding]; other site 375451004866 Ferredoxin [Energy production and conversion]; Region: COG1146 375451004867 4Fe-4S binding domain; Region: Fer4; pfam00037 375451004868 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 375451004869 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 375451004870 cobalamin synthase; Reviewed; Region: cobS; PRK00235 375451004871 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 375451004872 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 375451004873 putative dimer interface [polypeptide binding]; other site 375451004874 active site pocket [active] 375451004875 putative cataytic base [active] 375451004876 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 375451004877 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 375451004878 TrkA-N domain; Region: TrkA_N; pfam02254 375451004879 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451004880 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 375451004881 AsnC family; Region: AsnC_trans_reg; pfam01037 375451004882 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 375451004883 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 375451004884 dimer interface [polypeptide binding]; other site 375451004885 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 375451004886 active site 375451004887 Fe binding site [ion binding]; other site 375451004888 Uncharacterized conserved protein [Function unknown]; Region: COG2968 375451004889 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 375451004890 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 375451004891 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 375451004892 homodimer interface [polypeptide binding]; other site 375451004893 substrate-cofactor binding pocket; other site 375451004894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004895 catalytic residue [active] 375451004896 transaminase; Validated; Region: PRK07324 375451004897 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 375451004898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451004899 homodimer interface [polypeptide binding]; other site 375451004900 catalytic residue [active] 375451004901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451004902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451004903 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375451004904 D-cysteine desulfhydrase; Validated; Region: PRK03910 375451004905 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 375451004906 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451004907 catalytic residue [active] 375451004908 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 375451004909 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 375451004910 chloroplast protein import component, Tic20 family; Region: 3a0901s05TIC20; TIGR00994 375451004911 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 375451004912 dimer interface [polypeptide binding]; other site 375451004913 conserved gate region; other site 375451004914 putative PBP binding loops; other site 375451004915 ABC-ATPase subunit interface; other site 375451004916 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451004917 Putative serine esterase (DUF676); Region: DUF676; pfam05057 375451004918 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 375451004919 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 375451004920 catalytic residues [active] 375451004921 catalytic nucleophile [active] 375451004922 Recombinase; Region: Recombinase; pfam07508 375451004923 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 375451004924 Transposase; Region: HTH_Tnp_1; pfam01527 375451004925 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451004926 HTH-like domain; Region: HTH_21; pfam13276 375451004927 Integrase core domain; Region: rve; pfam00665 375451004928 Integrase core domain; Region: rve_3; pfam13683 375451004929 Rrf2 family protein; Region: rrf2_super; TIGR00738 375451004930 Transcriptional regulator; Region: Rrf2; pfam02082 375451004931 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 375451004932 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 375451004933 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 375451004934 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 375451004935 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451004936 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 375451004937 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 375451004938 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451004939 Walker A/P-loop; other site 375451004940 ATP binding site [chemical binding]; other site 375451004941 Q-loop/lid; other site 375451004942 ABC transporter signature motif; other site 375451004943 Walker B; other site 375451004944 D-loop; other site 375451004945 H-loop/switch region; other site 375451004946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451004947 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 375451004948 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 375451004949 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 375451004950 dimer interface [polypeptide binding]; other site 375451004951 conserved gate region; other site 375451004952 putative PBP binding loops; other site 375451004953 ABC-ATPase subunit interface; other site 375451004954 EamA-like transporter family; Region: EamA; cl17759 375451004955 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 375451004956 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375451004957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375451004958 4-coumarate--CoA ligase; Region: PLN02246 375451004959 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 375451004960 acyl-activating enzyme (AAE) consensus motif; other site 375451004961 active site 375451004962 putative CoA binding site [chemical binding]; other site 375451004963 AMP binding site [chemical binding]; other site 375451004964 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 375451004965 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 375451004966 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 375451004967 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 375451004968 dimer interface [polypeptide binding]; other site 375451004969 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451004970 active site 375451004971 metal binding site [ion binding]; metal-binding site 375451004972 glutathione binding site [chemical binding]; other site 375451004973 thymidylate synthase; Reviewed; Region: thyA; PRK01827 375451004974 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 375451004975 dimerization interface [polypeptide binding]; other site 375451004976 active site 375451004977 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 375451004978 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 375451004979 folate binding site [chemical binding]; other site 375451004980 NADP+ binding site [chemical binding]; other site 375451004981 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451004982 DNA-binding site [nucleotide binding]; DNA binding site 375451004983 RNA-binding motif; other site 375451004984 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451004985 ArsC family; Region: ArsC; pfam03960 375451004986 Predicted membrane protein [Function unknown]; Region: COG2259 375451004987 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 375451004988 hypothetical protein; Provisional; Region: PRK05409 375451004989 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 375451004990 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 375451004991 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 375451004992 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 375451004993 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 375451004994 active site 375451004995 dimer interface [polypeptide binding]; other site 375451004996 motif 1; other site 375451004997 motif 2; other site 375451004998 motif 3; other site 375451004999 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 375451005000 anticodon binding site; other site 375451005001 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451005002 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 375451005003 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 375451005004 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 375451005005 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 375451005006 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 375451005007 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 375451005008 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 375451005009 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 375451005010 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 375451005011 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451005012 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451005013 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 375451005014 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 375451005015 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451005016 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 375451005017 catalytic triad [active] 375451005018 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 375451005019 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451005020 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 375451005021 dimer interface [polypeptide binding]; other site 375451005022 conserved gate region; other site 375451005023 putative PBP binding loops; other site 375451005024 ABC-ATPase subunit interface; other site 375451005025 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 375451005026 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 375451005027 ABC-ATPase subunit interface; other site 375451005028 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 375451005029 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 375451005030 substrate binding pocket [chemical binding]; other site 375451005031 membrane-bound complex binding site; other site 375451005032 hinge residues; other site 375451005033 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 375451005034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451005035 Walker A/P-loop; other site 375451005036 ATP binding site [chemical binding]; other site 375451005037 Q-loop/lid; other site 375451005038 ABC transporter signature motif; other site 375451005039 Walker B; other site 375451005040 D-loop; other site 375451005041 H-loop/switch region; other site 375451005042 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 375451005043 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 375451005044 putative metal binding site [ion binding]; other site 375451005045 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 375451005046 putative metal binding site [ion binding]; other site 375451005047 Protein of unknown function (DUF519); Region: DUF519; pfam04378 375451005048 CTP synthetase; Validated; Region: pyrG; PRK05380 375451005049 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 375451005050 Catalytic site [active] 375451005051 active site 375451005052 UTP binding site [chemical binding]; other site 375451005053 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 375451005054 active site 375451005055 putative oxyanion hole; other site 375451005056 catalytic triad [active] 375451005057 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 375451005058 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 375451005059 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 375451005060 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 375451005061 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 375451005062 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 375451005063 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 375451005064 GDP-binding site [chemical binding]; other site 375451005065 ACT binding site; other site 375451005066 IMP binding site; other site 375451005067 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 375451005068 Thiamine pyrophosphokinase; Region: TPK; cd07995 375451005069 active site 375451005070 dimerization interface [polypeptide binding]; other site 375451005071 thiamine binding site [chemical binding]; other site 375451005072 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451005073 EamA-like transporter family; Region: EamA; pfam00892 375451005074 EamA-like transporter family; Region: EamA; pfam00892 375451005075 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 375451005076 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 375451005077 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 375451005078 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 375451005079 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375451005080 active site 375451005081 dimer interface [polypeptide binding]; other site 375451005082 glutathione reductase; Validated; Region: PRK06116 375451005083 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451005084 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451005085 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375451005086 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 375451005087 HflK protein; Region: hflK; TIGR01933 375451005088 HflC protein; Region: hflC; TIGR01932 375451005089 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 375451005090 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 375451005091 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 375451005092 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375451005093 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 375451005094 protein binding site [polypeptide binding]; other site 375451005095 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 375451005096 protein binding site [polypeptide binding]; other site 375451005097 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 375451005098 generic binding surface I; other site 375451005099 generic binding surface II; other site 375451005100 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 375451005101 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 375451005102 catalytic loop [active] 375451005103 iron binding site [ion binding]; other site 375451005104 Family description; Region: VCBS; pfam13517 375451005105 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 375451005106 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 375451005107 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 375451005108 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 375451005109 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 375451005110 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 375451005111 generic binding surface I; other site 375451005112 generic binding surface II; other site 375451005113 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 375451005114 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 375451005115 P loop; other site 375451005116 GTP binding site [chemical binding]; other site 375451005117 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 375451005118 EamA-like transporter family; Region: EamA; pfam00892 375451005119 Intracellular septation protein A; Region: IspA; pfam04279 375451005120 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451005121 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 375451005122 ligand binding site [chemical binding]; other site 375451005123 flexible hinge region; other site 375451005124 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 375451005125 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 375451005126 C-terminal domain interface [polypeptide binding]; other site 375451005127 GSH binding site (G-site) [chemical binding]; other site 375451005128 dimer interface [polypeptide binding]; other site 375451005129 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 375451005130 N-terminal domain interface [polypeptide binding]; other site 375451005131 putative dimer interface [polypeptide binding]; other site 375451005132 active site 375451005133 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 375451005134 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 375451005135 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 375451005136 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 375451005137 homodimer interface [polypeptide binding]; other site 375451005138 substrate-cofactor binding pocket; other site 375451005139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451005140 catalytic residue [active] 375451005141 putative GTP cyclohydrolase; Provisional; Region: PRK13674 375451005142 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 375451005143 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 375451005144 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451005145 hypothetical protein; Provisional; Region: PRK07524 375451005146 PYR/PP interface [polypeptide binding]; other site 375451005147 dimer interface [polypeptide binding]; other site 375451005148 TPP binding site [chemical binding]; other site 375451005149 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451005150 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; cd00568 375451005151 TPP-binding site [chemical binding]; other site 375451005152 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451005153 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 375451005154 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 375451005155 motif 1; other site 375451005156 dimer interface [polypeptide binding]; other site 375451005157 active site 375451005158 motif 2; other site 375451005159 motif 3; other site 375451005160 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 375451005161 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 375451005162 pyruvate phosphate dikinase; Provisional; Region: PRK09279 375451005163 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 375451005164 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 375451005165 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 375451005166 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 375451005167 Dihydroneopterin aldolase; Region: FolB; smart00905 375451005168 active site 375451005169 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 375451005170 dihydropteroate synthase; Region: DHPS; TIGR01496 375451005171 substrate binding pocket [chemical binding]; other site 375451005172 dimer interface [polypeptide binding]; other site 375451005173 inhibitor binding site; inhibition site 375451005174 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 375451005175 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 375451005176 active site 375451005177 substrate binding site [chemical binding]; other site 375451005178 metal binding site [ion binding]; metal-binding site 375451005179 EamA-like transporter family; Region: EamA; pfam00892 375451005180 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 375451005181 ketol-acid reductoisomerase; Provisional; Region: PRK05479 375451005182 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 375451005183 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 375451005184 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451005185 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 375451005186 putative DNA binding site [nucleotide binding]; other site 375451005187 putative Zn2+ binding site [ion binding]; other site 375451005188 AsnC family; Region: AsnC_trans_reg; pfam01037 375451005189 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451005190 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 375451005191 putative DNA binding site [nucleotide binding]; other site 375451005192 putative Zn2+ binding site [ion binding]; other site 375451005193 AsnC family; Region: AsnC_trans_reg; pfam01037 375451005194 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 375451005195 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451005196 catalytic residue [active] 375451005197 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 375451005198 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375451005199 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 375451005200 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 375451005201 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451005202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451005203 DNA-binding site [nucleotide binding]; DNA binding site 375451005204 FCD domain; Region: FCD; pfam07729 375451005205 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 375451005206 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 375451005207 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 375451005208 DXD motif; other site 375451005209 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 375451005210 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 375451005211 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 375451005212 catalytic site [active] 375451005213 subunit interface [polypeptide binding]; other site 375451005214 Yqey-like protein; Region: YqeY; pfam09424 375451005215 Predicted transcriptional regulator [Transcription]; Region: COG2378 375451005216 HTH domain; Region: HTH_11; pfam08279 375451005217 WYL domain; Region: WYL; pfam13280 375451005218 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 375451005219 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 375451005220 Subunit I/III interface [polypeptide binding]; other site 375451005221 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 375451005222 D-pathway; other site 375451005223 Subunit I/VIIc interface [polypeptide binding]; other site 375451005224 Subunit I/IV interface [polypeptide binding]; other site 375451005225 Subunit I/II interface [polypeptide binding]; other site 375451005226 Low-spin heme (heme a) binding site [chemical binding]; other site 375451005227 Subunit I/VIIa interface [polypeptide binding]; other site 375451005228 Subunit I/VIa interface [polypeptide binding]; other site 375451005229 Dimer interface; other site 375451005230 Putative water exit pathway; other site 375451005231 Binuclear center (heme a3/CuB) [ion binding]; other site 375451005232 K-pathway; other site 375451005233 Subunit I/Vb interface [polypeptide binding]; other site 375451005234 Putative proton exit pathway; other site 375451005235 Subunit I/VIb interface; other site 375451005236 Subunit I/VIc interface [polypeptide binding]; other site 375451005237 Electron transfer pathway; other site 375451005238 Subunit I/VIIIb interface [polypeptide binding]; other site 375451005239 Subunit I/VIIb interface [polypeptide binding]; other site 375451005240 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 375451005241 lipoate-protein ligase B; Provisional; Region: PRK14341 375451005242 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 375451005243 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451005244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451005245 Walker A/P-loop; other site 375451005246 ATP binding site [chemical binding]; other site 375451005247 Q-loop/lid; other site 375451005248 ABC transporter signature motif; other site 375451005249 Walker B; other site 375451005250 D-loop; other site 375451005251 H-loop/switch region; other site 375451005252 AMP-binding domain protein; Validated; Region: PRK07529 375451005253 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451005254 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451005255 acyl-activating enzyme (AAE) consensus motif; other site 375451005256 AMP binding site [chemical binding]; other site 375451005257 active site 375451005258 CoA binding site [chemical binding]; other site 375451005259 Uncharacterized conserved protein [Function unknown]; Region: COG3379 375451005260 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 375451005261 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 375451005262 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451005263 Walker A/P-loop; other site 375451005264 ATP binding site [chemical binding]; other site 375451005265 Q-loop/lid; other site 375451005266 ABC transporter signature motif; other site 375451005267 Walker B; other site 375451005268 D-loop; other site 375451005269 H-loop/switch region; other site 375451005270 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451005271 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451005272 Walker A/P-loop; other site 375451005273 ATP binding site [chemical binding]; other site 375451005274 Q-loop/lid; other site 375451005275 ABC transporter signature motif; other site 375451005276 Walker B; other site 375451005277 D-loop; other site 375451005278 H-loop/switch region; other site 375451005279 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451005280 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375451005281 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 375451005282 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 375451005283 dimer interface [polypeptide binding]; other site 375451005284 conserved gate region; other site 375451005285 putative PBP binding loops; other site 375451005286 ABC-ATPase subunit interface; other site 375451005287 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451005288 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 375451005289 dimer interface [polypeptide binding]; other site 375451005290 conserved gate region; other site 375451005291 ABC-ATPase subunit interface; other site 375451005292 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451005293 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 375451005294 Predicted acyl esterases [General function prediction only]; Region: COG2936 375451005295 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 375451005296 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 375451005297 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 375451005298 MOFRL family; Region: MOFRL; pfam05161 375451005299 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 375451005300 putative active site [active] 375451005301 dimerization interface [polypeptide binding]; other site 375451005302 putative tRNAtyr binding site [nucleotide binding]; other site 375451005303 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 375451005304 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 375451005305 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 375451005306 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 375451005307 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 375451005308 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 375451005309 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 375451005310 RNA binding surface [nucleotide binding]; other site 375451005311 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 375451005312 active site 375451005313 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 375451005314 nucleoside/Zn binding site; other site 375451005315 dimer interface [polypeptide binding]; other site 375451005316 catalytic motif [active] 375451005317 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 375451005318 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 375451005319 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 375451005320 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 375451005321 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 375451005322 amidase catalytic site [active] 375451005323 Zn binding residues [ion binding]; other site 375451005324 substrate binding site [chemical binding]; other site 375451005325 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 375451005326 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 375451005327 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 375451005328 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 375451005329 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 375451005330 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 375451005331 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451005332 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451005333 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 375451005334 dimerization interface [polypeptide binding]; other site 375451005335 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451005336 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 375451005337 non-specific DNA binding site [nucleotide binding]; other site 375451005338 salt bridge; other site 375451005339 sequence-specific DNA binding site [nucleotide binding]; other site 375451005340 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375451005341 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 375451005342 active site 375451005343 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 375451005344 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 375451005345 active site 375451005346 putative substrate binding pocket [chemical binding]; other site 375451005347 guanine deaminase; Provisional; Region: PRK09228 375451005348 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 375451005349 active site 375451005350 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 375451005351 MgtE intracellular N domain; Region: MgtE_N; smart00924 375451005352 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 375451005353 Divalent cation transporter; Region: MgtE; cl00786 375451005354 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 375451005355 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 375451005356 putative active site [active] 375451005357 metal binding site [ion binding]; metal-binding site 375451005358 homodimer binding site [polypeptide binding]; other site 375451005359 EamA-like transporter family; Region: EamA; pfam00892 375451005360 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 375451005361 transmembrane helices; other site 375451005362 TrkA-C domain; Region: TrkA_C; pfam02080 375451005363 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 375451005364 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 375451005365 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 375451005366 transmembrane helices; other site 375451005367 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 375451005368 TrkA-C domain; Region: TrkA_C; pfam02080 375451005369 TrkA-C domain; Region: TrkA_C; pfam02080 375451005370 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 375451005371 hypothetical protein; Validated; Region: PRK00110 375451005372 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451005373 EamA-like transporter family; Region: EamA; pfam00892 375451005374 transcriptional regulator BetI; Validated; Region: PRK00767 375451005375 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451005376 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 375451005377 Sulfatase; Region: Sulfatase; cl17466 375451005378 choline-sulfatase; Region: chol_sulfatase; TIGR03417 375451005379 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 375451005380 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 375451005381 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 375451005382 NAD(P) binding site [chemical binding]; other site 375451005383 catalytic residues [active] 375451005384 choline dehydrogenase; Validated; Region: PRK02106 375451005385 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451005386 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451005387 Staphylococcal nuclease homologues; Region: SNc; smart00318 375451005388 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375451005389 Catalytic site; other site 375451005390 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451005391 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 375451005392 non-specific DNA binding site [nucleotide binding]; other site 375451005393 salt bridge; other site 375451005394 sequence-specific DNA binding site [nucleotide binding]; other site 375451005395 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 375451005396 Domain of unknown function (DUF955); Region: DUF955; pfam06114 375451005397 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 375451005398 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 375451005399 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 375451005400 putative substrate translocation pore; other site 375451005401 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 375451005402 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 375451005403 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 375451005404 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 375451005405 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451005406 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 375451005407 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 375451005408 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 375451005409 carboxyltransferase (CT) interaction site; other site 375451005410 biotinylation site [posttranslational modification]; other site 375451005411 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 375451005412 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 375451005413 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 375451005414 active site 375451005415 substrate binding site [chemical binding]; other site 375451005416 coenzyme B12 binding site [chemical binding]; other site 375451005417 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 375451005418 B12 binding site [chemical binding]; other site 375451005419 cobalt ligand [ion binding]; other site 375451005420 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 375451005421 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 375451005422 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451005423 Coenzyme A binding pocket [chemical binding]; other site 375451005424 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 375451005425 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 375451005426 putative metal binding site [ion binding]; other site 375451005427 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 375451005428 HSP70 interaction site [polypeptide binding]; other site 375451005429 exopolyphosphatase; Region: exo_poly_only; TIGR03706 375451005430 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 375451005431 polyphosphate kinase; Provisional; Region: PRK05443 375451005432 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 375451005433 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 375451005434 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 375451005435 putative domain interface [polypeptide binding]; other site 375451005436 putative active site [active] 375451005437 catalytic site [active] 375451005438 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 375451005439 putative domain interface [polypeptide binding]; other site 375451005440 putative active site [active] 375451005441 catalytic site [active] 375451005442 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 375451005443 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375451005444 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 375451005445 Domain of unknown function DUF20; Region: UPF0118; pfam01594 375451005446 prolyl-tRNA synthetase; Provisional; Region: PRK12325 375451005447 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 375451005448 dimer interface [polypeptide binding]; other site 375451005449 motif 1; other site 375451005450 active site 375451005451 motif 2; other site 375451005452 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451005453 active site 375451005454 motif 3; other site 375451005455 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 375451005456 anticodon binding site; other site 375451005457 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 375451005458 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 375451005459 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 375451005460 FtsX-like permease family; Region: FtsX; pfam02687 375451005461 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375451005462 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451005463 Walker A/P-loop; other site 375451005464 ATP binding site [chemical binding]; other site 375451005465 Q-loop/lid; other site 375451005466 ABC transporter signature motif; other site 375451005467 Walker B; other site 375451005468 D-loop; other site 375451005469 H-loop/switch region; other site 375451005470 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 375451005471 Protein of unknown function, DUF606; Region: DUF606; pfam04657 375451005472 Cytochrome c; Region: Cytochrom_C; cl11414 375451005473 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 375451005474 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 375451005475 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 375451005476 ATP binding site [chemical binding]; other site 375451005477 Mg2+ binding site [ion binding]; other site 375451005478 G-X-G motif; other site 375451005479 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 375451005480 anchoring element; other site 375451005481 dimer interface [polypeptide binding]; other site 375451005482 ATP binding site [chemical binding]; other site 375451005483 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 375451005484 active site 375451005485 metal binding site [ion binding]; metal-binding site 375451005486 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 375451005487 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 375451005488 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 375451005489 putative efflux protein, MATE family; Region: matE; TIGR00797 375451005490 cation binding site [ion binding]; other site 375451005491 N-formylglutamate amidohydrolase; Region: FGase; cl01522 375451005492 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375451005493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451005494 NAD(P) binding site [chemical binding]; other site 375451005495 active site 375451005496 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451005497 Phosphotransferase enzyme family; Region: APH; pfam01636 375451005498 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 375451005499 putative active site [active] 375451005500 putative substrate binding site [chemical binding]; other site 375451005501 ATP binding site [chemical binding]; other site 375451005502 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451005503 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451005504 active site 375451005505 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 375451005506 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 375451005507 active site 375451005508 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 375451005509 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 375451005510 dimerization interface 3.5A [polypeptide binding]; other site 375451005511 active site 375451005512 YcjX-like family, DUF463; Region: DUF463; pfam04317 375451005513 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375451005514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451005515 Coenzyme A binding pocket [chemical binding]; other site 375451005516 hypothetical protein; Provisional; Region: PRK05415 375451005517 Domain of unknown function (DUF697); Region: DUF697; pfam05128 375451005518 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 375451005519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451005520 active site 375451005521 HIGH motif; other site 375451005522 nucleotide binding site [chemical binding]; other site 375451005523 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 375451005524 active site 375451005525 KMSKS motif; other site 375451005526 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 375451005527 tRNA binding surface [nucleotide binding]; other site 375451005528 anticodon binding site; other site 375451005529 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 375451005530 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 375451005531 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 375451005532 DNA binding site [nucleotide binding] 375451005533 active site 375451005534 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 375451005535 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 375451005536 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 375451005537 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 375451005538 active site 375451005539 DNA binding site [nucleotide binding] 375451005540 Int/Topo IB signature motif; other site 375451005541 Protein of unknown function, DUF484; Region: DUF484; cl17449 375451005542 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 375451005543 active site 375451005544 intersubunit interactions; other site 375451005545 catalytic residue [active] 375451005546 primosome assembly protein PriA; Validated; Region: PRK05580 375451005547 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 375451005548 ATP binding site [chemical binding]; other site 375451005549 putative Mg++ binding site [ion binding]; other site 375451005550 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451005551 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 375451005552 putative substrate translocation pore; other site 375451005553 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375451005554 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 375451005555 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 375451005556 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 375451005557 S-adenosylmethionine binding site [chemical binding]; other site 375451005558 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 375451005559 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 375451005560 active site 375451005561 putative DNA-binding cleft [nucleotide binding]; other site 375451005562 dimer interface [polypeptide binding]; other site 375451005563 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 375451005564 RuvA N terminal domain; Region: RuvA_N; pfam01330 375451005565 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 375451005566 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 375451005567 Walker A motif; other site 375451005568 ATP binding site [chemical binding]; other site 375451005569 Walker B motif; other site 375451005570 arginine finger; other site 375451005571 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 375451005572 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 375451005573 active site 375451005574 TolQ protein; Region: tolQ; TIGR02796 375451005575 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 375451005576 TolR protein; Region: tolR; TIGR02801 375451005577 translocation protein TolB; Provisional; Region: tolB; PRK05137 375451005578 TolB amino-terminal domain; Region: TolB_N; pfam04052 375451005579 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375451005580 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375451005581 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375451005582 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375451005583 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 375451005584 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375451005585 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451005586 ligand binding site [chemical binding]; other site 375451005587 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 375451005588 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 375451005589 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 375451005590 Ligand Binding Site [chemical binding]; other site 375451005591 FtsH Extracellular; Region: FtsH_ext; pfam06480 375451005592 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 375451005593 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 375451005594 Walker A motif; other site 375451005595 ATP binding site [chemical binding]; other site 375451005596 Walker B motif; other site 375451005597 arginine finger; other site 375451005598 Peptidase family M41; Region: Peptidase_M41; pfam01434 375451005599 MOSC domain; Region: MOSC; pfam03473 375451005600 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 375451005601 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 375451005602 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 375451005603 homodimer interface [polypeptide binding]; other site 375451005604 NADP binding site [chemical binding]; other site 375451005605 substrate binding site [chemical binding]; other site 375451005606 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 375451005607 CoenzymeA binding site [chemical binding]; other site 375451005608 subunit interaction site [polypeptide binding]; other site 375451005609 PHB binding site; other site 375451005610 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375451005611 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 375451005612 putative active site [active] 375451005613 putative metal binding site [ion binding]; other site 375451005614 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 375451005615 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 375451005616 ATP binding site [chemical binding]; other site 375451005617 putative Mg++ binding site [ion binding]; other site 375451005618 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 375451005619 nucleotide binding region [chemical binding]; other site 375451005620 ATP-binding site [chemical binding]; other site 375451005621 DEAD/H associated; Region: DEAD_assoc; pfam08494 375451005622 RNA helicase; Region: RNA_helicase; pfam00910 375451005623 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 375451005624 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 375451005625 binding surface 375451005626 TPR motif; other site 375451005627 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 375451005628 binding surface 375451005629 TPR motif; other site 375451005630 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 375451005631 TPR motif; other site 375451005632 TPR repeat; Region: TPR_11; pfam13414 375451005633 binding surface 375451005634 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 375451005635 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375451005636 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 375451005637 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 375451005638 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 375451005639 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 375451005640 ATP binding site [chemical binding]; other site 375451005641 Walker A motif; other site 375451005642 hexamer interface [polypeptide binding]; other site 375451005643 Walker B motif; other site 375451005644 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 375451005645 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 375451005646 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 375451005647 BON domain; Region: BON; pfam04972 375451005648 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 375451005649 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 375451005650 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 375451005651 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375451005652 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451005653 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451005654 catalytic residue [active] 375451005655 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 375451005656 hypothetical protein; Provisional; Region: PRK13559 375451005657 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 375451005658 putative active site [active] 375451005659 heme pocket [chemical binding]; other site 375451005660 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 375451005661 ATP binding site [chemical binding]; other site 375451005662 Mg2+ binding site [ion binding]; other site 375451005663 G-X-G motif; other site 375451005664 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 375451005665 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 375451005666 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 375451005667 active site 375451005668 interdomain interaction site; other site 375451005669 putative metal-binding site [ion binding]; other site 375451005670 nucleotide binding site [chemical binding]; other site 375451005671 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 375451005672 domain I; other site 375451005673 DNA binding groove [nucleotide binding] 375451005674 phosphate binding site [ion binding]; other site 375451005675 domain II; other site 375451005676 domain III; other site 375451005677 nucleotide binding site [chemical binding]; other site 375451005678 catalytic site [active] 375451005679 domain IV; other site 375451005680 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 375451005681 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 375451005682 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 375451005683 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 375451005684 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 375451005685 DNA protecting protein DprA; Region: dprA; TIGR00732 375451005686 protease TldD; Provisional; Region: tldD; PRK10735 375451005687 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 375451005688 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00154 375451005689 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 375451005690 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 375451005691 UbiA prenyltransferase family; Region: UbiA; pfam01040 375451005692 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 375451005693 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 375451005694 Subunit III/VIIa interface [polypeptide binding]; other site 375451005695 Phospholipid binding site [chemical binding]; other site 375451005696 Subunit I/III interface [polypeptide binding]; other site 375451005697 Subunit III/VIb interface [polypeptide binding]; other site 375451005698 Subunit III/VIa interface; other site 375451005699 Subunit III/Vb interface [polypeptide binding]; other site 375451005700 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 375451005701 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 375451005702 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 375451005703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451005704 catalytic residue [active] 375451005705 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 375451005706 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 375451005707 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 375451005708 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 375451005709 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 375451005710 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 375451005711 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 375451005712 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375451005713 FAD binding domain; Region: FAD_binding_4; pfam01565 375451005714 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 375451005715 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451005716 active site 375451005717 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451005718 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 375451005719 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 375451005720 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 375451005721 Sulfate transporter family; Region: Sulfate_transp; pfam00916 375451005722 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 375451005723 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 375451005724 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451005725 Coenzyme A binding pocket [chemical binding]; other site 375451005726 EcsC protein family; Region: EcsC; pfam12787 375451005727 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 375451005728 nudix motif; other site 375451005729 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 375451005730 aspartate kinase; Reviewed; Region: PRK06635 375451005731 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 375451005732 putative nucleotide binding site [chemical binding]; other site 375451005733 putative catalytic residues [active] 375451005734 putative Mg ion binding site [ion binding]; other site 375451005735 putative aspartate binding site [chemical binding]; other site 375451005736 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 375451005737 putative allosteric regulatory site; other site 375451005738 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 375451005739 putative allosteric regulatory residue; other site 375451005740 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 375451005741 GAF domain; Region: GAF; pfam01590 375451005742 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 375451005743 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 375451005744 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 375451005745 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 375451005746 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 375451005747 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 375451005748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3602 375451005749 ACT domain; Region: ACT_3; pfam10000 375451005750 Family description; Region: ACT_7; pfam13840 375451005751 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 375451005752 dimerization interface [polypeptide binding]; other site 375451005753 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375451005754 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451005755 dimer interface [polypeptide binding]; other site 375451005756 putative CheW interface [polypeptide binding]; other site 375451005757 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 375451005758 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451005759 Walker A/P-loop; other site 375451005760 ATP binding site [chemical binding]; other site 375451005761 Q-loop/lid; other site 375451005762 ABC transporter signature motif; other site 375451005763 Walker B; other site 375451005764 D-loop; other site 375451005765 H-loop/switch region; other site 375451005766 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 375451005767 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451005768 Walker A/P-loop; other site 375451005769 ATP binding site [chemical binding]; other site 375451005770 Q-loop/lid; other site 375451005771 ABC transporter signature motif; other site 375451005772 Walker B; other site 375451005773 D-loop; other site 375451005774 H-loop/switch region; other site 375451005775 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451005776 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 375451005777 TM-ABC transporter signature motif; other site 375451005778 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 375451005779 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451005780 TM-ABC transporter signature motif; other site 375451005781 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451005782 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 375451005783 putative ligand binding site [chemical binding]; other site 375451005784 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 375451005785 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 375451005786 putative active site [active] 375451005787 metal binding site [ion binding]; metal-binding site 375451005788 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 375451005789 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 375451005790 NAD(P) binding site [chemical binding]; other site 375451005791 catalytic residues [active] 375451005792 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 375451005793 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 375451005794 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451005795 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451005796 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451005797 DctM-like transporters; Region: DctM; pfam06808 375451005798 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 375451005799 N-formylglutamate amidohydrolase; Region: FGase; cl01522 375451005800 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 375451005801 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 375451005802 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 375451005803 putative active site [active] 375451005804 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375451005805 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375451005806 cobyric acid synthase; Provisional; Region: PRK00784 375451005807 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 375451005808 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 375451005809 catalytic triad [active] 375451005810 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 375451005811 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 375451005812 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 375451005813 homodimer interface [polypeptide binding]; other site 375451005814 Walker A motif; other site 375451005815 ATP binding site [chemical binding]; other site 375451005816 hydroxycobalamin binding site [chemical binding]; other site 375451005817 Walker B motif; other site 375451005818 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 375451005819 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 375451005820 substrate binding pocket [chemical binding]; other site 375451005821 membrane-bound complex binding site; other site 375451005822 hinge residues; other site 375451005823 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 375451005824 dimer interface [polypeptide binding]; other site 375451005825 conserved gate region; other site 375451005826 putative PBP binding loops; other site 375451005827 ABC-ATPase subunit interface; other site 375451005828 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 375451005829 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 375451005830 Walker A/P-loop; other site 375451005831 ATP binding site [chemical binding]; other site 375451005832 Q-loop/lid; other site 375451005833 ABC transporter signature motif; other site 375451005834 Walker B; other site 375451005835 D-loop; other site 375451005836 H-loop/switch region; other site 375451005837 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451005838 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451005839 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451005840 DctM-like transporters; Region: DctM; pfam06808 375451005841 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451005842 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 375451005843 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 375451005844 tetramer interface [polypeptide binding]; other site 375451005845 active site 375451005846 Mg2+/Mn2+ binding site [ion binding]; other site 375451005847 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 375451005848 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 375451005849 putative active site [active] 375451005850 putative FMN binding site [chemical binding]; other site 375451005851 putative substrate binding site [chemical binding]; other site 375451005852 putative catalytic residue [active] 375451005853 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451005854 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 375451005855 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451005856 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 375451005857 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 375451005858 dimer interface [polypeptide binding]; other site 375451005859 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451005860 active site 375451005861 metal binding site [ion binding]; metal-binding site 375451005862 glutathione binding site [chemical binding]; other site 375451005863 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 375451005864 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 375451005865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451005866 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 375451005867 dimerization interface [polypeptide binding]; other site 375451005868 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 375451005869 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 375451005870 dimer interface [polypeptide binding]; other site 375451005871 active site 375451005872 heme binding site [chemical binding]; other site 375451005873 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 375451005874 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 375451005875 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 375451005876 Ligand Binding Site [chemical binding]; other site 375451005877 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 375451005878 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 375451005879 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 375451005880 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 375451005881 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451005882 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 375451005883 acyl-activating enzyme (AAE) consensus motif; other site 375451005884 acyl-activating enzyme (AAE) consensus motif; other site 375451005885 putative AMP binding site [chemical binding]; other site 375451005886 putative active site [active] 375451005887 putative CoA binding site [chemical binding]; other site 375451005888 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 375451005889 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375451005890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375451005891 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451005892 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 375451005893 non-specific DNA binding site [nucleotide binding]; other site 375451005894 salt bridge; other site 375451005895 sequence-specific DNA binding site [nucleotide binding]; other site 375451005896 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 375451005897 Domain of unknown function (DUF955); Region: DUF955; pfam06114 375451005898 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 375451005899 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 375451005900 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 375451005901 cation efflux system protein 375451005902 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375451005903 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451005904 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451005905 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451005906 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451005907 WHG domain; Region: WHG; pfam13305 375451005908 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375451005909 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 375451005910 active site 375451005911 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 375451005912 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 375451005913 active site 375451005914 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451005915 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451005916 Walker A/P-loop; other site 375451005917 ATP binding site [chemical binding]; other site 375451005918 Q-loop/lid; other site 375451005919 ABC transporter signature motif; other site 375451005920 Walker B; other site 375451005921 D-loop; other site 375451005922 H-loop/switch region; other site 375451005923 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451005924 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451005925 TM-ABC transporter signature motif; other site 375451005926 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 375451005927 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 375451005928 ligand binding site [chemical binding]; other site 375451005929 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 375451005930 putative DNA binding site [nucleotide binding]; other site 375451005931 dimerization interface [polypeptide binding]; other site 375451005932 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451005933 putative Zn2+ binding site [ion binding]; other site 375451005934 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 375451005935 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 375451005936 nucleotide binding site [chemical binding]; other site 375451005937 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 375451005938 GAF domain; Region: GAF; pfam01590 375451005939 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 375451005940 PAS domain; Region: PAS_9; pfam13426 375451005941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451005942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451005943 metal binding site [ion binding]; metal-binding site 375451005944 active site 375451005945 I-site; other site 375451005946 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 375451005947 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 375451005948 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451005949 Walker A/P-loop; other site 375451005950 ATP binding site [chemical binding]; other site 375451005951 Q-loop/lid; other site 375451005952 ABC transporter signature motif; other site 375451005953 Walker B; other site 375451005954 D-loop; other site 375451005955 H-loop/switch region; other site 375451005956 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 375451005957 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 375451005958 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451005959 Walker A/P-loop; other site 375451005960 ATP binding site [chemical binding]; other site 375451005961 Q-loop/lid; other site 375451005962 ABC transporter signature motif; other site 375451005963 Walker B; other site 375451005964 D-loop; other site 375451005965 H-loop/switch region; other site 375451005966 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451005967 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 375451005968 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375451005969 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 375451005970 dimer interface [polypeptide binding]; other site 375451005971 conserved gate region; other site 375451005972 putative PBP binding loops; other site 375451005973 ABC-ATPase subunit interface; other site 375451005974 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451005975 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 375451005976 dimer interface [polypeptide binding]; other site 375451005977 conserved gate region; other site 375451005978 putative PBP binding loops; other site 375451005979 ABC-ATPase subunit interface; other site 375451005980 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451005981 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 375451005982 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 375451005983 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 375451005984 integrase; Provisional; Region: PRK09692 375451005985 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 375451005986 active site 375451005987 Int/Topo IB signature motif; other site 375451005988 Helix-turn-helix domain; Region: HTH_17; pfam12728 375451005989 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 375451005990 active site 375451005991 Int/Topo IB signature motif; other site 375451005992 catalytic residues [active] 375451005993 DNA binding site [nucleotide binding] 375451005994 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 375451005995 Methyltransferase domain; Region: Methyltransf_26; pfam13659 375451005996 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 375451005997 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 375451005998 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 375451005999 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375451006000 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 375451006001 ATP binding site [chemical binding]; other site 375451006002 putative Mg++ binding site [ion binding]; other site 375451006003 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 375451006004 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 375451006005 putative active site [active] 375451006006 putative NTP binding site [chemical binding]; other site 375451006007 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 375451006008 putative nucleic acid binding site [nucleotide binding]; other site 375451006009 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 375451006010 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375451006011 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451006012 Walker A/P-loop; other site 375451006013 ATP binding site [chemical binding]; other site 375451006014 Q-loop/lid; other site 375451006015 ABC transporter signature motif; other site 375451006016 Walker B; other site 375451006017 D-loop; other site 375451006018 H-loop/switch region; other site 375451006019 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 375451006020 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 375451006021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451006022 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451006023 active site 375451006024 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 375451006025 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451006026 active site 375451006027 phosphorylation site [posttranslational modification] 375451006028 intermolecular recognition site; other site 375451006029 dimerization interface [polypeptide binding]; other site 375451006030 CheB methylesterase; Region: CheB_methylest; pfam01339 375451006031 CheD chemotactic sensory transduction; Region: CheD; cl00810 375451006032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451006033 HTH-like domain; Region: HTH_21; pfam13276 375451006034 Integrase core domain; Region: rve; pfam00665 375451006035 Integrase core domain; Region: rve_3; pfam13683 375451006036 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451006037 HAMP domain; Region: HAMP; pfam00672 375451006038 dimerization interface [polypeptide binding]; other site 375451006039 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 375451006040 dimer interface [polypeptide binding]; other site 375451006041 phosphorylation site [posttranslational modification] 375451006042 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 375451006043 ATP binding site [chemical binding]; other site 375451006044 Mg2+ binding site [ion binding]; other site 375451006045 G-X-G motif; other site 375451006046 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 375451006047 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 375451006048 dimerization interface [polypeptide binding]; other site 375451006049 putative ATP binding site [chemical binding]; other site 375451006050 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 375451006051 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 375451006052 active site 375451006053 substrate binding site [chemical binding]; other site 375451006054 cosubstrate binding site; other site 375451006055 catalytic site [active] 375451006056 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 375451006057 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 375451006058 catalytic site [active] 375451006059 putative active site [active] 375451006060 putative substrate binding site [chemical binding]; other site 375451006061 HRDC domain; Region: HRDC; pfam00570 375451006062 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 375451006063 Fe-S metabolism associated domain; Region: SufE; cl00951 375451006064 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 375451006065 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 375451006066 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 375451006067 B12 binding site [chemical binding]; other site 375451006068 cobalt ligand [ion binding]; other site 375451006069 methionine synthase I; Validated; Region: PRK07534 375451006070 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 375451006071 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 375451006072 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 375451006073 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 375451006074 ATP binding site [chemical binding]; other site 375451006075 active site 375451006076 substrate binding site [chemical binding]; other site 375451006077 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 375451006078 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 375451006079 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 375451006080 putative active site [active] 375451006081 catalytic triad [active] 375451006082 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 375451006083 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 375451006084 dimer interface [polypeptide binding]; other site 375451006085 phosphorylation site [posttranslational modification] 375451006086 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 375451006087 ATP binding site [chemical binding]; other site 375451006088 Mg2+ binding site [ion binding]; other site 375451006089 G-X-G motif; other site 375451006090 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 375451006091 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451006092 active site 375451006093 phosphorylation site [posttranslational modification] 375451006094 intermolecular recognition site; other site 375451006095 dimerization interface [polypeptide binding]; other site 375451006096 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 375451006097 Walker A motif; other site 375451006098 ATP binding site [chemical binding]; other site 375451006099 Walker B motif; other site 375451006100 arginine finger; other site 375451006101 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 375451006102 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 375451006103 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 375451006104 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 375451006105 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 375451006106 CPxP motif; other site 375451006107 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 375451006108 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 375451006109 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 375451006110 catalytic residue [active] 375451006111 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 375451006112 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 375451006113 fumarate hydratase; Reviewed; Region: fumC; PRK00485 375451006114 Class II fumarases; Region: Fumarase_classII; cd01362 375451006115 active site 375451006116 tetramer interface [polypeptide binding]; other site 375451006117 Stringent starvation protein B; Region: SspB; pfam04386 375451006118 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 375451006119 Chromate transporter; Region: Chromate_transp; pfam02417 375451006120 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451006121 Transcriptional regulators [Transcription]; Region: FadR; COG2186 375451006122 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451006123 DNA-binding site [nucleotide binding]; DNA binding site 375451006124 FCD domain; Region: FCD; pfam07729 375451006125 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 375451006126 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 375451006127 DinB family; Region: DinB; cl17821 375451006128 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 375451006129 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451006130 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 375451006131 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 375451006132 NADP binding site [chemical binding]; other site 375451006133 dimer interface [polypeptide binding]; other site 375451006134 BCCT family transporter; Region: BCCT; pfam02028 375451006135 BCCT family transporter; Region: BCCT; pfam02028 375451006136 BCCT family transporter; Region: BCCT; pfam02028 375451006137 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 375451006138 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 375451006139 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451006140 catalytic residue [active] 375451006141 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 375451006142 DNA photolyase; Region: DNA_photolyase; pfam00875 375451006143 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 375451006144 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 375451006145 S-adenosylmethionine binding site [chemical binding]; other site 375451006146 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 375451006147 putative active site pocket [active] 375451006148 dimerization interface [polypeptide binding]; other site 375451006149 putative catalytic residue [active] 375451006150 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 375451006151 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 375451006152 dimer interface [polypeptide binding]; other site 375451006153 ADP-ribose binding site [chemical binding]; other site 375451006154 active site 375451006155 nudix motif; other site 375451006156 metal binding site [ion binding]; metal-binding site 375451006157 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 375451006158 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 375451006159 dimer interface [polypeptide binding]; other site 375451006160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451006161 catalytic residue [active] 375451006162 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cl02488 375451006163 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 375451006164 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 375451006165 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451006166 Cytochrome c; Region: Cytochrom_C; cl11414 375451006167 Cytochrome c; Region: Cytochrom_C; pfam00034 375451006168 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375451006169 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 375451006170 metal-binding site [ion binding] 375451006171 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 375451006172 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 375451006173 metal-binding site [ion binding] 375451006174 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 375451006175 Soluble P-type ATPase [General function prediction only]; Region: COG4087 375451006176 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 375451006177 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 375451006178 DNA binding residues [nucleotide binding] 375451006179 dimer interface [polypeptide binding]; other site 375451006180 copper binding site [ion binding]; other site 375451006181 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 375451006182 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 375451006183 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 375451006184 Protein of unknown function, DUF; Region: DUF411; cl01142 375451006185 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451006186 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451006187 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451006188 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 375451006189 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451006190 DNA-binding site [nucleotide binding]; DNA binding site 375451006191 UTRA domain; Region: UTRA; pfam07702 375451006192 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 375451006193 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 375451006194 active site 375451006195 dimer interface [polypeptide binding]; other site 375451006196 non-prolyl cis peptide bond; other site 375451006197 insertion regions; other site 375451006198 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451006199 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451006200 active site 375451006201 catalytic tetrad [active] 375451006202 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 375451006203 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451006204 DctM-like transporters; Region: DctM; pfam06808 375451006205 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451006206 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451006207 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 375451006208 Sel1-like repeats; Region: SEL1; smart00671 375451006209 methylamine utilization protein MauG 375451006210 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 375451006211 beta-galactosidase; Region: BGL; TIGR03356 375451006212 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451006213 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451006214 DNA binding site [nucleotide binding] 375451006215 domain linker motif; other site 375451006216 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 375451006217 ligand binding site [chemical binding]; other site 375451006218 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451006219 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006220 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 375451006221 dimer interface [polypeptide binding]; other site 375451006222 conserved gate region; other site 375451006223 putative PBP binding loops; other site 375451006224 ABC-ATPase subunit interface; other site 375451006225 alpha-glucoside transporter permease AglG 375451006226 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 375451006227 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 375451006228 active site 375451006229 catalytic site [active] 375451006230 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 375451006231 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 375451006232 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451006233 Walker A/P-loop; other site 375451006234 ATP binding site [chemical binding]; other site 375451006235 Q-loop/lid; other site 375451006236 ABC transporter signature motif; other site 375451006237 Walker B; other site 375451006238 D-loop; other site 375451006239 H-loop/switch region; other site 375451006240 TOBE domain; Region: TOBE; pfam03459 375451006241 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 375451006242 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 375451006243 Surface antigen; Region: Bac_surface_Ag; pfam01103 375451006244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 375451006245 Family of unknown function (DUF490); Region: DUF490; pfam04357 375451006246 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 375451006247 acetyl-CoA synthetase; Provisional; Region: PRK00174 375451006248 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 375451006249 active site 375451006250 CoA binding site [chemical binding]; other site 375451006251 acyl-activating enzyme (AAE) consensus motif; other site 375451006252 AMP binding site [chemical binding]; other site 375451006253 acetate binding site [chemical binding]; other site 375451006254 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451006255 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451006256 DctM-like transporters; Region: DctM; pfam06808 375451006257 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451006258 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 375451006259 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451006260 aminotransferase; Provisional; Region: PRK06105 375451006261 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 375451006262 inhibitor-cofactor binding pocket; inhibition site 375451006263 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451006264 catalytic residue [active] 375451006265 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375451006266 classical (c) SDRs; Region: SDR_c; cd05233 375451006267 NAD(P) binding site [chemical binding]; other site 375451006268 active site 375451006269 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375451006270 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375451006271 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 375451006272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375451006273 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451006274 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 375451006275 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 375451006276 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451006277 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375451006278 Walker A/P-loop; other site 375451006279 ATP binding site [chemical binding]; other site 375451006280 Q-loop/lid; other site 375451006281 ABC transporter signature motif; other site 375451006282 Walker B; other site 375451006283 D-loop; other site 375451006284 H-loop/switch region; other site 375451006285 NMT1/THI5 like; Region: NMT1; pfam09084 375451006286 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 375451006287 Sulfatase; Region: Sulfatase; cl17466 375451006288 Uncharacterized conserved protein [Function unknown]; Region: COG2353 375451006289 Right handed beta helix region; Region: Beta_helix; pfam13229 375451006290 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 375451006291 GSH binding site [chemical binding]; other site 375451006292 catalytic residues [active] 375451006293 Protein of unknown function, DUF417; Region: DUF417; cl01162 375451006294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451006295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451006296 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 375451006297 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451006298 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451006299 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451006300 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 375451006301 ligand binding site [chemical binding]; other site 375451006302 flexible hinge region; other site 375451006303 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 375451006304 MarR family; Region: MarR_2; pfam12802 375451006305 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 375451006306 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375451006307 iron-sulfur cluster [ion binding]; other site 375451006308 [2Fe-2S] cluster binding site [ion binding]; other site 375451006309 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 375451006310 alpha subunit interface [polypeptide binding]; other site 375451006311 active site 375451006312 substrate binding site [chemical binding]; other site 375451006313 Fe binding site [ion binding]; other site 375451006314 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 375451006315 nucleoside/Zn binding site; other site 375451006316 dimer interface [polypeptide binding]; other site 375451006317 catalytic motif [active] 375451006318 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375451006319 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 375451006320 active site 375451006321 catalytic site [active] 375451006322 Zn binding site [ion binding]; other site 375451006323 tetramer interface [polypeptide binding]; other site 375451006324 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451006325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006326 Walker A/P-loop; other site 375451006327 ATP binding site [chemical binding]; other site 375451006328 Q-loop/lid; other site 375451006329 ABC transporter signature motif; other site 375451006330 Walker B; other site 375451006331 D-loop; other site 375451006332 H-loop/switch region; other site 375451006333 TOBE domain; Region: TOBE_2; pfam08402 375451006334 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006335 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 375451006336 dimer interface [polypeptide binding]; other site 375451006337 conserved gate region; other site 375451006338 putative PBP binding loops; other site 375451006339 ABC-ATPase subunit interface; other site 375451006340 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006341 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 375451006342 dimer interface [polypeptide binding]; other site 375451006343 conserved gate region; other site 375451006344 putative PBP binding loops; other site 375451006345 ABC-ATPase subunit interface; other site 375451006346 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451006347 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451006348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451006349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451006350 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 375451006351 dimerization interface [polypeptide binding]; other site 375451006352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451006353 active site 375451006354 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 375451006355 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 375451006356 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 375451006357 catalytic loop [active] 375451006358 iron binding site [ion binding]; other site 375451006359 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 375451006360 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375451006361 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 375451006362 Bacterial transcriptional regulator; Region: IclR; pfam01614 375451006363 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 375451006364 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 375451006365 putative ligand binding site [chemical binding]; other site 375451006366 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451006367 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451006368 TM-ABC transporter signature motif; other site 375451006369 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 375451006370 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451006371 Walker A/P-loop; other site 375451006372 ATP binding site [chemical binding]; other site 375451006373 Q-loop/lid; other site 375451006374 ABC transporter signature motif; other site 375451006375 Walker B; other site 375451006376 D-loop; other site 375451006377 H-loop/switch region; other site 375451006378 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375451006379 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 375451006380 Phosphotransferase enzyme family; Region: APH; pfam01636 375451006381 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 375451006382 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 375451006383 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 375451006384 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 375451006385 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 375451006386 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 375451006387 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 375451006388 active site 375451006389 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 375451006390 active site 375451006391 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 375451006392 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 375451006393 Walker A/P-loop; other site 375451006394 ATP binding site [chemical binding]; other site 375451006395 Q-loop/lid; other site 375451006396 ABC transporter signature motif; other site 375451006397 Walker B; other site 375451006398 D-loop; other site 375451006399 H-loop/switch region; other site 375451006400 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 375451006401 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451006402 Walker A/P-loop; other site 375451006403 ATP binding site [chemical binding]; other site 375451006404 Q-loop/lid; other site 375451006405 ABC transporter signature motif; other site 375451006406 Walker B; other site 375451006407 D-loop; other site 375451006408 H-loop/switch region; other site 375451006409 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451006410 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 375451006411 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 375451006412 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 375451006413 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 375451006414 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 375451006415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451006416 DNA-binding site [nucleotide binding]; DNA binding site 375451006417 UTRA domain; Region: UTRA; pfam07702 375451006418 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 375451006419 dimerization interface [polypeptide binding]; other site 375451006420 putative DNA binding site [nucleotide binding]; other site 375451006421 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 375451006422 putative Zn2+ binding site [ion binding]; other site 375451006423 Low molecular weight phosphatase family; Region: LMWPc; cd00115 375451006424 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 375451006425 active site 375451006426 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 375451006427 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 375451006428 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 375451006429 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 375451006430 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 375451006431 trimer interface [polypeptide binding]; other site 375451006432 active site 375451006433 substrate binding site [chemical binding]; other site 375451006434 CoA binding site [chemical binding]; other site 375451006435 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 375451006436 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 375451006437 dimer interface [polypeptide binding]; other site 375451006438 conserved gate region; other site 375451006439 putative PBP binding loops; other site 375451006440 ABC-ATPase subunit interface; other site 375451006441 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 375451006442 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 375451006443 dimer interface [polypeptide binding]; other site 375451006444 conserved gate region; other site 375451006445 ABC-ATPase subunit interface; other site 375451006446 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 375451006447 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375451006448 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 375451006449 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 375451006450 Walker A/P-loop; other site 375451006451 ATP binding site [chemical binding]; other site 375451006452 Q-loop/lid; other site 375451006453 ABC transporter signature motif; other site 375451006454 Walker B; other site 375451006455 D-loop; other site 375451006456 H-loop/switch region; other site 375451006457 dihydropyrimidinase; Provisional; Region: PRK13404 375451006458 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 375451006459 tetramer interface [polypeptide binding]; other site 375451006460 active site 375451006461 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451006462 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 375451006463 Amidase; Region: Amidase; cl11426 375451006464 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006465 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 375451006466 dimer interface [polypeptide binding]; other site 375451006467 conserved gate region; other site 375451006468 putative PBP binding loops; other site 375451006469 ABC-ATPase subunit interface; other site 375451006470 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 375451006471 dimer interface [polypeptide binding]; other site 375451006472 conserved gate region; other site 375451006473 putative PBP binding loops; other site 375451006474 ABC-ATPase subunit interface; other site 375451006475 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451006476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006477 Walker A/P-loop; other site 375451006478 ATP binding site [chemical binding]; other site 375451006479 Q-loop/lid; other site 375451006480 ABC transporter signature motif; other site 375451006481 Walker B; other site 375451006482 D-loop; other site 375451006483 H-loop/switch region; other site 375451006484 TOBE domain; Region: TOBE_2; pfam08402 375451006485 2-aminoethylphosphonate ABC transporter, periplasmic 2-aminoethylphosphonate binding protein; Region: PhnS; TIGR03227 375451006486 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 375451006487 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451006488 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451006489 DNA-binding site [nucleotide binding]; DNA binding site 375451006490 FCD domain; Region: FCD; pfam07729 375451006491 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006492 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 375451006493 dimer interface [polypeptide binding]; other site 375451006494 conserved gate region; other site 375451006495 putative PBP binding loops; other site 375451006496 ABC-ATPase subunit interface; other site 375451006497 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451006498 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 375451006499 dimer interface [polypeptide binding]; other site 375451006500 conserved gate region; other site 375451006501 putative PBP binding loops; other site 375451006502 ABC-ATPase subunit interface; other site 375451006503 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451006504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006505 Walker A/P-loop; other site 375451006506 ATP binding site [chemical binding]; other site 375451006507 Q-loop/lid; other site 375451006508 ABC transporter signature motif; other site 375451006509 Walker B; other site 375451006510 D-loop; other site 375451006511 H-loop/switch region; other site 375451006512 TOBE domain; Region: TOBE_2; pfam08402 375451006513 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 375451006514 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451006515 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 375451006516 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 375451006517 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 375451006518 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 375451006519 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 375451006520 dimer interface [polypeptide binding]; other site 375451006521 active site 375451006522 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 375451006523 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 375451006524 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451006525 ATP binding site [chemical binding]; other site 375451006526 substrate binding site [chemical binding]; other site 375451006527 BtpA family; Region: BtpA; cl00440 375451006528 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375451006529 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 375451006530 active site 375451006531 catalytic site [active] 375451006532 tetramer interface [polypeptide binding]; other site 375451006533 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 375451006534 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451006535 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 375451006536 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 375451006537 active site 375451006538 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451006539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006540 Walker A/P-loop; other site 375451006541 ATP binding site [chemical binding]; other site 375451006542 Q-loop/lid; other site 375451006543 ABC transporter signature motif; other site 375451006544 Walker B; other site 375451006545 D-loop; other site 375451006546 H-loop/switch region; other site 375451006547 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451006548 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451006549 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 375451006550 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 375451006551 ABC-ATPase subunit interface; other site 375451006552 putative PBP binding loops; other site 375451006553 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451006554 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 375451006555 dimer interface [polypeptide binding]; other site 375451006556 conserved gate region; other site 375451006557 putative PBP binding loops; other site 375451006558 ABC-ATPase subunit interface; other site 375451006559 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375451006560 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 375451006561 active site 375451006562 catalytic site [active] 375451006563 tetramer interface [polypeptide binding]; other site 375451006564 Uncharacterized conserved protein [Function unknown]; Region: COG3391 375451006565 NHL repeat; Region: NHL; pfam01436 375451006566 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 375451006567 non-specific DNA binding site [nucleotide binding]; other site 375451006568 salt bridge; other site 375451006569 sequence-specific DNA binding site [nucleotide binding]; other site 375451006570 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 375451006571 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375451006572 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 375451006573 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 375451006574 ligand binding site [chemical binding]; other site 375451006575 flexible hinge region; other site 375451006576 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 375451006577 putative switch regulator; other site 375451006578 non-specific DNA interactions [nucleotide binding]; other site 375451006579 DNA binding site [nucleotide binding] 375451006580 sequence specific DNA binding site [nucleotide binding]; other site 375451006581 putative cAMP binding site [chemical binding]; other site 375451006582 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 375451006583 Ligand Binding Site [chemical binding]; other site 375451006584 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 375451006585 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 375451006586 putative substrate translocation pore; other site 375451006587 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 375451006588 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 375451006589 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 375451006590 putative substrate translocation pore; other site 375451006591 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 375451006592 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 375451006593 [4Fe-4S] binding site [ion binding]; other site 375451006594 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 375451006595 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 375451006596 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 375451006597 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 375451006598 molybdopterin cofactor binding site; other site 375451006599 nitrate reductase, beta subunit; Region: narH; TIGR01660 375451006600 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 375451006601 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 375451006602 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 375451006603 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 375451006604 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 375451006605 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 375451006606 dimer interface [polypeptide binding]; other site 375451006607 putative functional site; other site 375451006608 putative MPT binding site; other site 375451006609 acetolactate synthase; Reviewed; Region: PRK08322 375451006610 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451006611 PYR/PP interface [polypeptide binding]; other site 375451006612 dimer interface [polypeptide binding]; other site 375451006613 TPP binding site [chemical binding]; other site 375451006614 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451006615 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 375451006616 TPP-binding site [chemical binding]; other site 375451006617 glutamate dehydrogenase; Provisional; Region: PRK09414 375451006618 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 375451006619 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 375451006620 NAD(P) binding pocket [chemical binding]; other site 375451006621 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451006622 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 375451006623 ligand binding site [chemical binding]; other site 375451006624 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 375451006625 non-specific DNA interactions [nucleotide binding]; other site 375451006626 DNA binding site [nucleotide binding] 375451006627 sequence specific DNA binding site [nucleotide binding]; other site 375451006628 putative cAMP binding site [chemical binding]; other site 375451006629 MgtC family; Region: MgtC; pfam02308 375451006630 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451006631 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451006632 Entericidin EcnA/B family; Region: Entericidin; cl02322 375451006633 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 375451006634 PRC-barrel domain; Region: PRC; pfam05239 375451006635 PRC-barrel domain; Region: PRC; pfam05239 375451006636 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 375451006637 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 375451006638 Histidine kinase; Region: HisKA_2; pfam07568 375451006639 RNA polymerase sigma factor; Provisional; Region: PRK12547 375451006640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451006641 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 375451006642 DNA binding residues [nucleotide binding] 375451006643 two-component response regulator; Provisional; Region: PRK09191 375451006644 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 375451006645 DNA binding residues [nucleotide binding] 375451006646 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451006647 active site 375451006648 phosphorylation site [posttranslational modification] 375451006649 intermolecular recognition site; other site 375451006650 dimerization interface [polypeptide binding]; other site 375451006651 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 375451006652 TrkA-N domain; Region: TrkA_N; pfam02254 375451006653 TrkA-C domain; Region: TrkA_C; pfam02080 375451006654 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 375451006655 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 375451006656 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 375451006657 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 375451006658 transcription termination factor Rho; Provisional; Region: rho; PRK09376 375451006659 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 375451006660 putative efflux protein, MATE family; Region: matE; TIGR00797 375451006661 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 375451006662 Domain of unknown function DUF20; Region: UPF0118; pfam01594 375451006663 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 375451006664 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 375451006665 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 375451006666 putative active site [active] 375451006667 catalytic site [active] 375451006668 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 375451006669 putative active site [active] 375451006670 catalytic site [active] 375451006671 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 375451006672 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 375451006673 RCC1 domain protein 375451006674 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 375451006675 active site 375451006676 DNA binding site [nucleotide binding] 375451006677 Int/Topo IB signature motif; other site 375451006678 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 375451006679 Part of AAA domain; Region: AAA_19; pfam13245 375451006680 Phage endonuclease I; Region: Phage_endo_I; cl11622 375451006681 Family description; Region: UvrD_C_2; pfam13538 375451006682 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 375451006683 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 375451006684 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 375451006685 putative active site [active] 375451006686 putative NTP binding site [chemical binding]; other site 375451006687 putative nucleic acid binding site [nucleotide binding]; other site 375451006688 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 375451006689 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 375451006690 putative active site [active] 375451006691 putative NTP binding site [chemical binding]; other site 375451006692 putative nucleic acid binding site [nucleotide binding]; other site 375451006693 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 375451006694 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451006695 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451006696 DsrE/DsrF-like family; Region: DrsE; pfam02635 375451006697 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 375451006698 Uncharacterized conserved protein [Function unknown]; Region: COG3791 375451006699 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451006700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451006701 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 375451006702 dimerization interface [polypeptide binding]; other site 375451006703 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 375451006704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451006705 short chain dehydrogenase; Provisional; Region: PRK06914 375451006706 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 375451006707 NADP binding site [chemical binding]; other site 375451006708 active site 375451006709 steroid binding site; other site 375451006710 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 375451006711 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 375451006712 FMN binding site [chemical binding]; other site 375451006713 active site 375451006714 catalytic residues [active] 375451006715 substrate binding site [chemical binding]; other site 375451006716 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 375451006717 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 375451006718 active site 375451006719 dimerization interface [polypeptide binding]; other site 375451006720 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 375451006721 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 375451006722 Proline dehydrogenase; Region: Pro_dh; pfam01619 375451006723 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 375451006724 Glutamate binding site [chemical binding]; other site 375451006725 NAD binding site [chemical binding]; other site 375451006726 catalytic residues [active] 375451006727 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451006728 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 375451006729 dimerization interface [polypeptide binding]; other site 375451006730 putative DNA binding site [nucleotide binding]; other site 375451006731 putative Zn2+ binding site [ion binding]; other site 375451006732 AsnC family; Region: AsnC_trans_reg; pfam01037 375451006733 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 375451006734 TPR motif; other site 375451006735 binding surface 375451006736 HAMP domain; Region: HAMP; pfam00672 375451006737 PAS domain; Region: PAS_9; pfam13426 375451006738 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375451006739 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451006740 dimer interface [polypeptide binding]; other site 375451006741 putative CheW interface [polypeptide binding]; other site 375451006742 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 375451006743 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 375451006744 active site 375451006745 HIGH motif; other site 375451006746 KMSKS motif; other site 375451006747 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 375451006748 tRNA binding surface [nucleotide binding]; other site 375451006749 anticodon binding site; other site 375451006750 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 375451006751 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451006752 putative substrate translocation pore; other site 375451006753 YceI-like domain; Region: YceI; pfam04264 375451006754 Uncharacterized conserved protein [Function unknown]; Region: COG4544 375451006755 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451006756 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451006757 active site 375451006758 catalytic tetrad [active] 375451006759 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 375451006760 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 375451006761 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 375451006762 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375451006763 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 375451006764 active site 375451006765 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 375451006766 nudix motif; other site 375451006767 Protein of unknown function (DUF983); Region: DUF983; pfam06170 375451006768 response regulator PleD; Reviewed; Region: pleD; PRK09581 375451006769 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451006770 active site 375451006771 phosphorylation site [posttranslational modification] 375451006772 intermolecular recognition site; other site 375451006773 dimerization interface [polypeptide binding]; other site 375451006774 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451006775 metal binding site [ion binding]; metal-binding site 375451006776 active site 375451006777 I-site; other site 375451006778 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 375451006779 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 375451006780 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 375451006781 motif II; other site 375451006782 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 375451006783 Heme NO binding; Region: HNOB; pfam07700 375451006784 Heme NO binding associated; Region: HNOBA; pfam07701 375451006785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451006786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451006787 metal binding site [ion binding]; metal-binding site 375451006788 active site 375451006789 I-site; other site 375451006790 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451006791 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 375451006792 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451006793 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451006794 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 375451006795 DHH family; Region: DHH; pfam01368 375451006796 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 375451006797 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 375451006798 putative active site [active] 375451006799 homoserine dehydrogenase; Provisional; Region: PRK06349 375451006800 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 375451006801 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 375451006802 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 375451006803 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375451006804 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451006805 seryl-tRNA synthetase; Provisional; Region: PRK05431 375451006806 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 375451006807 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 375451006808 dimer interface [polypeptide binding]; other site 375451006809 active site 375451006810 motif 1; other site 375451006811 motif 2; other site 375451006812 motif 3; other site 375451006813 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 375451006814 active site 375451006815 Preprotein translocase subunit; Region: YajC; pfam02699 375451006816 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 375451006817 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 375451006818 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 375451006819 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 375451006820 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 375451006821 Protein export membrane protein; Region: SecD_SecF; pfam02355 375451006822 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 375451006823 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 375451006824 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006825 Walker A/P-loop; other site 375451006826 ATP binding site [chemical binding]; other site 375451006827 Q-loop/lid; other site 375451006828 ABC transporter signature motif; other site 375451006829 Walker B; other site 375451006830 D-loop; other site 375451006831 H-loop/switch region; other site 375451006832 heme exporter protein CcmB; Region: ccmB; TIGR01190 375451006833 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 375451006834 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 375451006835 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451006836 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451006837 Walker A/P-loop; other site 375451006838 ATP binding site [chemical binding]; other site 375451006839 ABC transporter; Region: ABC_tran; pfam00005 375451006840 Q-loop/lid; other site 375451006841 ABC transporter signature motif; other site 375451006842 Walker B; other site 375451006843 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 375451006844 dimer interface [polypeptide binding]; other site 375451006845 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451006846 conserved gate region; other site 375451006847 ABC-ATPase subunit interface; other site 375451006848 aconitate hydratase; Validated; Region: PRK09277 375451006849 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 375451006850 substrate binding site [chemical binding]; other site 375451006851 ligand binding site [chemical binding]; other site 375451006852 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 375451006853 substrate binding site [chemical binding]; other site 375451006854 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 375451006855 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 375451006856 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 375451006857 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 375451006858 putative acyl-acceptor binding pocket; other site 375451006859 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 375451006860 FliG C-terminal domain; Region: FliG_C; pfam01706 375451006861 adenylosuccinate lyase; Provisional; Region: PRK07492 375451006862 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 375451006863 tetramer interface [polypeptide binding]; other site 375451006864 active site 375451006865 BioY family; Region: BioY; pfam02632 375451006866 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 375451006867 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 375451006868 active site 375451006869 catalytic triad [active] 375451006870 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 375451006871 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 375451006872 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 375451006873 active site 375451006874 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 375451006875 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 375451006876 glutamine synthetase; Provisional; Region: glnA; PRK09469 375451006877 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 375451006878 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451006879 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 375451006880 Nitrogen regulatory protein P-II; Region: P-II; smart00938 375451006881 YjeF family protein 375451006882 Hint domain; Region: Hint_2; pfam13403 375451006883 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 375451006884 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 375451006885 dimer interface [polypeptide binding]; other site 375451006886 ssDNA binding site [nucleotide binding]; other site 375451006887 tetramer (dimer of dimers) interface [polypeptide binding]; other site 375451006888 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375451006889 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451006890 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451006891 catalytic residue [active] 375451006892 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 375451006893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451006894 Walker A/P-loop; other site 375451006895 ATP binding site [chemical binding]; other site 375451006896 Q-loop/lid; other site 375451006897 ABC transporter signature motif; other site 375451006898 Walker B; other site 375451006899 D-loop; other site 375451006900 H-loop/switch region; other site 375451006901 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451006902 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 375451006903 Walker A/P-loop; other site 375451006904 ATP binding site [chemical binding]; other site 375451006905 Q-loop/lid; other site 375451006906 ABC transporter signature motif; other site 375451006907 Walker B; other site 375451006908 D-loop; other site 375451006909 H-loop/switch region; other site 375451006910 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 375451006911 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375451006912 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 375451006913 conserved gate region; other site 375451006914 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451006915 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 375451006916 dimer interface [polypeptide binding]; other site 375451006917 conserved gate region; other site 375451006918 putative PBP binding loops; other site 375451006919 ABC-ATPase subunit interface; other site 375451006920 Helix-turn-helix domain; Region: HTH_18; pfam12833 375451006921 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 375451006922 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 375451006923 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 375451006924 putative nucleotide binding site [chemical binding]; other site 375451006925 uridine monophosphate binding site [chemical binding]; other site 375451006926 homohexameric interface [polypeptide binding]; other site 375451006927 ribosome recycling factor; Reviewed; Region: frr; PRK00083 375451006928 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 375451006929 hinge region; other site 375451006930 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; cd00475 375451006931 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 375451006932 catalytic residue [active] 375451006933 putative FPP diphosphate binding site; other site 375451006934 putative FPP binding hydrophobic cleft; other site 375451006935 dimer interface [polypeptide binding]; other site 375451006936 putative IPP diphosphate binding site; other site 375451006937 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 375451006938 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 375451006939 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 375451006940 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 375451006941 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 375451006942 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 375451006943 RIP metalloprotease RseP; Region: TIGR00054 375451006944 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 375451006945 active site 375451006946 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 375451006947 protein binding site [polypeptide binding]; other site 375451006948 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 375451006949 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 375451006950 putative substrate binding region [chemical binding]; other site 375451006951 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 375451006952 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375451006953 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375451006954 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375451006955 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 375451006956 Surface antigen; Region: Bac_surface_Ag; pfam01103 375451006957 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 375451006958 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 375451006959 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 375451006960 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 375451006961 active site 375451006962 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 375451006963 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 375451006964 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 375451006965 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 375451006966 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 375451006967 Ligand Binding Site [chemical binding]; other site 375451006968 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 375451006969 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451006970 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451006971 active site 375451006972 phosphorylation site [posttranslational modification] 375451006973 intermolecular recognition site; other site 375451006974 dimerization interface [polypeptide binding]; other site 375451006975 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 375451006976 DNA binding site [nucleotide binding] 375451006977 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 375451006978 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 375451006979 nucleotide binding pocket [chemical binding]; other site 375451006980 K-X-D-G motif; other site 375451006981 catalytic site [active] 375451006982 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 375451006983 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 375451006984 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 375451006985 Dimer interface [polypeptide binding]; other site 375451006986 BRCT sequence motif; other site 375451006987 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 375451006988 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 375451006989 generic binding surface II; other site 375451006990 ssDNA binding site; other site 375451006991 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 375451006992 ATP binding site [chemical binding]; other site 375451006993 putative Mg++ binding site [ion binding]; other site 375451006994 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 375451006995 nucleotide binding region [chemical binding]; other site 375451006996 ATP-binding site [chemical binding]; other site 375451006997 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451006998 dimer interface [polypeptide binding]; other site 375451006999 putative CheW interface [polypeptide binding]; other site 375451007000 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 375451007001 trimerization site [polypeptide binding]; other site 375451007002 active site 375451007003 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 375451007004 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 375451007005 active site 375451007006 HIGH motif; other site 375451007007 nucleotide binding site [chemical binding]; other site 375451007008 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 375451007009 S-adenosylmethionine binding site [chemical binding]; other site 375451007010 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 375451007011 Glucose inhibited division protein A; Region: GIDA; pfam01134 375451007012 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 375451007013 CoenzymeA binding site [chemical binding]; other site 375451007014 subunit interaction site [polypeptide binding]; other site 375451007015 PHB binding site; other site 375451007016 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 375451007017 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 375451007018 23S rRNA interface [nucleotide binding]; other site 375451007019 L3 interface [polypeptide binding]; other site 375451007020 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 375451007021 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 375451007022 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 375451007023 TadE-like protein; Region: TadE; pfam07811 375451007024 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 375451007025 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 375451007026 Peptidase M15; Region: Peptidase_M15_3; cl01194 375451007027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 375451007028 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 375451007029 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 375451007030 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 375451007031 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 375451007032 trimer interface [polypeptide binding]; other site 375451007033 active site 375451007034 UDP-GlcNAc binding site [chemical binding]; other site 375451007035 lipid binding site [chemical binding]; lipid-binding site 375451007036 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 375451007037 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 375451007038 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 375451007039 dimer interface [polypeptide binding]; other site 375451007040 active site 375451007041 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 375451007042 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 375451007043 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 375451007044 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451007045 TM-ABC transporter signature motif; other site 375451007046 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 375451007047 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451007048 TM-ABC transporter signature motif; other site 375451007049 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451007050 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451007051 Walker A/P-loop; other site 375451007052 ATP binding site [chemical binding]; other site 375451007053 Q-loop/lid; other site 375451007054 ABC transporter signature motif; other site 375451007055 Walker B; other site 375451007056 D-loop; other site 375451007057 H-loop/switch region; other site 375451007058 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451007059 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451007060 Walker A/P-loop; other site 375451007061 ATP binding site [chemical binding]; other site 375451007062 Q-loop/lid; other site 375451007063 ABC transporter signature motif; other site 375451007064 Walker B; other site 375451007065 D-loop; other site 375451007066 H-loop/switch region; other site 375451007067 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 375451007068 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 375451007069 putative ligand binding site [chemical binding]; other site 375451007070 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 375451007071 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 375451007072 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375451007073 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 375451007074 conserved cys residue [active] 375451007075 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451007076 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451007077 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 375451007078 PAS domain; Region: PAS_5; pfam07310 375451007079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 375451007080 hypothetical protein; Provisional; Region: PRK11820 375451007081 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 375451007082 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 375451007083 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 375451007084 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 375451007085 catalytic site [active] 375451007086 G-X2-G-X-G-K; other site 375451007087 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 375451007088 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 375451007089 trimer interface [polypeptide binding]; other site 375451007090 putative metal binding site [ion binding]; other site 375451007091 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 375451007092 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 375451007093 homodimer interface [polypeptide binding]; other site 375451007094 substrate-cofactor binding pocket; other site 375451007095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451007096 catalytic residue [active] 375451007097 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375451007098 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 375451007099 dimer interface [polypeptide binding]; other site 375451007100 phosphorylation site [posttranslational modification] 375451007101 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 375451007102 ATP binding site [chemical binding]; other site 375451007103 Mg2+ binding site [ion binding]; other site 375451007104 G-X-G motif; other site 375451007105 PBP superfamily domain; Region: PBP_like_2; pfam12849 375451007106 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 375451007107 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 375451007108 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 375451007109 dimer interface [polypeptide binding]; other site 375451007110 conserved gate region; other site 375451007111 putative PBP binding loops; other site 375451007112 ABC-ATPase subunit interface; other site 375451007113 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 375451007114 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 375451007115 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 375451007116 dimer interface [polypeptide binding]; other site 375451007117 conserved gate region; other site 375451007118 putative PBP binding loops; other site 375451007119 ABC-ATPase subunit interface; other site 375451007120 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 375451007121 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 375451007122 Walker A/P-loop; other site 375451007123 ATP binding site [chemical binding]; other site 375451007124 Q-loop/lid; other site 375451007125 ABC transporter signature motif; other site 375451007126 Walker B; other site 375451007127 D-loop; other site 375451007128 H-loop/switch region; other site 375451007129 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 375451007130 PhoU domain; Region: PhoU; pfam01895 375451007131 PhoU domain; Region: PhoU; pfam01895 375451007132 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 375451007133 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007134 active site 375451007135 phosphorylation site [posttranslational modification] 375451007136 intermolecular recognition site; other site 375451007137 dimerization interface [polypeptide binding]; other site 375451007138 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 375451007139 DNA binding site [nucleotide binding] 375451007140 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 375451007141 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 375451007142 Helix-turn-helix domain; Region: HTH_38; pfam13936 375451007143 Integrase core domain; Region: rve; pfam00665 375451007144 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 375451007145 Dehydroquinase class II; Region: DHquinase_II; pfam01220 375451007146 active site 375451007147 trimer interface [polypeptide binding]; other site 375451007148 dimer interface [polypeptide binding]; other site 375451007149 elongation factor Ts; Provisional; Region: tsf; PRK09377 375451007150 UBA/TS-N domain; Region: UBA; pfam00627 375451007151 Elongation factor TS; Region: EF_TS; pfam00889 375451007152 Elongation factor TS; Region: EF_TS; pfam00889 375451007153 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 375451007154 rRNA interaction site [nucleotide binding]; other site 375451007155 S8 interaction site; other site 375451007156 putative laminin-1 binding site; other site 375451007157 PA14 domain; Region: PA14; cl08459 375451007158 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375451007159 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 375451007160 putative acyl-acceptor binding pocket; other site 375451007161 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 375451007162 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 375451007163 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 375451007164 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 375451007165 putative catalytic cysteine [active] 375451007166 gamma-glutamyl kinase; Provisional; Region: PRK05429 375451007167 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 375451007168 nucleotide binding site [chemical binding]; other site 375451007169 homotetrameric interface [polypeptide binding]; other site 375451007170 putative phosphate binding site [ion binding]; other site 375451007171 putative allosteric binding site; other site 375451007172 PUA domain; Region: PUA; pfam01472 375451007173 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 375451007174 GTP1/OBG; Region: GTP1_OBG; pfam01018 375451007175 Obg GTPase; Region: Obg; cd01898 375451007176 G1 box; other site 375451007177 GTP/Mg2+ binding site [chemical binding]; other site 375451007178 Switch I region; other site 375451007179 G2 box; other site 375451007180 G3 box; other site 375451007181 Switch II region; other site 375451007182 G4 box; other site 375451007183 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451007184 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375451007185 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451007186 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 375451007187 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 375451007188 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 375451007189 Uncharacterized conserved protein [Function unknown]; Region: COG3743 375451007190 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 375451007191 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 375451007192 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 375451007193 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 375451007194 dimerization interface [polypeptide binding]; other site 375451007195 DPS ferroxidase diiron center [ion binding]; other site 375451007196 ion pore; other site 375451007197 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 375451007198 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 375451007199 intersubunit interface [polypeptide binding]; other site 375451007200 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 375451007201 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 375451007202 ABC-ATPase subunit interface; other site 375451007203 dimer interface [polypeptide binding]; other site 375451007204 putative PBP binding regions; other site 375451007205 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 375451007206 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 375451007207 Walker A/P-loop; other site 375451007208 ATP binding site [chemical binding]; other site 375451007209 Q-loop/lid; other site 375451007210 ABC transporter signature motif; other site 375451007211 Walker B; other site 375451007212 D-loop; other site 375451007213 H-loop/switch region; other site 375451007214 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 375451007215 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 375451007216 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375451007217 TAP-like protein; Region: Abhydrolase_4; pfam08386 375451007218 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 375451007219 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 375451007220 Ligand binding site; other site 375451007221 metal-binding site 375451007222 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 375451007223 glutaminase A; Region: Gln_ase; TIGR03814 375451007224 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 375451007225 cyclase homology domain; Region: CHD; cd07302 375451007226 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 375451007227 nucleotidyl binding site; other site 375451007228 metal binding site [ion binding]; metal-binding site 375451007229 dimer interface [polypeptide binding]; other site 375451007230 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 375451007231 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 375451007232 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451007233 catalytic residue [active] 375451007234 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 375451007235 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 375451007236 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 375451007237 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 375451007238 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 375451007239 Walker A/P-loop; other site 375451007240 ATP binding site [chemical binding]; other site 375451007241 Q-loop/lid; other site 375451007242 ABC transporter signature motif; other site 375451007243 Walker B; other site 375451007244 D-loop; other site 375451007245 H-loop/switch region; other site 375451007246 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 375451007247 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 375451007248 putative ABC transporter; Region: ycf24; CHL00085 375451007249 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 375451007250 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 375451007251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451007252 catalytic residue [active] 375451007253 Transcriptional regulator; Region: Rrf2; cl17282 375451007254 Rrf2 family protein; Region: rrf2_super; TIGR00738 375451007255 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 375451007256 HD domain; Region: HD_3; pfam13023 375451007257 isocitrate dehydrogenase; Validated; Region: PRK08299 375451007258 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 375451007259 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 375451007260 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 375451007261 G1 box; other site 375451007262 putative GEF interaction site [polypeptide binding]; other site 375451007263 GTP/Mg2+ binding site [chemical binding]; other site 375451007264 Switch I region; other site 375451007265 G2 box; other site 375451007266 G3 box; other site 375451007267 Switch II region; other site 375451007268 G4 box; other site 375451007269 G5 box; other site 375451007270 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 375451007271 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 375451007272 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 375451007273 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 375451007274 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 375451007275 motif 1; other site 375451007276 active site 375451007277 motif 2; other site 375451007278 motif 3; other site 375451007279 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 375451007280 recombinase A; Provisional; Region: recA; PRK09354 375451007281 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 375451007282 hexamer interface [polypeptide binding]; other site 375451007283 Walker A motif; other site 375451007284 ATP binding site [chemical binding]; other site 375451007285 Walker B motif; other site 375451007286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451007287 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 375451007288 dimer interface [polypeptide binding]; other site 375451007289 phosphorylation site [posttranslational modification] 375451007290 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 375451007291 ATP binding site [chemical binding]; other site 375451007292 Mg2+ binding site [ion binding]; other site 375451007293 G-X-G motif; other site 375451007294 Response regulator receiver domain; Region: Response_reg; pfam00072 375451007295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007296 active site 375451007297 phosphorylation site [posttranslational modification] 375451007298 intermolecular recognition site; other site 375451007299 dimerization interface [polypeptide binding]; other site 375451007300 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 375451007301 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 375451007302 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 375451007303 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 375451007304 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 375451007305 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 375451007306 active site 375451007307 agmatinase; Region: agmatinase; TIGR01230 375451007308 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 375451007309 oligomer interface [polypeptide binding]; other site 375451007310 active site 375451007311 Mn binding site [ion binding]; other site 375451007312 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 375451007313 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 375451007314 catalytic loop [active] 375451007315 iron binding site [ion binding]; other site 375451007316 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 375451007317 active site 375451007318 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 375451007319 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 375451007320 active site 375451007321 dimer interface [polypeptide binding]; other site 375451007322 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 375451007323 dimer interface [polypeptide binding]; other site 375451007324 active site 375451007325 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 375451007326 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 375451007327 putative active site [active] 375451007328 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 375451007329 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 375451007330 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 375451007331 Radical SAM superfamily; Region: Radical_SAM; pfam04055 375451007332 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 375451007333 FeS/SAM binding site; other site 375451007334 Usg-like family; Region: Usg; pfam06233 375451007335 DNA gyrase subunit A; Validated; Region: PRK05560 375451007336 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 375451007337 CAP-like domain; other site 375451007338 active site 375451007339 primary dimer interface [polypeptide binding]; other site 375451007340 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375451007341 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375451007342 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 375451007343 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 375451007344 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 375451007345 active site 375451007346 Zn binding site [ion binding]; other site 375451007347 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 375451007348 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 375451007349 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 375451007350 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 375451007351 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 375451007352 thiamine phosphate binding site [chemical binding]; other site 375451007353 active site 375451007354 pyrophosphate binding site [ion binding]; other site 375451007355 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 375451007356 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 375451007357 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451007358 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 375451007359 substrate binding site [chemical binding]; other site 375451007360 ATP binding site [chemical binding]; other site 375451007361 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 375451007362 Uncharacterized conserved protein [Function unknown]; Region: COG2928 375451007363 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375451007364 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 375451007365 active site 375451007366 nucleophile elbow; other site 375451007367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451007368 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 375451007369 NAD(P) binding site [chemical binding]; other site 375451007370 active site 375451007371 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 375451007372 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_14; cd08497 375451007373 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451007374 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 375451007375 non-specific DNA binding site [nucleotide binding]; other site 375451007376 salt bridge; other site 375451007377 sequence-specific DNA binding site [nucleotide binding]; other site 375451007378 Cupin domain; Region: Cupin_2; pfam07883 375451007379 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 375451007380 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451007381 acyl-activating enzyme (AAE) consensus motif; other site 375451007382 AMP binding site [chemical binding]; other site 375451007383 active site 375451007384 CoA binding site [chemical binding]; other site 375451007385 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 375451007386 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 375451007387 catalytic residues [active] 375451007388 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 375451007389 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 375451007390 putative substrate translocation pore; other site 375451007391 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 375451007392 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 375451007393 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 375451007394 ATP binding site [chemical binding]; other site 375451007395 putative Mg++ binding site [ion binding]; other site 375451007396 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 375451007397 nucleotide binding region [chemical binding]; other site 375451007398 ATP-binding site [chemical binding]; other site 375451007399 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 375451007400 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 375451007401 dimer interface [polypeptide binding]; other site 375451007402 allosteric magnesium binding site [ion binding]; other site 375451007403 active site 375451007404 aspartate-rich active site metal binding site; other site 375451007405 Schiff base residues; other site 375451007406 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 375451007407 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375451007408 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451007409 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 375451007410 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 375451007411 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 375451007412 active site 375451007413 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 375451007414 pseudouridine synthase; Region: TIGR00093 375451007415 active site 375451007416 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 375451007417 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 375451007418 HflX GTPase family; Region: HflX; cd01878 375451007419 G1 box; other site 375451007420 GTP/Mg2+ binding site [chemical binding]; other site 375451007421 Switch I region; other site 375451007422 G2 box; other site 375451007423 G3 box; other site 375451007424 Switch II region; other site 375451007425 G4 box; other site 375451007426 G5 box; other site 375451007427 bacterial Hfq-like; Region: Hfq; cd01716 375451007428 hexamer interface [polypeptide binding]; other site 375451007429 Sm1 motif; other site 375451007430 RNA binding site [nucleotide binding]; other site 375451007431 Sm2 motif; other site 375451007432 Cation transport protein; Region: TrkH; cl17365 375451007433 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 375451007434 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 375451007435 TrkA-N domain; Region: TrkA_N; pfam02254 375451007436 TrkA-C domain; Region: TrkA_C; pfam02080 375451007437 TrkA-N domain; Region: TrkA_N; pfam02254 375451007438 TrkA-C domain; Region: TrkA_C; pfam02080 375451007439 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451007440 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451007441 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 375451007442 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007443 active site 375451007444 phosphorylation site [posttranslational modification] 375451007445 intermolecular recognition site; other site 375451007446 dimerization interface [polypeptide binding]; other site 375451007447 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 375451007448 Walker A motif; other site 375451007449 ATP binding site [chemical binding]; other site 375451007450 Walker B motif; other site 375451007451 arginine finger; other site 375451007452 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 375451007453 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 375451007454 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 375451007455 dimerization interface [polypeptide binding]; other site 375451007456 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 375451007457 dimer interface [polypeptide binding]; other site 375451007458 phosphorylation site [posttranslational modification] 375451007459 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 375451007460 ATP binding site [chemical binding]; other site 375451007461 Mg2+ binding site [ion binding]; other site 375451007462 G-X-G motif; other site 375451007463 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 375451007464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007465 active site 375451007466 phosphorylation site [posttranslational modification] 375451007467 intermolecular recognition site; other site 375451007468 dimerization interface [polypeptide binding]; other site 375451007469 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 375451007470 Walker A motif; other site 375451007471 ATP binding site [chemical binding]; other site 375451007472 Walker B motif; other site 375451007473 arginine finger; other site 375451007474 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 375451007475 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 375451007476 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 375451007477 dimer interface [polypeptide binding]; other site 375451007478 phosphorylation site [posttranslational modification] 375451007479 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 375451007480 ATP binding site [chemical binding]; other site 375451007481 G-X-G motif; other site 375451007482 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 375451007483 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 375451007484 FMN binding site [chemical binding]; other site 375451007485 active site 375451007486 catalytic residues [active] 375451007487 substrate binding site [chemical binding]; other site 375451007488 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 375451007489 substrate binding site; other site 375451007490 dimer interface; other site 375451007491 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 375451007492 homotrimer interaction site [polypeptide binding]; other site 375451007493 zinc binding site [ion binding]; other site 375451007494 CDP-binding sites; other site 375451007495 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 375451007496 tetramer interfaces [polypeptide binding]; other site 375451007497 binuclear metal-binding site [ion binding]; other site 375451007498 Competence-damaged protein; Region: CinA; pfam02464 375451007499 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 375451007500 putative coenzyme Q binding site [chemical binding]; other site 375451007501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451007502 active site 375451007503 lipoyl synthase; Provisional; Region: PRK05481 375451007504 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 375451007505 FeS/SAM binding site; other site 375451007506 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; cl07055 375451007507 DnaA box-binding interface [nucleotide binding]; other site 375451007508 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 375451007509 GMP synthase; Reviewed; Region: guaA; PRK00074 375451007510 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 375451007511 AMP/PPi binding site [chemical binding]; other site 375451007512 candidate oxyanion hole; other site 375451007513 catalytic triad [active] 375451007514 potential glutamine specificity residues [chemical binding]; other site 375451007515 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 375451007516 ATP Binding subdomain [chemical binding]; other site 375451007517 Ligand Binding sites [chemical binding]; other site 375451007518 Dimerization subdomain; other site 375451007519 EamA-like transporter family; Region: EamA; pfam00892 375451007520 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 375451007521 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 375451007522 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 375451007523 EamA-like transporter family; Region: EamA; pfam00892 375451007524 EamA-like transporter family; Region: EamA; pfam00892 375451007525 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 375451007526 Homoserine O-succinyltransferase; Region: HTS; pfam04204 375451007527 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 375451007528 proposed active site lysine [active] 375451007529 conserved cys residue [active] 375451007530 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375451007531 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 375451007532 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451007533 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451007534 WHG domain; Region: WHG; pfam13305 375451007535 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 375451007536 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 375451007537 salicylate hydroxylase; Provisional; Region: PRK08163 375451007538 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 375451007539 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 375451007540 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 375451007541 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 375451007542 Walker A motif; other site 375451007543 ATP binding site [chemical binding]; other site 375451007544 Walker B motif; other site 375451007545 arginine finger; other site 375451007546 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451007547 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451007548 Coenzyme A binding pocket [chemical binding]; other site 375451007549 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 375451007550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 375451007551 Peptidase family M48; Region: Peptidase_M48; cl12018 375451007552 PIN domain; Region: PIN_3; pfam13470 375451007553 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 375451007554 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 375451007555 putative RNA binding site [nucleotide binding]; other site 375451007556 Methyltransferase domain; Region: Methyltransf_26; pfam13659 375451007557 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 375451007558 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375451007559 metal binding triad; other site 375451007560 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 375451007561 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 375451007562 metal binding triad; other site 375451007563 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 375451007564 RDD family; Region: RDD; pfam06271 375451007565 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 375451007566 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 375451007567 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 375451007568 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451007569 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451007570 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 375451007571 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 375451007572 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451007573 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 375451007574 Histidine kinase; Region: HisKA_3; pfam07730 375451007575 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 375451007576 ATP binding site [chemical binding]; other site 375451007577 Mg2+ binding site [ion binding]; other site 375451007578 G-X-G motif; other site 375451007579 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451007580 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007581 active site 375451007582 phosphorylation site [posttranslational modification] 375451007583 intermolecular recognition site; other site 375451007584 dimerization interface [polypeptide binding]; other site 375451007585 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451007586 DNA binding residues [nucleotide binding] 375451007587 dimerization interface [polypeptide binding]; other site 375451007588 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 375451007589 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451007590 PYR/PP interface [polypeptide binding]; other site 375451007591 dimer interface [polypeptide binding]; other site 375451007592 TPP binding site [chemical binding]; other site 375451007593 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 375451007594 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 375451007595 TPP-binding site [chemical binding]; other site 375451007596 dimer interface [polypeptide binding]; other site 375451007597 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 375451007598 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 375451007599 putative valine binding site [chemical binding]; other site 375451007600 dimer interface [polypeptide binding]; other site 375451007601 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 375451007602 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451007603 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 375451007604 non-specific DNA binding site [nucleotide binding]; other site 375451007605 salt bridge; other site 375451007606 sequence-specific DNA binding site [nucleotide binding]; other site 375451007607 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375451007608 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 375451007609 [2Fe-2S] cluster binding site [ion binding]; other site 375451007610 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 375451007611 alpha subunit interface [polypeptide binding]; other site 375451007612 active site 375451007613 substrate binding site [chemical binding]; other site 375451007614 Fe binding site [ion binding]; other site 375451007615 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 375451007616 peptide chain release factor 2; Validated; Region: prfB; PRK00578 375451007617 This domain is found in peptide chain release factors; Region: PCRF; smart00937 375451007618 RF-1 domain; Region: RF-1; pfam00472 375451007619 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 375451007620 Transglycosylase; Region: Transgly; pfam00912 375451007621 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 375451007622 AMIN domain; Region: AMIN; pfam11741 375451007623 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 375451007624 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 375451007625 active site 375451007626 metal binding site [ion binding]; metal-binding site 375451007627 hypothetical protein; Provisional; Region: PRK08960 375451007628 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 375451007629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451007630 homodimer interface [polypeptide binding]; other site 375451007631 catalytic residue [active] 375451007632 Peptidase family M48; Region: Peptidase_M48; cl12018 375451007633 TPR repeat; Region: TPR_11; pfam13414 375451007634 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 375451007635 TPR motif; other site 375451007636 binding surface 375451007637 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 375451007638 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 375451007639 catalytic residues [active] 375451007640 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 375451007641 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 375451007642 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 375451007643 Helix-turn-helix domain; Region: HTH_25; pfam13413 375451007644 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 375451007645 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375451007646 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 375451007647 substrate-cofactor binding pocket; other site 375451007648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451007649 catalytic residue [active] 375451007650 hypothetical protein; Validated; Region: PRK09104 375451007651 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 375451007652 metal binding site [ion binding]; metal-binding site 375451007653 putative dimer interface [polypeptide binding]; other site 375451007654 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375451007655 Pirin-related protein [General function prediction only]; Region: COG1741 375451007656 Pirin; Region: Pirin; pfam02678 375451007657 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 375451007658 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 375451007659 catalytic core [active] 375451007660 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 375451007661 Putative phosphatase (DUF442); Region: DUF442; cl17385 375451007662 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 375451007663 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 375451007664 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 375451007665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451007666 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 375451007667 dimer interface [polypeptide binding]; other site 375451007668 phosphorylation site [posttranslational modification] 375451007669 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 375451007670 ATP binding site [chemical binding]; other site 375451007671 Mg2+ binding site [ion binding]; other site 375451007672 G-X-G motif; other site 375451007673 Response regulator receiver domain; Region: Response_reg; pfam00072 375451007674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451007675 active site 375451007676 phosphorylation site [posttranslational modification] 375451007677 intermolecular recognition site; other site 375451007678 dimerization interface [polypeptide binding]; other site 375451007679 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451007680 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 375451007681 non-specific DNA binding site [nucleotide binding]; other site 375451007682 salt bridge; other site 375451007683 sequence-specific DNA binding site [nucleotide binding]; other site 375451007684 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 375451007685 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451007686 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 375451007687 putative ligand binding site [chemical binding]; other site 375451007688 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 375451007689 TM-ABC transporter signature motif; other site 375451007690 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451007691 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 375451007692 TM-ABC transporter signature motif; other site 375451007693 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451007694 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451007695 Walker A/P-loop; other site 375451007696 ATP binding site [chemical binding]; other site 375451007697 Q-loop/lid; other site 375451007698 ABC transporter signature motif; other site 375451007699 Walker B; other site 375451007700 D-loop; other site 375451007701 H-loop/switch region; other site 375451007702 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451007703 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451007704 Walker A/P-loop; other site 375451007705 ATP binding site [chemical binding]; other site 375451007706 Q-loop/lid; other site 375451007707 ABC transporter signature motif; other site 375451007708 Walker B; other site 375451007709 D-loop; other site 375451007710 H-loop/switch region; other site 375451007711 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 375451007712 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 375451007713 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 375451007714 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451007715 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 375451007716 acyl-activating enzyme (AAE) consensus motif; other site 375451007717 acyl-activating enzyme (AAE) consensus motif; other site 375451007718 putative AMP binding site [chemical binding]; other site 375451007719 putative active site [active] 375451007720 putative CoA binding site [chemical binding]; other site 375451007721 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 375451007722 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 375451007723 carboxyltransferase (CT) interaction site; other site 375451007724 biotinylation site [posttranslational modification]; other site 375451007725 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 375451007726 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451007727 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 375451007728 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 375451007729 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 375451007730 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 375451007731 mce related protein; Region: MCE; pfam02470 375451007732 NADH dehydrogenase; Validated; Region: PRK08183 375451007733 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 375451007734 homotrimer interaction site [polypeptide binding]; other site 375451007735 putative active site [active] 375451007736 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 375451007737 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 375451007738 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 375451007739 Walker A motif; other site 375451007740 ATP binding site [chemical binding]; other site 375451007741 Walker B motif; other site 375451007742 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 375451007743 Clp protease; Region: CLP_protease; pfam00574 375451007744 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 375451007745 oligomer interface [polypeptide binding]; other site 375451007746 active site residues [active] 375451007747 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 375451007748 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451007749 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451007750 Walker A/P-loop; other site 375451007751 ATP binding site [chemical binding]; other site 375451007752 Q-loop/lid; other site 375451007753 ABC transporter signature motif; other site 375451007754 Walker B; other site 375451007755 D-loop; other site 375451007756 H-loop/switch region; other site 375451007757 TOBE domain; Region: TOBE_2; pfam08402 375451007758 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375451007759 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 375451007760 Bacterial transcriptional regulator; Region: IclR; pfam01614 375451007761 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451007762 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451007763 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 375451007764 dimer interface [polypeptide binding]; other site 375451007765 conserved gate region; other site 375451007766 putative PBP binding loops; other site 375451007767 ABC-ATPase subunit interface; other site 375451007768 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451007769 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 375451007770 dimer interface [polypeptide binding]; other site 375451007771 conserved gate region; other site 375451007772 putative PBP binding loops; other site 375451007773 ABC-ATPase subunit interface; other site 375451007774 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 375451007775 Melibiase; Region: Melibiase; pfam02065 375451007776 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 375451007777 classical (c) SDRs; Region: SDR_c; cd05233 375451007778 NAD(P) binding site [chemical binding]; other site 375451007779 active site 375451007780 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 375451007781 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 375451007782 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 375451007783 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 375451007784 active site 375451007785 intersubunit interface [polypeptide binding]; other site 375451007786 catalytic residue [active] 375451007787 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 375451007788 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 375451007789 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 375451007790 phosphoglucomutase; Region: PLN02307 375451007791 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 375451007792 active site 375451007793 substrate binding site [chemical binding]; other site 375451007794 metal binding site [ion binding]; metal-binding site 375451007795 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 375451007796 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 375451007797 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 375451007798 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 375451007799 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 375451007800 active site 375451007801 catalytic site [active] 375451007802 glycogen synthase; Provisional; Region: glgA; PRK00654 375451007803 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 375451007804 ADP-binding pocket [chemical binding]; other site 375451007805 homodimer interface [polypeptide binding]; other site 375451007806 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 375451007807 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 375451007808 ligand binding site; other site 375451007809 oligomer interface; other site 375451007810 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 375451007811 dimer interface [polypeptide binding]; other site 375451007812 N-terminal domain interface [polypeptide binding]; other site 375451007813 sulfate 1 binding site; other site 375451007814 glycogen branching enzyme; Provisional; Region: PRK05402 375451007815 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 375451007816 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 375451007817 active site 375451007818 catalytic site [active] 375451007819 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 375451007820 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 375451007821 homodimer interface [polypeptide binding]; other site 375451007822 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 375451007823 active site pocket [active] 375451007824 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451007825 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 375451007826 putative substrate binding site [chemical binding]; other site 375451007827 putative ATP binding site [chemical binding]; other site 375451007828 Entner-Doudoroff aldolase; Region: eda; TIGR01182 375451007829 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 375451007830 active site 375451007831 intersubunit interface [polypeptide binding]; other site 375451007832 catalytic residue [active] 375451007833 phosphogluconate dehydratase; Validated; Region: PRK09054 375451007834 6-phosphogluconate dehydratase; Region: edd; TIGR01196 375451007835 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 375451007836 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 375451007837 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 375451007838 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 375451007839 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 375451007840 putative active site [active] 375451007841 metal binding site [ion binding]; metal-binding site 375451007842 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 375451007843 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 375451007844 N- and C-terminal domain interface [polypeptide binding]; other site 375451007845 active site 375451007846 MgATP binding site [chemical binding]; other site 375451007847 catalytic site [active] 375451007848 metal binding site [ion binding]; metal-binding site 375451007849 glycerol binding site [chemical binding]; other site 375451007850 homotetramer interface [polypeptide binding]; other site 375451007851 homodimer interface [polypeptide binding]; other site 375451007852 FBP binding site [chemical binding]; other site 375451007853 protein IIAGlc interface [polypeptide binding]; other site 375451007854 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 375451007855 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 375451007856 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 375451007857 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 375451007858 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 375451007859 G1 box; other site 375451007860 GTP/Mg2+ binding site [chemical binding]; other site 375451007861 G2 box; other site 375451007862 Switch I region; other site 375451007863 G3 box; other site 375451007864 Switch II region; other site 375451007865 G4 box; other site 375451007866 G5 box; other site 375451007867 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 375451007868 G1 box; other site 375451007869 GTP/Mg2+ binding site [chemical binding]; other site 375451007870 G2 box; other site 375451007871 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 375451007872 G3 box; other site 375451007873 Switch II region; other site 375451007874 GTP/Mg2+ binding site [chemical binding]; other site 375451007875 G4 box; other site 375451007876 G5 box; other site 375451007877 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 375451007878 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 375451007879 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 375451007880 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 375451007881 dimer interface [polypeptide binding]; other site 375451007882 active site 375451007883 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375451007884 substrate binding site [chemical binding]; other site 375451007885 catalytic residue [active] 375451007886 serine racemase; Region: PLN02970 375451007887 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 375451007888 tetramer interface [polypeptide binding]; other site 375451007889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451007890 catalytic residue [active] 375451007891 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 375451007892 homodimer interface [polypeptide binding]; other site 375451007893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451007894 catalytic residue [active] 375451007895 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 375451007896 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375451007897 Bacterial transcriptional regulator; Region: IclR; pfam01614 375451007898 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451007899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451007900 DNA-binding site [nucleotide binding]; DNA binding site 375451007901 FCD domain; Region: FCD; pfam07729 375451007902 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 375451007903 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 375451007904 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 375451007905 Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]; Region: FwdB; COG1029 375451007906 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 375451007907 [4Fe-4S] binding site [ion binding]; other site 375451007908 molybdopterin cofactor binding site; other site 375451007909 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 375451007910 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 375451007911 molybdopterin cofactor binding site; other site 375451007912 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 375451007913 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 375451007914 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 375451007915 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 375451007916 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 375451007917 Cytochrome c; Region: Cytochrom_C; pfam00034 375451007918 Domain of unknown function DUF59; Region: DUF59; pfam01883 375451007919 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 375451007920 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 375451007921 Walker A motif; other site 375451007922 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 375451007923 PBP superfamily domain; Region: PBP_like_2; pfam12849 375451007924 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 375451007925 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 375451007926 Walker A/P-loop; other site 375451007927 ATP binding site [chemical binding]; other site 375451007928 Q-loop/lid; other site 375451007929 ABC transporter signature motif; other site 375451007930 Walker B; other site 375451007931 D-loop; other site 375451007932 H-loop/switch region; other site 375451007933 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 375451007934 dimer interface [polypeptide binding]; other site 375451007935 conserved gate region; other site 375451007936 putative PBP binding loops; other site 375451007937 ABC-ATPase subunit interface; other site 375451007938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 375451007939 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 375451007940 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451007941 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375451007942 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 375451007943 dimer interface [polypeptide binding]; other site 375451007944 conserved gate region; other site 375451007945 putative PBP binding loops; other site 375451007946 ABC-ATPase subunit interface; other site 375451007947 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 375451007948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451007949 Walker A/P-loop; other site 375451007950 ATP binding site [chemical binding]; other site 375451007951 Q-loop/lid; other site 375451007952 ABC transporter signature motif; other site 375451007953 Walker B; other site 375451007954 D-loop; other site 375451007955 H-loop/switch region; other site 375451007956 TOBE domain; Region: TOBE; cl01440 375451007957 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 375451007958 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 375451007959 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 375451007960 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 375451007961 acyl-activating enzyme (AAE) consensus motif; other site 375451007962 acyl-activating enzyme (AAE) consensus motif; other site 375451007963 putative AMP binding site [chemical binding]; other site 375451007964 putative active site [active] 375451007965 putative CoA binding site [chemical binding]; other site 375451007966 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 375451007967 putative catalytic cysteine [active] 375451007968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375451007969 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375451007970 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 375451007971 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451007972 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451007973 DNA binding site [nucleotide binding] 375451007974 domain linker motif; other site 375451007975 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 375451007976 putative dimerization interface [polypeptide binding]; other site 375451007977 putative ligand binding site [chemical binding]; other site 375451007978 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 375451007979 Acyl transferase domain; Region: Acyl_transf_1; cl08282 375451007980 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 375451007981 tetramer interface [polypeptide binding]; other site 375451007982 TPP-binding site [chemical binding]; other site 375451007983 heterodimer interface [polypeptide binding]; other site 375451007984 phosphorylation loop region [posttranslational modification] 375451007985 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 375451007986 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 375451007987 alpha subunit interface [polypeptide binding]; other site 375451007988 TPP binding site [chemical binding]; other site 375451007989 heterodimer interface [polypeptide binding]; other site 375451007990 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375451007991 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 375451007992 Double zinc ribbon; Region: DZR; pfam12773 375451007993 TOMM system kinase/cyclase fusion protein; Region: TOMM_kin_cyc; TIGR03903 375451007994 cyclase homology domain; Region: CHD; cd07302 375451007995 nucleotidyl binding site; other site 375451007996 metal binding site [ion binding]; metal-binding site 375451007997 dimer interface [polypeptide binding]; other site 375451007998 AAA ATPase domain; Region: AAA_16; pfam13191 375451007999 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 375451008000 TPR motif; other site 375451008001 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 375451008002 Patatin-like phospholipase; Region: Patatin; pfam01734 375451008003 active site 375451008004 nucleophile elbow; other site 375451008005 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 375451008006 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 375451008007 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451008008 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 375451008009 dimer interface [polypeptide binding]; other site 375451008010 conserved gate region; other site 375451008011 putative PBP binding loops; other site 375451008012 ABC-ATPase subunit interface; other site 375451008013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451008014 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 375451008015 Walker A/P-loop; other site 375451008016 ATP binding site [chemical binding]; other site 375451008017 Q-loop/lid; other site 375451008018 ABC transporter signature motif; other site 375451008019 Walker B; other site 375451008020 D-loop; other site 375451008021 H-loop/switch region; other site 375451008022 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 375451008023 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 375451008024 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 375451008025 glucuronate isomerase; Reviewed; Region: PRK02925 375451008026 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 375451008027 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451008028 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 375451008029 dimer interface [polypeptide binding]; other site 375451008030 conserved gate region; other site 375451008031 putative PBP binding loops; other site 375451008032 ABC-ATPase subunit interface; other site 375451008033 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451008034 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451008035 Walker A/P-loop; other site 375451008036 ATP binding site [chemical binding]; other site 375451008037 Q-loop/lid; other site 375451008038 ABC transporter signature motif; other site 375451008039 Walker B; other site 375451008040 D-loop; other site 375451008041 H-loop/switch region; other site 375451008042 TOBE domain; Region: TOBE_2; pfam08402 375451008043 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451008044 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 375451008045 dimer interface [polypeptide binding]; other site 375451008046 conserved gate region; other site 375451008047 putative PBP binding loops; other site 375451008048 ABC-ATPase subunit interface; other site 375451008049 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 375451008050 putative PBP binding loops; other site 375451008051 dimer interface [polypeptide binding]; other site 375451008052 ABC-ATPase subunit interface; other site 375451008053 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451008054 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451008055 Cyclic phosphodiesterase-like protein; Region: CPDase; pfam07823 375451008056 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 375451008057 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 375451008058 dimer interface [polypeptide binding]; other site 375451008059 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451008060 catalytic residue [active] 375451008061 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451008062 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 375451008063 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451008064 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 375451008065 dimer interface [polypeptide binding]; other site 375451008066 phosphorylation site [posttranslational modification] 375451008067 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 375451008068 ATP binding site [chemical binding]; other site 375451008069 Mg2+ binding site [ion binding]; other site 375451008070 G-X-G motif; other site 375451008071 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451008072 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451008073 active site 375451008074 phosphorylation site [posttranslational modification] 375451008075 intermolecular recognition site; other site 375451008076 dimerization interface [polypeptide binding]; other site 375451008077 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 375451008078 DNA binding site [nucleotide binding] 375451008079 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 375451008080 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 375451008081 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 375451008082 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 375451008083 Found in ATP-dependent protease La (LON); Region: LON; smart00464 375451008084 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 375451008085 Walker A motif; other site 375451008086 ATP binding site [chemical binding]; other site 375451008087 Walker B motif; other site 375451008088 arginine finger; other site 375451008089 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 375451008090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451008091 putative CheW interface [polypeptide binding]; other site 375451008092 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 375451008093 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 375451008094 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 375451008095 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 375451008096 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 375451008097 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 375451008098 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 375451008099 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 375451008100 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451008101 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 375451008102 maltose O-acetyltransferase; Provisional; Region: PRK10092 375451008103 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 375451008104 active site 375451008105 substrate binding site [chemical binding]; other site 375451008106 trimer interface [polypeptide binding]; other site 375451008107 CoA binding site [chemical binding]; other site 375451008108 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 375451008109 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 375451008110 triosephosphate isomerase; Provisional; Region: PRK14565 375451008111 substrate binding site [chemical binding]; other site 375451008112 dimer interface [polypeptide binding]; other site 375451008113 catalytic triad [active] 375451008114 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 375451008115 Cytochrome P450; Region: p450; cl12078 375451008116 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451008117 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 375451008118 putative DNA binding site [nucleotide binding]; other site 375451008119 putative Zn2+ binding site [ion binding]; other site 375451008120 AsnC family; Region: AsnC_trans_reg; pfam01037 375451008121 siroheme synthase; Provisional; Region: cysG; PRK10637 375451008122 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 375451008123 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375451008124 active site 375451008125 SAM binding site [chemical binding]; other site 375451008126 homodimer interface [polypeptide binding]; other site 375451008127 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 375451008128 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 375451008129 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375451008130 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375451008131 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 375451008132 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 375451008133 Active Sites [active] 375451008134 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 375451008135 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375451008136 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 375451008137 FAD binding pocket [chemical binding]; other site 375451008138 FAD binding motif [chemical binding]; other site 375451008139 phosphate binding motif [ion binding]; other site 375451008140 beta-alpha-beta structure motif; other site 375451008141 NAD binding pocket [chemical binding]; other site 375451008142 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 375451008143 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 375451008144 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 375451008145 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 375451008146 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 375451008147 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375451008148 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451008149 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451008150 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375451008151 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 375451008152 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375451008153 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 375451008154 putative MPT binding site; other site 375451008155 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 375451008156 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 375451008157 XdhC Rossmann domain; Region: XdhC_C; pfam13478 375451008158 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 375451008159 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 375451008160 putative GSH binding site [chemical binding]; other site 375451008161 catalytic residues [active] 375451008162 Cell division protein ZapA; Region: ZapA; pfam05164 375451008163 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 375451008164 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 375451008165 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 375451008166 TPP-binding site [chemical binding]; other site 375451008167 dimer interface [polypeptide binding]; other site 375451008168 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 375451008169 PYR/PP interface [polypeptide binding]; other site 375451008170 dimer interface [polypeptide binding]; other site 375451008171 TPP binding site [chemical binding]; other site 375451008172 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375451008173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 375451008174 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 375451008175 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 375451008176 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 375451008177 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 375451008178 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 375451008179 active site 375451008180 (T/H)XGH motif; other site 375451008181 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 375451008182 FOG: CBS domain [General function prediction only]; Region: COG0517 375451008183 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451008184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451008185 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375451008186 dimerization interface [polypeptide binding]; other site 375451008187 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 375451008188 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 375451008189 tetrameric interface [polypeptide binding]; other site 375451008190 NAD binding site [chemical binding]; other site 375451008191 catalytic residues [active] 375451008192 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 375451008193 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 375451008194 substrate binding site [chemical binding]; other site 375451008195 oxyanion hole (OAH) forming residues; other site 375451008196 trimer interface [polypeptide binding]; other site 375451008197 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 375451008198 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451008199 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 375451008200 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 375451008201 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 375451008202 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 375451008203 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 375451008204 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 375451008205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451008206 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451008207 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375451008208 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 375451008209 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 375451008210 putative MFS family transporter protein; Provisional; Region: PRK03633 375451008211 putative substrate translocation pore; other site 375451008212 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 375451008213 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 375451008214 Protein of unknown function; Region: DUF3971; pfam13116 375451008215 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 375451008216 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 375451008217 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 375451008218 catalytic triad [active] 375451008219 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 375451008220 dinuclear metal binding motif [ion binding]; other site 375451008221 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 375451008222 Peptidase family M23; Region: Peptidase_M23; pfam01551 375451008223 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 375451008224 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 375451008225 active site 375451008226 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 375451008227 active site 375451008228 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 375451008229 Phosphoglycerate kinase; Region: PGK; pfam00162 375451008230 substrate binding site [chemical binding]; other site 375451008231 hinge regions; other site 375451008232 ADP binding site [chemical binding]; other site 375451008233 catalytic site [active] 375451008234 Septum formation initiator; Region: DivIC; cl17659 375451008235 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 375451008236 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 375451008237 tetramer interface [polypeptide binding]; other site 375451008238 TPP-binding site [chemical binding]; other site 375451008239 heterodimer interface [polypeptide binding]; other site 375451008240 phosphorylation loop region [posttranslational modification] 375451008241 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 375451008242 E3 interaction surface; other site 375451008243 lipoyl attachment site [posttranslational modification]; other site 375451008244 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 375451008245 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 375451008246 alpha subunit interface [polypeptide binding]; other site 375451008247 TPP binding site [chemical binding]; other site 375451008248 heterodimer interface [polypeptide binding]; other site 375451008249 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 375451008250 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 375451008251 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 375451008252 E3 interaction surface; other site 375451008253 lipoyl attachment site [posttranslational modification]; other site 375451008254 e3 binding domain; Region: E3_binding; pfam02817 375451008255 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 375451008256 serine acetyltransferase; Provisional; Region: cysE; PRK11132 375451008257 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 375451008258 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 375451008259 trimer interface [polypeptide binding]; other site 375451008260 active site 375451008261 substrate binding site [chemical binding]; other site 375451008262 CoA binding site [chemical binding]; other site 375451008263 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 375451008264 Putative phage tail protein; Region: Phage-tail_3; pfam13550 375451008265 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 375451008266 NlpC/P60 family; Region: NLPC_P60; cl17555 375451008267 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 375451008268 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 375451008269 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 375451008270 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 375451008271 Phage-related minor tail protein [Function unknown]; Region: COG5281 375451008272 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; pfam09550 375451008273 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 375451008274 Phage major tail protein 2; Region: Phage_tail_2; cl11463 375451008275 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 375451008276 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 375451008277 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 375451008278 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 375451008279 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 375451008280 oligomerization interface [polypeptide binding]; other site 375451008281 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 375451008282 Phage capsid family; Region: Phage_capsid; pfam05065 375451008283 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 375451008284 Phage-related protein [Function unknown]; Region: COG4695 375451008285 Phage portal protein; Region: Phage_portal; pfam04860 375451008286 Uncharacterized conserved protein [Function unknown]; Region: COG5323 375451008287 YceG-like family; Region: YceG; pfam02618 375451008288 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 375451008289 dimerization interface [polypeptide binding]; other site 375451008290 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 375451008291 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 375451008292 dimer interface [polypeptide binding]; other site 375451008293 active site 375451008294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451008295 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375451008296 acyl carrier protein; Provisional; Region: acpP; PRK00982 375451008297 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 375451008298 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 375451008299 NAD(P) binding site [chemical binding]; other site 375451008300 homotetramer interface [polypeptide binding]; other site 375451008301 homodimer interface [polypeptide binding]; other site 375451008302 active site 375451008303 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 375451008304 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 375451008305 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 375451008306 YceI-like domain; Region: YceI; pfam04264 375451008307 YceI-like domain; Region: YceI; smart00867 375451008308 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 375451008309 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 375451008310 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 375451008311 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 375451008312 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 375451008313 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 375451008314 diiron binding motif [ion binding]; other site 375451008315 aquaporin Z; Provisional; Region: PRK05420 375451008316 amphipathic channel; other site 375451008317 Asn-Pro-Ala signature motifs; other site 375451008318 trigger factor; Provisional; Region: tig; PRK01490 375451008319 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375451008320 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 375451008321 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451008322 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451008323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451008324 Walker A/P-loop; other site 375451008325 ATP binding site [chemical binding]; other site 375451008326 Q-loop/lid; other site 375451008327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451008328 Walker B; other site 375451008329 D-loop; other site 375451008330 H-loop/switch region; other site 375451008331 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451008332 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 375451008333 ligand binding site [chemical binding]; other site 375451008334 flexible hinge region; other site 375451008335 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 375451008336 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 375451008337 S-adenosylmethionine binding site [chemical binding]; other site 375451008338 exopolyphosphatase; Region: exo_poly_only; TIGR03706 375451008339 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 375451008340 Virulence factor; Region: Virulence_fact; pfam13769 375451008341 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 375451008342 FAD binding site [chemical binding]; other site 375451008343 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 375451008344 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 375451008345 substrate binding pocket [chemical binding]; other site 375451008346 dimer interface [polypeptide binding]; other site 375451008347 inhibitor binding site; inhibition site 375451008348 Response regulator receiver domain; Region: Response_reg; pfam00072 375451008349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451008350 active site 375451008351 phosphorylation site [posttranslational modification] 375451008352 intermolecular recognition site; other site 375451008353 dimerization interface [polypeptide binding]; other site 375451008354 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 375451008355 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 375451008356 putative binding surface; other site 375451008357 active site 375451008358 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 375451008359 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 375451008360 ATP binding site [chemical binding]; other site 375451008361 Mg2+ binding site [ion binding]; other site 375451008362 G-X-G motif; other site 375451008363 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 375451008364 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 375451008365 putative CheA interaction surface; other site 375451008366 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 375451008367 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 375451008368 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 375451008369 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375451008370 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451008371 active site 375451008372 phosphorylation site [posttranslational modification] 375451008373 intermolecular recognition site; other site 375451008374 dimerization interface [polypeptide binding]; other site 375451008375 HTH-like domain; Region: HTH_21; pfam13276 375451008376 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451008377 Integrase core domain; Region: rve; pfam00665 375451008378 Integrase core domain; Region: rve_3; pfam13683 375451008379 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451008380 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 375451008381 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 375451008382 Int/Topo IB signature motif; other site 375451008383 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451008384 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 375451008385 non-specific DNA binding site [nucleotide binding]; other site 375451008386 salt bridge; other site 375451008387 sequence-specific DNA binding site [nucleotide binding]; other site 375451008388 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 375451008389 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 375451008390 N- and C-terminal domain interface [polypeptide binding]; other site 375451008391 putative active site [active] 375451008392 putative MgATP binding site [chemical binding]; other site 375451008393 putative catalytic site [active] 375451008394 metal binding site [ion binding]; metal-binding site 375451008395 putative carbohydrate binding site [chemical binding]; other site 375451008396 Domain of unknown function (DUF718); Region: DUF718; pfam05336 375451008397 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451008398 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451008399 TM-ABC transporter signature motif; other site 375451008400 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451008401 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 375451008402 TM-ABC transporter signature motif; other site 375451008403 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 375451008404 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451008405 Walker A/P-loop; other site 375451008406 ATP binding site [chemical binding]; other site 375451008407 Q-loop/lid; other site 375451008408 ABC transporter signature motif; other site 375451008409 Walker B; other site 375451008410 D-loop; other site 375451008411 H-loop/switch region; other site 375451008412 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375451008413 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 375451008414 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 375451008415 ligand binding site [chemical binding]; other site 375451008416 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 375451008417 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 375451008418 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 375451008419 short chain dehydrogenase; Validated; Region: PRK08324 375451008420 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 375451008421 active site 375451008422 Zn2+ binding site [ion binding]; other site 375451008423 intersubunit interface [polypeptide binding]; other site 375451008424 rhamnulose-1-phosphate aldolase/alcohol dehydrogenase, classical (c) SDRs; Region: R1PA_ADH_SDR_c; cd08943 375451008425 putative NAD(P) binding site [chemical binding]; other site 375451008426 active site 375451008427 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 375451008428 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 375451008429 Cache domain; Region: Cache_1; pfam02743 375451008430 PAS domain; Region: PAS_9; pfam13426 375451008431 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 375451008432 putative active site [active] 375451008433 heme pocket [chemical binding]; other site 375451008434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451008435 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 375451008436 ATP binding site [chemical binding]; other site 375451008437 Mg2+ binding site [ion binding]; other site 375451008438 G-X-G motif; other site 375451008439 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 375451008440 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451008441 active site 375451008442 phosphorylation site [posttranslational modification] 375451008443 intermolecular recognition site; other site 375451008444 dimerization interface [polypeptide binding]; other site 375451008445 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451008446 DNA binding residues [nucleotide binding] 375451008447 dimerization interface [polypeptide binding]; other site 375451008448 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 375451008449 active site 375451008450 dimer interface [polypeptide binding]; other site 375451008451 metal binding site [ion binding]; metal-binding site 375451008452 shikimate kinase; Provisional; Region: PRK13946 375451008453 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 375451008454 ADP binding site [chemical binding]; other site 375451008455 magnesium binding site [ion binding]; other site 375451008456 putative shikimate binding site; other site 375451008457 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 375451008458 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 375451008459 active site 375451008460 DNA binding site [nucleotide binding] 375451008461 Int/Topo IB signature motif; other site 375451008462 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 375451008463 Domain of unknown function DUF21; Region: DUF21; pfam01595 375451008464 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 375451008465 Transporter associated domain; Region: CorC_HlyC; smart01091 375451008466 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451008467 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451008468 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451008469 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 375451008470 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451008471 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 375451008472 Predicted membrane protein [Function unknown]; Region: COG4325 375451008473 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 375451008474 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451008475 NMT1/THI5 like; Region: NMT1; pfam09084 375451008476 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 375451008477 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451008478 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 375451008479 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451008480 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 375451008481 dimer interface [polypeptide binding]; other site 375451008482 conserved gate region; other site 375451008483 putative PBP binding loops; other site 375451008484 ABC-ATPase subunit interface; other site 375451008485 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451008486 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375451008487 Walker A/P-loop; other site 375451008488 ATP binding site [chemical binding]; other site 375451008489 Q-loop/lid; other site 375451008490 ABC transporter signature motif; other site 375451008491 Walker B; other site 375451008492 D-loop; other site 375451008493 H-loop/switch region; other site 375451008494 phenylhydantoinase; Validated; Region: PRK08323 375451008495 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 375451008496 tetramer interface [polypeptide binding]; other site 375451008497 active site 375451008498 allantoate amidohydrolase; Reviewed; Region: PRK12893 375451008499 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 375451008500 active site 375451008501 metal binding site [ion binding]; metal-binding site 375451008502 dimer interface [polypeptide binding]; other site 375451008503 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451008504 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451008505 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 375451008506 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 375451008507 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 375451008508 homodimer interface [polypeptide binding]; other site 375451008509 active site 375451008510 FMN binding site [chemical binding]; other site 375451008511 substrate binding site [chemical binding]; other site 375451008512 4Fe-4S binding domain; Region: Fer4; pfam00037 375451008513 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 375451008514 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 375451008515 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451008516 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451008517 CheB methylesterase; Region: CheB_methylest; pfam01339 375451008518 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 375451008519 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 375451008520 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 375451008521 PAS domain; Region: PAS_9; pfam13426 375451008522 PAS fold; Region: PAS_3; pfam08447 375451008523 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 375451008524 putative active site [active] 375451008525 heme pocket [chemical binding]; other site 375451008526 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 375451008527 active site 375451008528 catalytic residues [active] 375451008529 TfoX C-terminal domain; Region: TfoX_C; pfam04994 375451008530 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 375451008531 active site 375451008532 multimer interface [polypeptide binding]; other site 375451008533 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 375451008534 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451008535 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451008536 ABC transporter; Region: ABC_tran_2; pfam12848 375451008537 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451008538 V4R domain; Region: V4R; cl15268 375451008539 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 375451008540 Predicted aspartyl protease [General function prediction only]; Region: COG3577 375451008541 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 375451008542 catalytic motif [active] 375451008543 Catalytic residue [active] 375451008544 DNA polymerase III subunit chi; Validated; Region: PRK05728 375451008545 multifunctional aminopeptidase A; Provisional; Region: PRK00913 375451008546 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 375451008547 interface (dimer of trimers) [polypeptide binding]; other site 375451008548 Substrate-binding/catalytic site; other site 375451008549 Zn-binding sites [ion binding]; other site 375451008550 Predicted permeases [General function prediction only]; Region: COG0795 375451008551 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 375451008552 Predicted permeases [General function prediction only]; Region: COG0795 375451008553 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 375451008554 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 375451008555 Organic solvent tolerance protein; Region: OstA_C; pfam04453 375451008556 SurA N-terminal domain; Region: SurA_N; pfam09312 375451008557 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 375451008558 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 375451008559 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 375451008560 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 375451008561 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 375451008562 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 375451008563 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 375451008564 S-adenosylmethionine binding site [chemical binding]; other site 375451008565 peptide chain release factor 1; Validated; Region: prfA; PRK00591 375451008566 This domain is found in peptide chain release factors; Region: PCRF; smart00937 375451008567 RF-1 domain; Region: RF-1; pfam00472 375451008568 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 375451008569 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 375451008570 agmatinase; Region: agmatinase; TIGR01230 375451008571 oligomer interface [polypeptide binding]; other site 375451008572 putative active site [active] 375451008573 Mn binding site [ion binding]; other site 375451008574 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 375451008575 agmatinase; Region: agmatinase; TIGR01230 375451008576 oligomer interface [polypeptide binding]; other site 375451008577 putative active site [active] 375451008578 Mn binding site [ion binding]; other site 375451008579 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 375451008580 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 375451008581 metal binding site [ion binding]; metal-binding site 375451008582 putative dimer interface [polypeptide binding]; other site 375451008583 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 375451008584 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 375451008585 homodimer interface [polypeptide binding]; other site 375451008586 metal binding site [ion binding]; metal-binding site 375451008587 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 375451008588 homodimer interface [polypeptide binding]; other site 375451008589 active site 375451008590 putative chemical substrate binding site [chemical binding]; other site 375451008591 metal binding site [ion binding]; metal-binding site 375451008592 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 375451008593 active site 375451008594 tetramer interface [polypeptide binding]; other site 375451008595 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375451008596 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375451008597 Coenzyme A binding pocket [chemical binding]; other site 375451008598 Uncharacterized conserved protein [Function unknown]; Region: COG0397 375451008599 hypothetical protein; Validated; Region: PRK00029 375451008600 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451008601 EamA-like transporter family; Region: EamA; pfam00892 375451008602 EamA-like transporter family; Region: EamA; pfam00892 375451008603 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 375451008604 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375451008605 ATP binding site [chemical binding]; other site 375451008606 Mg++ binding site [ion binding]; other site 375451008607 motif III; other site 375451008608 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 375451008609 nucleotide binding region [chemical binding]; other site 375451008610 ATP-binding site [chemical binding]; other site 375451008611 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 375451008612 metal binding site 2 [ion binding]; metal-binding site 375451008613 putative DNA binding helix; other site 375451008614 metal binding site 1 [ion binding]; metal-binding site 375451008615 dimer interface [polypeptide binding]; other site 375451008616 structural Zn2+ binding site [ion binding]; other site 375451008617 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451008618 enolase; Provisional; Region: eno; PRK00077 375451008619 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 375451008620 dimer interface [polypeptide binding]; other site 375451008621 metal binding site [ion binding]; metal-binding site 375451008622 substrate binding pocket [chemical binding]; other site 375451008623 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 375451008624 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451008625 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451008626 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 375451008627 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 375451008628 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 375451008629 active site 375451008630 HIGH motif; other site 375451008631 dimer interface [polypeptide binding]; other site 375451008632 KMSKS motif; other site 375451008633 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375451008634 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 375451008635 NAD binding site [chemical binding]; other site 375451008636 homodimer interface [polypeptide binding]; other site 375451008637 homotetramer interface [polypeptide binding]; other site 375451008638 active site 375451008639 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 375451008640 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451008641 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 375451008642 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 375451008643 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 375451008644 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 375451008645 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 375451008646 putative phosphate acyltransferase; Provisional; Region: PRK05331 375451008647 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 375451008648 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 375451008649 dimer interface [polypeptide binding]; other site 375451008650 active site 375451008651 CoA binding pocket [chemical binding]; other site 375451008652 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 375451008653 IHF dimer interface [polypeptide binding]; other site 375451008654 IHF - DNA interface [nucleotide binding]; other site 375451008655 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 375451008656 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 375451008657 DNA binding residues [nucleotide binding] 375451008658 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 375451008659 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 375451008660 trimer interface [polypeptide binding]; other site 375451008661 active site 375451008662 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 375451008663 trimer interface [polypeptide binding]; other site 375451008664 active site 375451008665 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 375451008666 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 375451008667 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 375451008668 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 375451008669 Sporulation related domain; Region: SPOR; pfam05036 375451008670 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 375451008671 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 375451008672 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 375451008673 active site 375451008674 HIGH motif; other site 375451008675 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451008676 KMSK motif region; other site 375451008677 tRNA binding surface [nucleotide binding]; other site 375451008678 DALR anticodon binding domain; Region: DALR_1; smart00836 375451008679 anticodon binding site; other site 375451008680 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 375451008681 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 375451008682 Zn2+ binding site [ion binding]; other site 375451008683 Mg2+ binding site [ion binding]; other site 375451008684 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 375451008685 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 375451008686 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 375451008687 putative catalytic site [active] 375451008688 putative phosphate binding site [ion binding]; other site 375451008689 active site 375451008690 metal binding site A [ion binding]; metal-binding site 375451008691 DNA binding site [nucleotide binding] 375451008692 putative AP binding site [nucleotide binding]; other site 375451008693 putative metal binding site B [ion binding]; other site 375451008694 Protein of unknown function (DUF533); Region: DUF533; pfam04391 375451008695 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 375451008696 putative metal binding site [ion binding]; other site 375451008697 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 375451008698 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 375451008699 active site 375451008700 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 375451008701 Predicted esterase [General function prediction only]; Region: COG0400 375451008702 putative hydrolase; Provisional; Region: PRK11460 375451008703 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 375451008704 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 375451008705 helix-hairpin-helix signature motif; other site 375451008706 substrate binding pocket [chemical binding]; other site 375451008707 active site 375451008708 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 375451008709 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 375451008710 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451008711 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 375451008712 putative substrate translocation pore; other site 375451008713 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 375451008714 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 375451008715 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 375451008716 active site 375451008717 catalytic residues [active] 375451008718 metal binding site [ion binding]; metal-binding site 375451008719 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 375451008720 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 375451008721 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 375451008722 active site 375451008723 HIGH motif; other site 375451008724 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 375451008725 KMSKS motif; other site 375451008726 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 375451008727 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 375451008728 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 375451008729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451008730 homodimer interface [polypeptide binding]; other site 375451008731 catalytic residue [active] 375451008732 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 375451008733 EF-hand domain pair; Region: EF_hand_5; pfam13499 375451008734 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 375451008735 Ca2+ binding site [ion binding]; other site 375451008736 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 375451008737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451008738 Coenzyme A binding pocket [chemical binding]; other site 375451008739 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 375451008740 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 375451008741 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 375451008742 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 375451008743 active site 375451008744 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 375451008745 TSCPD domain; Region: TSCPD; pfam12637 375451008746 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 375451008747 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451008748 DNA-binding site [nucleotide binding]; DNA binding site 375451008749 RNA-binding motif; other site 375451008750 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 375451008751 DNA-binding site [nucleotide binding]; DNA binding site 375451008752 RNA-binding motif; other site 375451008753 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 375451008754 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 375451008755 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 375451008756 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 375451008757 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 375451008758 NAD binding site [chemical binding]; other site 375451008759 homotetramer interface [polypeptide binding]; other site 375451008760 homodimer interface [polypeptide binding]; other site 375451008761 substrate binding site [chemical binding]; other site 375451008762 active site 375451008763 LysE type translocator; Region: LysE; cl00565 375451008764 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451008765 active site 375451008766 hypothetical protein; Provisional; Region: PRK07550 375451008767 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 375451008768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451008769 homodimer interface [polypeptide binding]; other site 375451008770 catalytic residue [active] 375451008771 SurA N-terminal domain; Region: SurA_N_3; cl07813 375451008772 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 375451008773 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 375451008774 anthranilate synthase component I; Provisional; Region: PRK13573 375451008775 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 375451008776 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 375451008777 Predicted deacylase [General function prediction only]; Region: COG3608 375451008778 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 375451008779 putative active site [active] 375451008780 Zn binding site [ion binding]; other site 375451008781 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451008782 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451008783 metal binding site [ion binding]; metal-binding site 375451008784 active site 375451008785 I-site; other site 375451008786 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 375451008787 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 375451008788 NodB motif; other site 375451008789 putative active site [active] 375451008790 putative catalytic site [active] 375451008791 Zn binding site [ion binding]; other site 375451008792 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 375451008793 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 375451008794 glutamine binding [chemical binding]; other site 375451008795 catalytic triad [active] 375451008796 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 375451008797 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 375451008798 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 375451008799 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 375451008800 ligand binding site [chemical binding]; other site 375451008801 active site 375451008802 UGI interface [polypeptide binding]; other site 375451008803 catalytic site [active] 375451008804 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 375451008805 active site 375451008806 ribulose/triose binding site [chemical binding]; other site 375451008807 phosphate binding site [ion binding]; other site 375451008808 substrate (anthranilate) binding pocket [chemical binding]; other site 375451008809 product (indole) binding pocket [chemical binding]; other site 375451008810 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 375451008811 trimer interface [polypeptide binding]; other site 375451008812 dimer interface [polypeptide binding]; other site 375451008813 putative active site [active] 375451008814 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 375451008815 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 375451008816 dimer interface [polypeptide binding]; other site 375451008817 putative functional site; other site 375451008818 putative MPT binding site; other site 375451008819 LexA repressor; Validated; Region: PRK00215 375451008820 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 375451008821 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 375451008822 Catalytic site [active] 375451008823 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 375451008824 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 375451008825 Competence protein; Region: Competence; pfam03772 375451008826 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 375451008827 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 375451008828 active site 375451008829 HIGH motif; other site 375451008830 nucleotide binding site [chemical binding]; other site 375451008831 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 375451008832 active site 375451008833 KMSKS motif; other site 375451008834 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 375451008835 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 375451008836 dimer interface [polypeptide binding]; other site 375451008837 active site 375451008838 citrylCoA binding site [chemical binding]; other site 375451008839 NADH binding [chemical binding]; other site 375451008840 cationic pore residues; other site 375451008841 oxalacetate/citrate binding site [chemical binding]; other site 375451008842 coenzyme A binding site [chemical binding]; other site 375451008843 catalytic triad [active] 375451008844 enoyl-CoA hydratase; Provisional; Region: PRK08140 375451008845 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 375451008846 substrate binding site [chemical binding]; other site 375451008847 oxyanion hole (OAH) forming residues; other site 375451008848 trimer interface [polypeptide binding]; other site 375451008849 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 375451008850 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 375451008851 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 375451008852 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 375451008853 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 375451008854 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 375451008855 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 375451008856 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 375451008857 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451008858 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 375451008859 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 375451008860 putative acyl-acceptor binding pocket; other site 375451008861 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 375451008862 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 375451008863 dimer interface [polypeptide binding]; other site 375451008864 PYR/PP interface [polypeptide binding]; other site 375451008865 TPP binding site [chemical binding]; other site 375451008866 substrate binding site [chemical binding]; other site 375451008867 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 375451008868 TPP-binding site; other site 375451008869 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 375451008870 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451008871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451008872 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 375451008873 putative effector binding pocket; other site 375451008874 dimerization interface [polypeptide binding]; other site 375451008875 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 375451008876 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 375451008877 dimerization interface [polypeptide binding]; other site 375451008878 ATP binding site [chemical binding]; other site 375451008879 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 375451008880 dimerization interface [polypeptide binding]; other site 375451008881 ATP binding site [chemical binding]; other site 375451008882 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 375451008883 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 375451008884 metal ion-dependent adhesion site (MIDAS); other site 375451008885 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 375451008886 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 375451008887 Walker A motif; other site 375451008888 ATP binding site [chemical binding]; other site 375451008889 Walker B motif; other site 375451008890 arginine finger; other site 375451008891 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 375451008892 active site 375451008893 substrate binding pocket [chemical binding]; other site 375451008894 dimer interface [polypeptide binding]; other site 375451008895 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451008896 active site 375451008897 replicative DNA helicase; Provisional; Region: PRK09165 375451008898 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 375451008899 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 375451008900 Walker A motif; other site 375451008901 ATP binding site [chemical binding]; other site 375451008902 Walker B motif; other site 375451008903 DNA binding loops [nucleotide binding] 375451008904 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 375451008905 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 375451008906 active site 375451008907 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 375451008908 dimer interface [polypeptide binding]; other site 375451008909 substrate binding site [chemical binding]; other site 375451008910 catalytic residues [active] 375451008911 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 375451008912 Permease; Region: Permease; pfam02405 375451008913 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 375451008914 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 375451008915 Walker A/P-loop; other site 375451008916 ATP binding site [chemical binding]; other site 375451008917 Q-loop/lid; other site 375451008918 ABC transporter signature motif; other site 375451008919 Walker B; other site 375451008920 D-loop; other site 375451008921 H-loop/switch region; other site 375451008922 DNA repair protein RadA; Provisional; Region: PRK11823 375451008923 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 375451008924 Walker A motif/ATP binding site; other site 375451008925 ATP binding site [chemical binding]; other site 375451008926 Walker B motif; other site 375451008927 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 375451008928 Colicin V production protein; Region: Colicin_V; pfam02674 375451008929 amidophosphoribosyltransferase; Provisional; Region: PRK09123 375451008930 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 375451008931 active site 375451008932 tetramer interface [polypeptide binding]; other site 375451008933 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451008934 active site 375451008935 short chain dehydrogenase; Provisional; Region: PRK08219 375451008936 classical (c) SDRs; Region: SDR_c; cd05233 375451008937 NAD(P) binding site [chemical binding]; other site 375451008938 active site 375451008939 stationary phase survival protein SurE; Provisional; Region: PRK13931 375451008940 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 375451008941 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 375451008942 S-adenosylmethionine binding site [chemical binding]; other site 375451008943 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 375451008944 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 375451008945 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 375451008946 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 375451008947 Peptidase family M23; Region: Peptidase_M23; pfam01551 375451008948 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 375451008949 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 375451008950 Walker A motif; other site 375451008951 ATP binding site [chemical binding]; other site 375451008952 Walker B motif; other site 375451008953 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 375451008954 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 375451008955 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 375451008956 Predicted transcriptional regulator [Transcription]; Region: COG2378 375451008957 HTH domain; Region: HTH_11; pfam08279 375451008958 WYL domain; Region: WYL; pfam13280 375451008959 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 375451008960 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 375451008961 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451008962 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 375451008963 Walker A/P-loop; other site 375451008964 ATP binding site [chemical binding]; other site 375451008965 Q-loop/lid; other site 375451008966 ABC transporter signature motif; other site 375451008967 Walker B; other site 375451008968 D-loop; other site 375451008969 H-loop/switch region; other site 375451008970 TOBE domain; Region: TOBE_2; pfam08402 375451008971 short chain dehydrogenase; Provisional; Region: PRK08339 375451008972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451008973 NAD(P) binding site [chemical binding]; other site 375451008974 active site 375451008975 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 375451008976 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 375451008977 G1 box; other site 375451008978 putative GEF interaction site [polypeptide binding]; other site 375451008979 GTP/Mg2+ binding site [chemical binding]; other site 375451008980 Switch I region; other site 375451008981 G2 box; other site 375451008982 G3 box; other site 375451008983 Switch II region; other site 375451008984 G4 box; other site 375451008985 G5 box; other site 375451008986 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 375451008987 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 375451008988 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375451008989 ATP binding site [chemical binding]; other site 375451008990 Mg++ binding site [ion binding]; other site 375451008991 motif III; other site 375451008992 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 375451008993 nucleotide binding region [chemical binding]; other site 375451008994 ATP-binding site [chemical binding]; other site 375451008995 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 375451008996 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375451008997 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 375451008998 pantothenate kinase; Reviewed; Region: PRK13318 375451008999 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 375451009000 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 375451009001 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 375451009002 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 375451009003 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 375451009004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451009005 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 375451009006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451009007 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 375451009008 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 375451009009 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451009010 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 375451009011 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 375451009012 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 375451009013 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 375451009014 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375451009015 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 375451009016 4Fe-4S binding domain; Region: Fer4; pfam00037 375451009017 4Fe-4S binding domain; Region: Fer4; pfam00037 375451009018 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 375451009019 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 375451009020 NADH dehydrogenase subunit G; Validated; Region: PRK09130 375451009021 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 375451009022 catalytic loop [active] 375451009023 iron binding site [ion binding]; other site 375451009024 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 375451009025 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 375451009026 molybdopterin cofactor binding site; other site 375451009027 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 375451009028 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 375451009029 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 375451009030 SLBB domain; Region: SLBB; pfam10531 375451009031 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 375451009032 Uncharacterized conserved protein [Function unknown]; Region: COG3743 375451009033 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 375451009034 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 375451009035 putative dimer interface [polypeptide binding]; other site 375451009036 [2Fe-2S] cluster binding site [ion binding]; other site 375451009037 Uncharacterized conserved protein [Function unknown]; Region: COG3743 375451009038 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 375451009039 NADH dehydrogenase subunit D; Validated; Region: PRK06075 375451009040 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 375451009041 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 375451009042 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 375451009043 NADH dehydrogenase subunit B; Validated; Region: PRK06411 375451009044 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 375451009045 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 375451009046 Fasciclin domain; Region: Fasciclin; pfam02469 375451009047 enoyl-CoA hydratase; Provisional; Region: PRK07468 375451009048 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 375451009049 substrate binding site [chemical binding]; other site 375451009050 oxyanion hole (OAH) forming residues; other site 375451009051 trimer interface [polypeptide binding]; other site 375451009052 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 375451009053 active site 375451009054 catalytic residues [active] 375451009055 metal binding site [ion binding]; metal-binding site 375451009056 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451009057 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 375451009058 putative C-terminal domain interface [polypeptide binding]; other site 375451009059 putative GSH binding site (G-site) [chemical binding]; other site 375451009060 putative dimer interface [polypeptide binding]; other site 375451009061 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 375451009062 N-terminal domain interface [polypeptide binding]; other site 375451009063 dimer interface [polypeptide binding]; other site 375451009064 substrate binding pocket (H-site) [chemical binding]; other site 375451009065 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 375451009066 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451009067 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451009068 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 375451009069 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 375451009070 carboxyltransferase (CT) interaction site; other site 375451009071 biotinylation site [posttranslational modification]; other site 375451009072 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 375451009073 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 375451009074 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 375451009075 isovaleryl-CoA dehydrogenase; Region: PLN02519 375451009076 substrate binding site [chemical binding]; other site 375451009077 FAD binding site [chemical binding]; other site 375451009078 catalytic base [active] 375451009079 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 375451009080 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451009081 catalytic residue [active] 375451009082 phosphoglycolate phosphatase; Provisional; Region: PRK13222 375451009083 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 375451009084 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 375451009085 motif II; other site 375451009086 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 375451009087 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 375451009088 Substrate binding site; other site 375451009089 Mg++ binding site; other site 375451009090 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 375451009091 active site 375451009092 substrate binding site [chemical binding]; other site 375451009093 CoA binding site [chemical binding]; other site 375451009094 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 375451009095 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 375451009096 glutaminase active site [active] 375451009097 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 375451009098 dimer interface [polypeptide binding]; other site 375451009099 active site 375451009100 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 375451009101 dimer interface [polypeptide binding]; other site 375451009102 active site 375451009103 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 375451009104 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 375451009105 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 375451009106 FeS/SAM binding site; other site 375451009107 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 375451009108 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 375451009109 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 375451009110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375451009111 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 375451009112 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 375451009113 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 375451009114 metal binding site [ion binding]; metal-binding site 375451009115 putative dimer interface [polypeptide binding]; other site 375451009116 acetylornithine deacetylase; Provisional; Region: PRK07522 375451009117 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 375451009118 metal binding site [ion binding]; metal-binding site 375451009119 putative dimer interface [polypeptide binding]; other site 375451009120 ABC transporter ATP-binding subunit 375451009121 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 375451009122 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 375451009123 peptide binding site [polypeptide binding]; other site 375451009124 dimer interface [polypeptide binding]; other site 375451009125 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 375451009126 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 375451009127 dimer interface [polypeptide binding]; other site 375451009128 conserved gate region; other site 375451009129 putative PBP binding loops; other site 375451009130 ABC-ATPase subunit interface; other site 375451009131 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 375451009132 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 375451009133 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 375451009134 dimer interface [polypeptide binding]; other site 375451009135 conserved gate region; other site 375451009136 putative PBP binding loops; other site 375451009137 ABC-ATPase subunit interface; other site 375451009138 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 375451009139 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 375451009140 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 375451009141 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 375451009142 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 375451009143 ligand binding site [chemical binding]; other site 375451009144 homodimer interface [polypeptide binding]; other site 375451009145 NAD(P) binding site [chemical binding]; other site 375451009146 trimer interface B [polypeptide binding]; other site 375451009147 trimer interface A [polypeptide binding]; other site 375451009148 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 375451009149 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 375451009150 classical (c) SDRs; Region: SDR_c; cd05233 375451009151 NAD(P) binding site [chemical binding]; other site 375451009152 active site 375451009153 Peptidase C26; Region: Peptidase_C26; pfam07722 375451009154 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 375451009155 catalytic triad [active] 375451009156 malate synthase G; Provisional; Region: PRK02999 375451009157 active site 375451009158 aminopeptidase N; Provisional; Region: pepN; PRK14015 375451009159 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 375451009160 Zn binding site [ion binding]; other site 375451009161 short chain dehydrogenase; Provisional; Region: PRK06123 375451009162 classical (c) SDRs; Region: SDR_c; cd05233 375451009163 NAD(P) binding site [chemical binding]; other site 375451009164 active site 375451009165 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451009166 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451009167 catalytic residue [active] 375451009168 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 375451009169 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 375451009170 GatB domain; Region: GatB_Yqey; smart00845 375451009171 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 375451009172 active site 375451009173 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 375451009174 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 375451009175 HSP70 interaction site [polypeptide binding]; other site 375451009176 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 375451009177 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 375451009178 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 375451009179 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 375451009180 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 375451009181 metal ion-dependent adhesion site (MIDAS); other site 375451009182 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 375451009183 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 375451009184 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 375451009185 active site 375451009186 Domain of unknown function (DUF427); Region: DUF427; pfam04248 375451009187 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 375451009188 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 375451009189 Cl- selectivity filter; other site 375451009190 Cl- binding residues [ion binding]; other site 375451009191 pore gating glutamate residue; other site 375451009192 dimer interface [polypeptide binding]; other site 375451009193 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 375451009194 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 375451009195 Walker A/P-loop; other site 375451009196 ATP binding site [chemical binding]; other site 375451009197 Q-loop/lid; other site 375451009198 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 375451009199 ABC transporter signature motif; other site 375451009200 Walker B; other site 375451009201 D-loop; other site 375451009202 H-loop/switch region; other site 375451009203 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 375451009204 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 375451009205 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 375451009206 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 375451009207 cell division protein FtsZ; Validated; Region: PRK09330 375451009208 nucleotide binding site [chemical binding]; other site 375451009209 SulA interaction site; other site 375451009210 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 375451009211 Cell division protein FtsA; Region: FtsA; smart00842 375451009212 Cell division protein FtsA; Region: FtsA; pfam14450 375451009213 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 375451009214 Cell division protein FtsQ; Region: FtsQ; pfam03799 375451009215 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 375451009216 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 375451009217 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451009218 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 375451009219 FAD binding domain; Region: FAD_binding_4; pfam01565 375451009220 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 375451009221 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 375451009222 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 375451009223 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375451009224 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375451009225 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375451009226 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 375451009227 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 375451009228 active site 375451009229 homodimer interface [polypeptide binding]; other site 375451009230 cell division protein FtsW; Region: ftsW; TIGR02614 375451009231 Predicted flavoproteins [General function prediction only]; Region: COG2081 375451009232 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451009233 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 375451009234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375451009235 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 375451009236 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 375451009237 Mg++ binding site [ion binding]; other site 375451009238 putative catalytic motif [active] 375451009239 putative substrate binding site [chemical binding]; other site 375451009240 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 375451009241 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375451009242 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375451009243 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 375451009244 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 375451009245 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 375451009246 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 375451009247 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 375451009248 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 375451009249 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 375451009250 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 375451009251 MraW methylase family; Region: Methyltransf_5; cl17771 375451009252 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 375451009253 cell division protein MraZ; Reviewed; Region: PRK00326 375451009254 MraZ protein; Region: MraZ; pfam02381 375451009255 MraZ protein; Region: MraZ; pfam02381 375451009256 Domain of unknown function DUF59; Region: DUF59; pfam01883 375451009257 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 375451009258 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 375451009259 Walker A motif; other site 375451009260 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 375451009261 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 375451009262 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 375451009263 Part of AAA domain; Region: AAA_19; pfam13245 375451009264 Family description; Region: UvrD_C_2; pfam13538 375451009265 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 375451009266 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 375451009267 phosphate binding site [ion binding]; other site 375451009268 pyruvate carboxylase; Reviewed; Region: PRK12999 375451009269 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451009270 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451009271 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 375451009272 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 375451009273 active site 375451009274 catalytic residues [active] 375451009275 metal binding site [ion binding]; metal-binding site 375451009276 homodimer binding site [polypeptide binding]; other site 375451009277 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 375451009278 carboxyltransferase (CT) interaction site; other site 375451009279 biotinylation site [posttranslational modification]; other site 375451009280 B12 binding domain; Region: B12-binding_2; cl03653 375451009281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451009282 HTH-like domain; Region: HTH_21; pfam13276 375451009283 Integrase core domain; Region: rve; pfam00665 375451009284 Integrase core domain; Region: rve_3; pfam13683 375451009285 Integrase core domain; Region: rve; pfam00665 375451009286 Integrase core domain; Region: rve_3; pfam13683 375451009287 hypothetical protein; Validated; Region: PRK09039 375451009288 hypothetical protein; Validated; Region: PRK09039 375451009289 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451009290 ligand binding site [chemical binding]; other site 375451009291 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 375451009292 putative active site pocket [active] 375451009293 dimerization interface [polypeptide binding]; other site 375451009294 putative catalytic residue [active] 375451009295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 375451009296 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 375451009297 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 375451009298 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 375451009299 prephenate dehydrogenase; Validated; Region: PRK08507 375451009300 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 375451009301 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 375451009302 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451009303 homodimer interface [polypeptide binding]; other site 375451009304 catalytic residue [active] 375451009305 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 375451009306 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 375451009307 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 375451009308 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 375451009309 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 375451009310 RNA binding surface [nucleotide binding]; other site 375451009311 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 375451009312 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 375451009313 putative acyltransferase; Provisional; Region: PRK05790 375451009314 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 375451009315 dimer interface [polypeptide binding]; other site 375451009316 active site 375451009317 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 375451009318 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 375451009319 NAD(P) binding site [chemical binding]; other site 375451009320 homotetramer interface [polypeptide binding]; other site 375451009321 homodimer interface [polypeptide binding]; other site 375451009322 active site 375451009323 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375451009324 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451009325 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 375451009326 dimerization interface [polypeptide binding]; other site 375451009327 Protein of unknown function (DUF465); Region: DUF465; cl01070 375451009328 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 375451009329 Methyltransferase domain; Region: Methyltransf_26; pfam13659 375451009330 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 375451009331 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 375451009332 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 375451009333 substrate binding pocket [chemical binding]; other site 375451009334 chain length determination region; other site 375451009335 substrate-Mg2+ binding site; other site 375451009336 catalytic residues [active] 375451009337 aspartate-rich region 1; other site 375451009338 active site lid residues [active] 375451009339 aspartate-rich region 2; other site 375451009340 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 375451009341 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 375451009342 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 375451009343 TPR motif; other site 375451009344 binding surface 375451009345 TPR repeat; Region: TPR_11; pfam13414 375451009346 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 375451009347 TPR motif; other site 375451009348 binding surface 375451009349 TPR repeat; Region: TPR_11; pfam13414 375451009350 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 375451009351 binding surface 375451009352 TPR motif; other site 375451009353 TPR repeat; Region: TPR_11; pfam13414 375451009354 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 375451009355 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451009356 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 375451009357 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 375451009358 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 375451009359 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 375451009360 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 375451009361 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 375451009362 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 375451009363 dimer interface [polypeptide binding]; other site 375451009364 putative functional site; other site 375451009365 putative MPT binding site; other site 375451009366 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 375451009367 Walker A motif; other site 375451009368 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 375451009369 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 375451009370 GTP binding site; other site 375451009371 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 375451009372 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 375451009373 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 375451009374 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 375451009375 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 375451009376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451009377 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451009378 active site 375451009379 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 375451009380 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 375451009381 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 375451009382 hypothetical protein; Validated; Region: PRK00228 375451009383 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 375451009384 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 375451009385 Protein export membrane protein; Region: SecD_SecF; cl14618 375451009386 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451009387 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 375451009388 MPT binding site; other site 375451009389 trimer interface [polypeptide binding]; other site 375451009390 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 375451009391 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 375451009392 Fe-S cluster binding site [ion binding]; other site 375451009393 active site 375451009394 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 375451009395 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 375451009396 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 375451009397 dihydroorotase; Validated; Region: PRK09059 375451009398 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 375451009399 active site 375451009400 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 375451009401 Ectoine synthase; Region: Ectoine_synth; pfam06339 375451009402 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451009403 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451009404 active site 375451009405 catalytic tetrad [active] 375451009406 Protein of unknown function (DUF938); Region: DUF938; pfam06080 375451009407 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451009408 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451009409 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451009410 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451009411 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 375451009412 FAD binding domain; Region: FAD_binding_4; pfam01565 375451009413 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 375451009414 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 375451009415 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451009416 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 375451009417 dimerization interface [polypeptide binding]; other site 375451009418 ligand binding site [chemical binding]; other site 375451009419 NADP binding site [chemical binding]; other site 375451009420 catalytic site [active] 375451009421 Bacterial SH3 domain; Region: SH3_4; pfam06347 375451009422 Bacterial SH3 domain; Region: SH3_4; pfam06347 375451009423 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 375451009424 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 375451009425 NAD(P) binding site [chemical binding]; other site 375451009426 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 375451009427 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 375451009428 Transposase domain (DUF772); Region: DUF772; pfam05598 375451009429 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 375451009430 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 375451009431 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 375451009432 non-specific DNA binding site [nucleotide binding]; other site 375451009433 salt bridge; other site 375451009434 sequence-specific DNA binding site [nucleotide binding]; other site 375451009435 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 375451009436 Part of AAA domain; Region: AAA_19; pfam13245 375451009437 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 375451009438 Family description; Region: UvrD_C_2; pfam13538 375451009439 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 375451009440 putative active site [active] 375451009441 putative metal-binding site [ion binding]; other site 375451009442 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451009443 HTH-like domain; Region: HTH_21; pfam13276 375451009444 Integrase core domain; Region: rve; pfam00665 375451009445 Integrase core domain; Region: rve_3; pfam13683 375451009446 Transposase; Region: HTH_Tnp_1; pfam01527 375451009447 putative transposase OrfB; Reviewed; Region: PHA02517 375451009448 HTH-like domain; Region: HTH_21; pfam13276 375451009449 Integrase core domain; Region: rve; pfam00665 375451009450 Integrase core domain; Region: rve_3; pfam13683 375451009451 iron-regulated protein FrpC 375451009452 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 375451009453 Transposase; Region: HTH_Tnp_1; cl17663 375451009454 Integrase core domain; Region: rve; pfam00665 375451009455 Integrase core domain; Region: rve_3; pfam13683 375451009456 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451009457 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451009458 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 375451009459 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 375451009460 ATP binding site [chemical binding]; other site 375451009461 Mg2+ binding site [ion binding]; other site 375451009462 G-X-G motif; other site 375451009463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 375451009464 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451009465 active site 375451009466 phosphorylation site [posttranslational modification] 375451009467 intermolecular recognition site; other site 375451009468 dimerization interface [polypeptide binding]; other site 375451009469 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 375451009470 DNA binding site [nucleotide binding] 375451009471 Sporulation related domain; Region: SPOR; pfam05036 375451009472 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 375451009473 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 375451009474 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 375451009475 thymidylate kinase; Validated; Region: tmk; PRK00698 375451009476 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 375451009477 TMP-binding site; other site 375451009478 ATP-binding site [chemical binding]; other site 375451009479 DNA polymerase III subunit delta'; Validated; Region: PRK07471 375451009480 AAA ATPase domain; Region: AAA_16; pfam13191 375451009481 DNA polymerase III subunit delta'; Validated; Region: PRK08485 375451009482 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 375451009483 active site 375451009484 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 375451009485 putative hydrolase; Provisional; Region: PRK02113 375451009486 Predicted permeases [General function prediction only]; Region: COG0679 375451009487 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 375451009488 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 375451009489 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 375451009490 active site 375451009491 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 375451009492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451009493 catalytic residue [active] 375451009494 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 375451009495 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 375451009496 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 375451009497 active site 375451009498 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 375451009499 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 375451009500 putative active site [active] 375451009501 Zn binding site [ion binding]; other site 375451009502 phosphoglycolate phosphatase; Provisional; Region: PRK13222 375451009503 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 375451009504 motif II; other site 375451009505 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 375451009506 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 375451009507 ABC-ATPase subunit interface; other site 375451009508 dimer interface [polypeptide binding]; other site 375451009509 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 375451009510 putative PBP binding regions; other site 375451009511 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 375451009512 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 375451009513 putative ligand binding residues [chemical binding]; other site 375451009514 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 375451009515 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 375451009516 Walker A/P-loop; other site 375451009517 ATP binding site [chemical binding]; other site 375451009518 Q-loop/lid; other site 375451009519 ABC transporter signature motif; other site 375451009520 Walker B; other site 375451009521 D-loop; other site 375451009522 H-loop/switch region; other site 375451009523 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 375451009524 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 375451009525 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 375451009526 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451009527 Predicted permease; Region: DUF318; cl17795 375451009528 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 375451009529 dimerization interface [polypeptide binding]; other site 375451009530 putative DNA binding site [nucleotide binding]; other site 375451009531 putative Zn2+ binding site [ion binding]; other site 375451009532 PGAP1-like protein; Region: PGAP1; pfam07819 375451009533 acyl-CoA esterase; Provisional; Region: PRK10673 375451009534 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 375451009535 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451009536 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 375451009537 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 375451009538 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 375451009539 ATP-grasp domain; Region: ATP-grasp_4; cl17255 375451009540 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 375451009541 IMP binding site; other site 375451009542 dimer interface [polypeptide binding]; other site 375451009543 partial ornithine binding site; other site 375451009544 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 375451009545 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 375451009546 dimer interface [polypeptide binding]; other site 375451009547 active site 375451009548 CoA binding pocket [chemical binding]; other site 375451009549 thymidine kinase; Provisional; Region: PRK04296 375451009550 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 375451009551 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451009552 dimerization interface [polypeptide binding]; other site 375451009553 ligand binding site [chemical binding]; other site 375451009554 NADP binding site [chemical binding]; other site 375451009555 catalytic site [active] 375451009556 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 375451009557 dimer interface [polypeptide binding]; other site 375451009558 putative tRNA-binding site [nucleotide binding]; other site 375451009559 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 375451009560 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 375451009561 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 375451009562 Membrane fusogenic activity; Region: BMFP; pfam04380 375451009563 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 375451009564 Uncharacterized conserved protein [Function unknown]; Region: COG1565 375451009565 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 375451009566 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 375451009567 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451009568 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 375451009569 putative DNA binding site [nucleotide binding]; other site 375451009570 putative Zn2+ binding site [ion binding]; other site 375451009571 AsnC family; Region: AsnC_trans_reg; pfam01037 375451009572 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 375451009573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451009574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451009575 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 375451009576 Cytochrome P450; Region: p450; cl12078 375451009577 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 375451009578 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 375451009579 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 375451009580 putative dimer interface [polypeptide binding]; other site 375451009581 AIR carboxylase; Region: AIRC; pfam00731 375451009582 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 375451009583 ATP-grasp domain; Region: ATP-grasp; pfam02222 375451009584 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 375451009585 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 375451009586 active site 375451009587 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 375451009588 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 375451009589 nudix motif; other site 375451009590 EamA-like transporter family; Region: EamA; cl17759 375451009591 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 375451009592 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 375451009593 ring oligomerisation interface [polypeptide binding]; other site 375451009594 ATP/Mg binding site [chemical binding]; other site 375451009595 stacking interactions; other site 375451009596 hinge regions; other site 375451009597 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 375451009598 oligomerisation interface [polypeptide binding]; other site 375451009599 mobile loop; other site 375451009600 roof hairpin; other site 375451009601 Uncharacterized conserved protein (DUF2161); Region: DUF2161; pfam09929 375451009602 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 375451009603 DHH family; Region: DHH; pfam01368 375451009604 DHHA2 domain; Region: DHHA2; pfam02833 375451009605 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 375451009606 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 375451009607 active site 375451009608 motif I; other site 375451009609 motif II; other site 375451009610 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 375451009611 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 375451009612 dimer interaction site [polypeptide binding]; other site 375451009613 substrate-binding tunnel; other site 375451009614 active site 375451009615 catalytic site [active] 375451009616 substrate binding site [chemical binding]; other site 375451009617 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 375451009618 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 375451009619 active site 375451009620 Riboflavin kinase; Region: Flavokinase; pfam01687 375451009621 hypothetical protein; Provisional; Region: PRK05170 375451009622 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 375451009623 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 375451009624 tetramer interface [polypeptide binding]; other site 375451009625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451009626 catalytic residue [active] 375451009627 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451009628 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 375451009629 catalytic site [active] 375451009630 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 375451009631 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 375451009632 putative catalytic residue [active] 375451009633 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 375451009634 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 375451009635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451009636 active site 375451009637 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375451009638 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451009639 dimer interface [polypeptide binding]; other site 375451009640 putative CheW interface [polypeptide binding]; other site 375451009641 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 375451009642 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 375451009643 gamma subunit interface [polypeptide binding]; other site 375451009644 epsilon subunit interface [polypeptide binding]; other site 375451009645 LBP interface [polypeptide binding]; other site 375451009646 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 375451009647 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 375451009648 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 375451009649 alpha subunit interaction interface [polypeptide binding]; other site 375451009650 Walker A motif; other site 375451009651 ATP binding site [chemical binding]; other site 375451009652 Walker B motif; other site 375451009653 inhibitor binding site; inhibition site 375451009654 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 375451009655 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 375451009656 core domain interface [polypeptide binding]; other site 375451009657 delta subunit interface [polypeptide binding]; other site 375451009658 epsilon subunit interface [polypeptide binding]; other site 375451009659 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 375451009660 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 375451009661 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 375451009662 beta subunit interaction interface [polypeptide binding]; other site 375451009663 Walker A motif; other site 375451009664 ATP binding site [chemical binding]; other site 375451009665 Walker B motif; other site 375451009666 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 375451009667 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 375451009668 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 375451009669 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375451009670 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 375451009671 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 375451009672 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 375451009673 Clp amino terminal domain; Region: Clp_N; pfam02861 375451009674 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 375451009675 Walker A motif; other site 375451009676 ATP binding site [chemical binding]; other site 375451009677 Walker B motif; other site 375451009678 arginine finger; other site 375451009679 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 375451009680 Walker A motif; other site 375451009681 ATP binding site [chemical binding]; other site 375451009682 Walker B motif; other site 375451009683 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 375451009684 DEAD-like helicases superfamily; Region: DEXDc; smart00487 375451009685 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 375451009686 ATP binding site [chemical binding]; other site 375451009687 putative Mg++ binding site [ion binding]; other site 375451009688 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 375451009689 nucleotide binding region [chemical binding]; other site 375451009690 ATP-binding site [chemical binding]; other site 375451009691 Part of AAA domain; Region: AAA_19; pfam13245 375451009692 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 375451009693 Family description; Region: UvrD_C_2; pfam13538 375451009694 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 375451009695 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 375451009696 PUCC protein; Region: PUCC; pfam03209 375451009697 L11 interface [polypeptide binding]; other site 375451009698 putative EF-Tu interaction site [polypeptide binding]; other site 375451009699 putative EF-G interaction site [polypeptide binding]; other site 375451009700 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; cl00364 375451009701 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 375451009702 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 375451009703 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 375451009704 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 375451009705 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451009706 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 375451009707 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 375451009708 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451009709 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 375451009710 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 375451009711 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 375451009712 AsnC family; Region: AsnC_trans_reg; pfam01037 375451009713 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 375451009714 putative active site pocket [active] 375451009715 4-fold oligomerization interface [polypeptide binding]; other site 375451009716 metal binding residues [ion binding]; metal-binding site 375451009717 3-fold/trimer interface [polypeptide binding]; other site 375451009718 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 375451009719 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 375451009720 putative active site [active] 375451009721 oxyanion strand; other site 375451009722 catalytic triad [active] 375451009723 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 375451009724 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 375451009725 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 375451009726 catalytic residues [active] 375451009727 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 375451009728 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 375451009729 substrate binding site [chemical binding]; other site 375451009730 glutamase interaction surface [polypeptide binding]; other site 375451009731 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 375451009732 metal binding site [ion binding]; metal-binding site 375451009733 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 375451009734 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 375451009735 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 375451009736 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 375451009737 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 375451009738 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 375451009739 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 375451009740 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 375451009741 active site 375451009742 metal binding site [ion binding]; metal-binding site 375451009743 hexamer interface [polypeptide binding]; other site 375451009744 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451009745 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 375451009746 dimer interface [polypeptide binding]; other site 375451009747 conserved gate region; other site 375451009748 putative PBP binding loops; other site 375451009749 ABC-ATPase subunit interface; other site 375451009750 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 375451009751 dimer interface [polypeptide binding]; other site 375451009752 conserved gate region; other site 375451009753 putative PBP binding loops; other site 375451009754 ABC-ATPase subunit interface; other site 375451009755 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451009756 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451009757 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451009758 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451009759 Walker A/P-loop; other site 375451009760 ATP binding site [chemical binding]; other site 375451009761 Q-loop/lid; other site 375451009762 ABC transporter signature motif; other site 375451009763 Walker B; other site 375451009764 D-loop; other site 375451009765 H-loop/switch region; other site 375451009766 TOBE domain; Region: TOBE_2; pfam08402 375451009767 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 375451009768 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 375451009769 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 375451009770 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451009771 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451009772 ABC transporter signature motif; other site 375451009773 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 375451009774 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 375451009775 putative active site [active] 375451009776 heme pocket [chemical binding]; other site 375451009777 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 375451009778 dimer interface [polypeptide binding]; other site 375451009779 phosphorylation site [posttranslational modification] 375451009780 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 375451009781 ATP binding site [chemical binding]; other site 375451009782 Mg2+ binding site [ion binding]; other site 375451009783 G-X-G motif; other site 375451009784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451009785 Response regulator receiver domain; Region: Response_reg; pfam00072 375451009786 active site 375451009787 phosphorylation site [posttranslational modification] 375451009788 intermolecular recognition site; other site 375451009789 dimerization interface [polypeptide binding]; other site 375451009790 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 375451009791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451009792 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451009793 active site 375451009794 phosphorylation site [posttranslational modification] 375451009795 intermolecular recognition site; other site 375451009796 dimerization interface [polypeptide binding]; other site 375451009797 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451009798 DNA binding residues [nucleotide binding] 375451009799 dimerization interface [polypeptide binding]; other site 375451009800 HAMP domain; Region: HAMP; pfam00672 375451009801 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 375451009802 PAS domain; Region: PAS_9; pfam13426 375451009803 putative active site [active] 375451009804 heme pocket [chemical binding]; other site 375451009805 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 375451009806 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 375451009807 dimer interface [polypeptide binding]; other site 375451009808 putative CheW interface [polypeptide binding]; other site 375451009809 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 375451009810 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451009811 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 375451009812 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 375451009813 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 375451009814 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 375451009815 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 375451009816 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 375451009817 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451009818 Walker A/P-loop; other site 375451009819 ATP binding site [chemical binding]; other site 375451009820 Q-loop/lid; other site 375451009821 ABC transporter signature motif; other site 375451009822 Walker B; other site 375451009823 D-loop; other site 375451009824 H-loop/switch region; other site 375451009825 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 375451009826 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451009827 Walker A/P-loop; other site 375451009828 ATP binding site [chemical binding]; other site 375451009829 Q-loop/lid; other site 375451009830 ABC transporter signature motif; other site 375451009831 Walker B; other site 375451009832 D-loop; other site 375451009833 H-loop/switch region; other site 375451009834 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451009835 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 375451009836 TM-ABC transporter signature motif; other site 375451009837 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451009838 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 375451009839 TM-ABC transporter signature motif; other site 375451009840 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451009841 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 375451009842 ligand binding site [chemical binding]; other site 375451009843 multidrug resistance protein MdtN; Provisional; Region: PRK10476 375451009844 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 375451009845 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451009846 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451009847 Response regulator receiver domain; Region: Response_reg; pfam00072 375451009848 active site 375451009849 phosphorylation site [posttranslational modification] 375451009850 intermolecular recognition site; other site 375451009851 dimerization interface [polypeptide binding]; other site 375451009852 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451009853 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451009854 DNA binding residues [nucleotide binding] 375451009855 dimerization interface [polypeptide binding]; other site 375451009856 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 375451009857 Na binding site [ion binding]; other site 375451009858 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 375451009859 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 375451009860 dimer interface [polypeptide binding]; other site 375451009861 phosphorylation site [posttranslational modification] 375451009862 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 375451009863 ATP binding site [chemical binding]; other site 375451009864 Mg2+ binding site [ion binding]; other site 375451009865 G-X-G motif; other site 375451009866 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 375451009867 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451009868 active site 375451009869 phosphorylation site [posttranslational modification] 375451009870 intermolecular recognition site; other site 375451009871 dimerization interface [polypeptide binding]; other site 375451009872 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 375451009873 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 375451009874 putative ligand binding site [chemical binding]; other site 375451009875 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451009876 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 375451009877 TM-ABC transporter signature motif; other site 375451009878 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 375451009879 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 375451009880 TM-ABC transporter signature motif; other site 375451009881 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 375451009882 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 375451009883 Walker A/P-loop; other site 375451009884 ATP binding site [chemical binding]; other site 375451009885 Q-loop/lid; other site 375451009886 ABC transporter signature motif; other site 375451009887 Walker B; other site 375451009888 D-loop; other site 375451009889 H-loop/switch region; other site 375451009890 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 375451009891 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 375451009892 Walker A/P-loop; other site 375451009893 ATP binding site [chemical binding]; other site 375451009894 Q-loop/lid; other site 375451009895 ABC transporter signature motif; other site 375451009896 Walker B; other site 375451009897 D-loop; other site 375451009898 H-loop/switch region; other site 375451009899 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 375451009900 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 375451009901 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 375451009902 putative metal binding residues [ion binding]; other site 375451009903 signature motif; other site 375451009904 dimer interface [polypeptide binding]; other site 375451009905 active site 375451009906 polyP binding site; other site 375451009907 substrate binding site [chemical binding]; other site 375451009908 acceptor-phosphate pocket; other site 375451009909 DctM-like transporters; Region: DctM; pfam06808 375451009910 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451009911 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 375451009912 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451009913 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 375451009914 substrate binding site [chemical binding]; other site 375451009915 multimerization interface [polypeptide binding]; other site 375451009916 ATP binding site [chemical binding]; other site 375451009917 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 375451009918 thiamine phosphate binding site [chemical binding]; other site 375451009919 active site 375451009920 pyrophosphate binding site [ion binding]; other site 375451009921 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 375451009922 dimer interface [polypeptide binding]; other site 375451009923 substrate binding site [chemical binding]; other site 375451009924 ATP binding site [chemical binding]; other site 375451009925 Putative transcription activator [Transcription]; Region: TenA; COG0819 375451009926 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 375451009927 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 375451009928 non-specific DNA interactions [nucleotide binding]; other site 375451009929 DNA binding site [nucleotide binding] 375451009930 sequence specific DNA binding site [nucleotide binding]; other site 375451009931 putative cAMP binding site [chemical binding]; other site 375451009932 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 375451009933 Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner; Region: G1PDH; cd08175 375451009934 active site 375451009935 metal binding site [ion binding]; metal-binding site 375451009936 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 375451009937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451009938 NAD(P) binding site [chemical binding]; other site 375451009939 active site 375451009940 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 375451009941 putative N- and C-terminal domain interface [polypeptide binding]; other site 375451009942 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 375451009943 putative active site [active] 375451009944 MgATP binding site [chemical binding]; other site 375451009945 catalytic site [active] 375451009946 metal binding site [ion binding]; metal-binding site 375451009947 putative carbohydrate binding site [chemical binding]; other site 375451009948 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 375451009949 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 375451009950 active site 375451009951 motif I; other site 375451009952 motif II; other site 375451009953 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 375451009954 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375451009955 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 375451009956 dimer interface [polypeptide binding]; other site 375451009957 conserved gate region; other site 375451009958 ABC-ATPase subunit interface; other site 375451009959 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451009960 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 375451009961 dimer interface [polypeptide binding]; other site 375451009962 conserved gate region; other site 375451009963 putative PBP binding loops; other site 375451009964 ABC-ATPase subunit interface; other site 375451009965 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451009966 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 375451009967 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451009968 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451009969 Walker A/P-loop; other site 375451009970 ATP binding site [chemical binding]; other site 375451009971 Q-loop/lid; other site 375451009972 ABC transporter signature motif; other site 375451009973 Walker B; other site 375451009974 D-loop; other site 375451009975 H-loop/switch region; other site 375451009976 TOBE domain; Region: TOBE_2; pfam08402 375451009977 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 375451009978 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 375451009979 inhibitor binding site; inhibition site 375451009980 catalytic Zn binding site [ion binding]; other site 375451009981 structural Zn binding site [ion binding]; other site 375451009982 NADP binding site [chemical binding]; other site 375451009983 tetramer interface [polypeptide binding]; other site 375451009984 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 375451009985 triosephosphate isomerase; Provisional; Region: PRK14565 375451009986 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 375451009987 substrate binding site [chemical binding]; other site 375451009988 dimer interface [polypeptide binding]; other site 375451009989 catalytic triad [active] 375451009990 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 375451009991 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 375451009992 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 375451009993 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 375451009994 motif II; other site 375451009995 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 375451009996 D-xylulose kinase; Region: XylB; TIGR01312 375451009997 nucleotide binding site [chemical binding]; other site 375451009998 Uncharacterized conserved protein [Function unknown]; Region: COG3347 375451009999 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 375451010000 intersubunit interface [polypeptide binding]; other site 375451010001 active site 375451010002 Zn2+ binding site [ion binding]; other site 375451010003 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 375451010004 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 375451010005 intersubunit interface [polypeptide binding]; other site 375451010006 active site 375451010007 Zn2+ binding site [ion binding]; other site 375451010008 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 375451010009 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451010010 putative ligand binding site [chemical binding]; other site 375451010011 putative NAD binding site [chemical binding]; other site 375451010012 catalytic site [active] 375451010013 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 375451010014 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 375451010015 putative N- and C-terminal domain interface [polypeptide binding]; other site 375451010016 putative active site [active] 375451010017 MgATP binding site [chemical binding]; other site 375451010018 catalytic site [active] 375451010019 metal binding site [ion binding]; metal-binding site 375451010020 putative xylulose binding site [chemical binding]; other site 375451010021 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451010022 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 375451010023 Walker A/P-loop; other site 375451010024 ATP binding site [chemical binding]; other site 375451010025 Q-loop/lid; other site 375451010026 ABC transporter signature motif; other site 375451010027 Walker B; other site 375451010028 D-loop; other site 375451010029 H-loop/switch region; other site 375451010030 TOBE domain; Region: TOBE_2; pfam08402 375451010031 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451010032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010033 Walker A/P-loop; other site 375451010034 ATP binding site [chemical binding]; other site 375451010035 Q-loop/lid; other site 375451010036 ABC transporter signature motif; other site 375451010037 Walker B; other site 375451010038 D-loop; other site 375451010039 H-loop/switch region; other site 375451010040 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451010041 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 375451010042 dimer interface [polypeptide binding]; other site 375451010043 conserved gate region; other site 375451010044 ABC-ATPase subunit interface; other site 375451010045 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451010046 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 375451010047 putative PBP binding loops; other site 375451010048 dimer interface [polypeptide binding]; other site 375451010049 ABC-ATPase subunit interface; other site 375451010050 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451010051 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451010052 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 375451010053 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 375451010054 L-aspartate dehydrogenase; Provisional; Region: PRK13303 375451010055 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 375451010056 Domain of unknown function DUF108; Region: DUF108; pfam01958 375451010057 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 375451010058 kynureninase; Region: kynureninase; TIGR01814 375451010059 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451010060 catalytic residue [active] 375451010061 Sulfatase; Region: Sulfatase; cl17466 375451010062 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375451010063 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 375451010064 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375451010065 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 375451010066 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 375451010067 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 375451010068 Transcriptional regulators [Transcription]; Region: MarR; COG1846 375451010069 MarR family; Region: MarR_2; pfam12802 375451010070 MarR family; Region: MarR_2; cl17246 375451010071 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 375451010072 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 375451010073 maleylacetoacetate isomerase; Region: maiA; TIGR01262 375451010074 C-terminal domain interface [polypeptide binding]; other site 375451010075 GSH binding site (G-site) [chemical binding]; other site 375451010076 putative dimer interface [polypeptide binding]; other site 375451010077 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 375451010078 dimer interface [polypeptide binding]; other site 375451010079 N-terminal domain interface [polypeptide binding]; other site 375451010080 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 375451010081 fumarylacetoacetase; Region: PLN02856 375451010082 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 375451010083 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 375451010084 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 375451010085 aminodeoxychorismate synthase; Provisional; Region: PRK07508 375451010086 chorismate binding enzyme; Region: Chorismate_bind; cl10555 375451010087 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 375451010088 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 375451010089 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 375451010090 substrate binding pocket [chemical binding]; other site 375451010091 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 375451010092 B12 binding site [chemical binding]; other site 375451010093 cobalt ligand [ion binding]; other site 375451010094 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 375451010095 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 375451010096 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 375451010097 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451010098 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 375451010099 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 375451010100 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 375451010101 molybdopterin cofactor binding site; other site 375451010102 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 375451010103 molybdopterin cofactor binding site; other site 375451010104 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 375451010105 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451010106 active site 375451010107 phosphorylation site [posttranslational modification] 375451010108 intermolecular recognition site; other site 375451010109 dimerization interface [polypeptide binding]; other site 375451010110 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 375451010111 DNA binding site [nucleotide binding] 375451010112 HAMP domain; Region: HAMP; pfam00672 375451010113 dimerization interface [polypeptide binding]; other site 375451010114 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 375451010115 dimer interface [polypeptide binding]; other site 375451010116 phosphorylation site [posttranslational modification] 375451010117 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 375451010118 ATP binding site [chemical binding]; other site 375451010119 Mg2+ binding site [ion binding]; other site 375451010120 G-X-G motif; other site 375451010121 Response regulator receiver domain; Region: Response_reg; pfam00072 375451010122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 375451010123 active site 375451010124 phosphorylation site [posttranslational modification] 375451010125 intermolecular recognition site; other site 375451010126 dimerization interface [polypeptide binding]; other site 375451010127 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 375451010128 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 375451010129 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 375451010130 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451010131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451010132 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 375451010133 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 375451010134 GSH binding site [chemical binding]; other site 375451010135 catalytic residues [active] 375451010136 Protein of unknown function, DUF417; Region: DUF417; cl01162 375451010137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451010138 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451010139 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 375451010140 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 375451010141 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451010142 catalytic residue [active] 375451010143 hypothetical protein; Provisional; Region: PRK06148 375451010144 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 375451010145 active site 375451010146 ATP binding site [chemical binding]; other site 375451010147 substrate binding site [chemical binding]; other site 375451010148 Peptidase family M23; Region: Peptidase_M23; pfam01551 375451010149 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 375451010150 inhibitor-cofactor binding pocket; inhibition site 375451010151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451010152 catalytic residue [active] 375451010153 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 375451010154 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 375451010155 active site 375451010156 imidazolonepropionase; Validated; Region: PRK09356 375451010157 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 375451010158 active site 375451010159 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 375451010160 active sites [active] 375451010161 tetramer interface [polypeptide binding]; other site 375451010162 N-formylglutamate amidohydrolase; Region: FGase; cl01522 375451010163 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 375451010164 CoA-transferase family III; Region: CoA_transf_3; pfam02515 375451010165 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451010166 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451010167 active site 375451010168 urocanate hydratase; Provisional; Region: PRK05414 375451010169 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 375451010170 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 375451010171 iron-sulfur cluster [ion binding]; other site 375451010172 [2Fe-2S] cluster binding site [ion binding]; other site 375451010173 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 375451010174 alpha subunit interface [polypeptide binding]; other site 375451010175 active site 375451010176 substrate binding site [chemical binding]; other site 375451010177 Fe binding site [ion binding]; other site 375451010178 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 375451010179 Cytochrome c553 [Energy production and conversion]; Region: COG2863 375451010180 Cytochrome c553 [Energy production and conversion]; Region: COG2863 375451010181 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 375451010182 hypothetical protein; Reviewed; Region: PRK00024 375451010183 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 375451010184 MPN+ (JAMM) motif; other site 375451010185 Zinc-binding site [ion binding]; other site 375451010186 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 375451010187 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 375451010188 hypothetical protein; Provisional; Region: PRK07079 375451010189 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 375451010190 metal binding site [ion binding]; metal-binding site 375451010191 putative dimer interface [polypeptide binding]; other site 375451010192 heat shock protein 90; Provisional; Region: PRK05218 375451010193 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 375451010194 ATP binding site [chemical binding]; other site 375451010195 Mg2+ binding site [ion binding]; other site 375451010196 G-X-G motif; other site 375451010197 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 375451010198 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 375451010199 ligand binding site [chemical binding]; other site 375451010200 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 375451010201 S-adenosylmethionine binding site [chemical binding]; other site 375451010202 PAS domain; Region: PAS_9; pfam13426 375451010203 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 375451010204 putative active site [active] 375451010205 heme pocket [chemical binding]; other site 375451010206 PAS fold; Region: PAS_7; pfam12860 375451010207 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451010208 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451010209 metal binding site [ion binding]; metal-binding site 375451010210 active site 375451010211 I-site; other site 375451010212 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 375451010213 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 375451010214 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 375451010215 DAK2 domain; Region: Dak2; pfam02734 375451010216 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451010217 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451010218 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451010219 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 375451010220 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 375451010221 N- and C-terminal domain interface [polypeptide binding]; other site 375451010222 active site 375451010223 MgATP binding site [chemical binding]; other site 375451010224 catalytic site [active] 375451010225 metal binding site [ion binding]; metal-binding site 375451010226 xylulose binding site [chemical binding]; other site 375451010227 homodimer interface [polypeptide binding]; other site 375451010228 xylose isomerase; Provisional; Region: PRK05474 375451010229 xylose isomerase; Region: xylose_isom_A; TIGR02630 375451010230 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451010231 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 375451010232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 375451010233 SnoaL-like domain; Region: SnoaL_4; cl17707 375451010234 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 375451010235 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 375451010236 active site 375451010237 motif I; other site 375451010238 motif II; other site 375451010239 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 375451010240 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 375451010241 active site 375451010242 homodimer interface [polypeptide binding]; other site 375451010243 catalytic site [active] 375451010244 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 375451010245 Eukaryotic cytochrome b(561), including the FRRS1 gene product; Region: Cyt_b561_FRRS1_like; cd08760 375451010246 putative heme binding sites [chemical binding]; other site 375451010247 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451010248 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 375451010249 dimer interface [polypeptide binding]; other site 375451010250 conserved gate region; other site 375451010251 putative PBP binding loops; other site 375451010252 ABC-ATPase subunit interface; other site 375451010253 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 375451010254 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 375451010255 dimer interface [polypeptide binding]; other site 375451010256 conserved gate region; other site 375451010257 putative PBP binding loops; other site 375451010258 ABC-ATPase subunit interface; other site 375451010259 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451010260 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451010261 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451010262 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451010263 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451010264 Walker A/P-loop; other site 375451010265 ATP binding site [chemical binding]; other site 375451010266 Q-loop/lid; other site 375451010267 ABC transporter signature motif; other site 375451010268 Walker B; other site 375451010269 D-loop; other site 375451010270 H-loop/switch region; other site 375451010271 TOBE domain; Region: TOBE_2; pfam08402 375451010272 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451010273 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451010274 DNA binding site [nucleotide binding] 375451010275 domain linker motif; other site 375451010276 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 375451010277 putative dimerization interface [polypeptide binding]; other site 375451010278 putative ligand binding site [chemical binding]; other site 375451010279 Cadherin repeat-like domain; Region: CA_like; cl15786 375451010280 Ca2+ binding site [ion binding]; other site 375451010281 PA14 domain; Region: PA14; cl08459 375451010282 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 375451010283 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451010284 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451010285 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010286 Walker A/P-loop; other site 375451010287 ATP binding site [chemical binding]; other site 375451010288 Q-loop/lid; other site 375451010289 ABC transporter signature motif; other site 375451010290 Walker B; other site 375451010291 D-loop; other site 375451010292 H-loop/switch region; other site 375451010293 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 375451010294 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451010295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010296 Walker A/P-loop; other site 375451010297 ATP binding site [chemical binding]; other site 375451010298 Q-loop/lid; other site 375451010299 ABC transporter signature motif; other site 375451010300 Walker B; other site 375451010301 D-loop; other site 375451010302 H-loop/switch region; other site 375451010303 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375451010304 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451010305 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 375451010306 ABC1 family; Region: ABC1; pfam03109 375451010307 SdiA-regulated; Region: SdiA-regulated; cd09971 375451010308 putative active site [active] 375451010309 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 375451010310 Mechanosensitive ion channel; Region: MS_channel; pfam00924 375451010311 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 375451010312 putative active site [active] 375451010313 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 375451010314 ligand binding site [chemical binding]; other site 375451010315 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451010316 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 375451010317 substrate binding site [chemical binding]; other site 375451010318 dimer interface [polypeptide binding]; other site 375451010319 ATP binding site [chemical binding]; other site 375451010320 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 375451010321 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451010322 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451010323 Walker A/P-loop; other site 375451010324 ATP binding site [chemical binding]; other site 375451010325 Q-loop/lid; other site 375451010326 ABC transporter signature motif; other site 375451010327 Walker B; other site 375451010328 D-loop; other site 375451010329 H-loop/switch region; other site 375451010330 TOBE domain; Region: TOBE_2; pfam08402 375451010331 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451010332 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 375451010333 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 375451010334 dimer interface [polypeptide binding]; other site 375451010335 conserved gate region; other site 375451010336 putative PBP binding loops; other site 375451010337 ABC-ATPase subunit interface; other site 375451010338 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451010339 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 375451010340 ABC-ATPase subunit interface; other site 375451010341 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 375451010342 Sulfatase; Region: Sulfatase; pfam00884 375451010343 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 375451010344 Uncharacterized conserved protein [Function unknown]; Region: COG5361 375451010345 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 375451010346 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 375451010347 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 375451010348 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 375451010349 ligand binding site [chemical binding]; other site 375451010350 flexible hinge region; other site 375451010351 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 375451010352 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 375451010353 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451010354 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451010355 active site 375451010356 catalytic tetrad [active] 375451010357 short chain dehydrogenase; Provisional; Region: PRK12744 375451010358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451010359 NAD(P) binding site [chemical binding]; other site 375451010360 active site 375451010361 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451010362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451010363 LysR substrate binding domain; Region: LysR_substrate; pfam03466 375451010364 dimerization interface [polypeptide binding]; other site 375451010365 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 375451010366 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 375451010367 N- and C-terminal domain interface [polypeptide binding]; other site 375451010368 putative active site [active] 375451010369 MgATP binding site [chemical binding]; other site 375451010370 catalytic site [active] 375451010371 metal binding site [ion binding]; metal-binding site 375451010372 putative xylulose binding site [chemical binding]; other site 375451010373 putative homodimer interface [polypeptide binding]; other site 375451010374 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 375451010375 active site 375451010376 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 375451010377 catalytic tetrad [active] 375451010378 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 375451010379 Amidohydrolase; Region: Amidohydro_2; pfam04909 375451010380 active site 375451010381 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 375451010382 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451010383 substrate binding site [chemical binding]; other site 375451010384 ATP binding site [chemical binding]; other site 375451010385 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 375451010386 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 375451010387 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 375451010388 Ligand Binding Site [chemical binding]; other site 375451010389 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451010390 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 375451010391 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 375451010392 DctM-like transporters; Region: DctM; pfam06808 375451010393 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 375451010394 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 375451010395 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 375451010396 active site 375451010397 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 375451010398 heterodimer interface [polypeptide binding]; other site 375451010399 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 375451010400 active site 375451010401 glucokinase, proteobacterial type; Region: glk; TIGR00749 375451010402 Glucokinase; Region: Glucokinase; pfam02685 375451010403 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 375451010404 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451010405 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 375451010406 putative N-terminal domain interface [polypeptide binding]; other site 375451010407 putative dimer interface [polypeptide binding]; other site 375451010408 putative substrate binding pocket (H-site) [chemical binding]; other site 375451010409 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 375451010410 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 375451010411 substrate-cofactor binding pocket; other site 375451010412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451010413 catalytic residue [active] 375451010414 Protein of unknown function DUF126; Region: DUF126; pfam01989 375451010415 substrate binding site [chemical binding]; other site 375451010416 Predicted aconitase [General function prediction only]; Region: COG1679 375451010417 Protein of unknown function (DUF521); Region: DUF521; pfam04412 375451010418 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 375451010419 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 375451010420 conserved cys residue [active] 375451010421 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451010422 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 375451010423 putative aldolase; Validated; Region: PRK08130 375451010424 intersubunit interface [polypeptide binding]; other site 375451010425 active site 375451010426 Zn2+ binding site [ion binding]; other site 375451010427 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 375451010428 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 375451010429 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 375451010430 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451010431 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451010432 DNA-binding site [nucleotide binding]; DNA binding site 375451010433 FCD domain; Region: FCD; pfam07729 375451010434 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451010435 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451010436 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451010437 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 375451010438 tartrate dehydrogenase; Region: TTC; TIGR02089 375451010439 Uncharacterized conserved protein [Function unknown]; Region: COG1359 375451010440 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 375451010441 UreD urease accessory protein; Region: UreD; pfam01774 375451010442 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 375451010443 alpha-gamma subunit interface [polypeptide binding]; other site 375451010444 beta-gamma subunit interface [polypeptide binding]; other site 375451010445 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 375451010446 gamma-beta subunit interface [polypeptide binding]; other site 375451010447 alpha-beta subunit interface [polypeptide binding]; other site 375451010448 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 375451010449 Uncharacterized conserved protein [Function unknown]; Region: COG2128 375451010450 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 375451010451 urease subunit alpha; Reviewed; Region: ureC; PRK13207 375451010452 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 375451010453 subunit interactions [polypeptide binding]; other site 375451010454 active site 375451010455 flap region; other site 375451010456 Dynamin family; Region: Dynamin_N; pfam00350 375451010457 urease accessory protein UreE; Provisional; Region: PRK14113 375451010458 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 375451010459 dimer interface [polypeptide binding]; other site 375451010460 catalytic residues [active] 375451010461 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 375451010462 UreF; Region: UreF; pfam01730 375451010463 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 375451010464 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 375451010465 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 375451010466 substrate binding site [chemical binding]; other site 375451010467 catalytic Zn binding site [ion binding]; other site 375451010468 NAD binding site [chemical binding]; other site 375451010469 structural Zn binding site [ion binding]; other site 375451010470 dimer interface [polypeptide binding]; other site 375451010471 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451010472 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451010473 DNA binding site [nucleotide binding] 375451010474 domain linker motif; other site 375451010475 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 375451010476 putative dimerization interface [polypeptide binding]; other site 375451010477 putative ligand binding site [chemical binding]; other site 375451010478 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 375451010479 histidinol dehydrogenase; Region: hisD; TIGR00069 375451010480 NAD binding site [chemical binding]; other site 375451010481 dimerization interface [polypeptide binding]; other site 375451010482 product binding site; other site 375451010483 substrate binding site [chemical binding]; other site 375451010484 zinc binding site [ion binding]; other site 375451010485 catalytic residues [active] 375451010486 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 375451010487 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451010488 NAD(P) binding site [chemical binding]; other site 375451010489 active site 375451010490 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 375451010491 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 375451010492 NAD(P) binding site [chemical binding]; other site 375451010493 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 375451010494 Ligand Binding Site [chemical binding]; other site 375451010495 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 375451010496 PYR/PP interface [polypeptide binding]; other site 375451010497 dimer interface [polypeptide binding]; other site 375451010498 TPP binding site [chemical binding]; other site 375451010499 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 375451010500 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 375451010501 TPP-binding site; other site 375451010502 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 375451010503 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 375451010504 phosphate binding site [ion binding]; other site 375451010505 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 375451010506 putative FMN binding site [chemical binding]; other site 375451010507 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 375451010508 active site 375451010509 SAM binding site [chemical binding]; other site 375451010510 homodimer interface [polypeptide binding]; other site 375451010511 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375451010512 active site 375451010513 SAM binding site [chemical binding]; other site 375451010514 homodimer interface [polypeptide binding]; other site 375451010515 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 375451010516 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 375451010517 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 375451010518 active site 375451010519 SAM binding site [chemical binding]; other site 375451010520 homodimer interface [polypeptide binding]; other site 375451010521 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 375451010522 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 375451010523 active site 375451010524 putative homodimer interface [polypeptide binding]; other site 375451010525 SAM binding site [chemical binding]; other site 375451010526 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 375451010527 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 375451010528 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 375451010529 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 375451010530 active site 375451010531 SAM binding site [chemical binding]; other site 375451010532 homodimer interface [polypeptide binding]; other site 375451010533 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 375451010534 active site 375451010535 SAM binding site [chemical binding]; other site 375451010536 homodimer interface [polypeptide binding]; other site 375451010537 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 375451010538 Precorrin-8X methylmutase; Region: CbiC; pfam02570 375451010539 precorrin-3B synthase; Region: CobG; TIGR02435 375451010540 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375451010541 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 375451010542 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 375451010543 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 375451010544 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 375451010545 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 375451010546 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 375451010547 Acetokinase family; Region: Acetate_kinase; cl17229 375451010548 propionate/acetate kinase; Provisional; Region: PRK12379 375451010549 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 375451010550 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 375451010551 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 375451010552 putative active site [active] 375451010553 catalytic site [active] 375451010554 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 375451010555 putative active site [active] 375451010556 catalytic site [active] 375451010557 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 375451010558 putative catalytic site [active] 375451010559 putative metal binding site [ion binding]; other site 375451010560 putative phosphate binding site [ion binding]; other site 375451010561 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 375451010562 Chain length determinant protein; Region: Wzz; cl15801 375451010563 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 375451010564 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 375451010565 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 375451010566 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 375451010567 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 375451010568 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375451010569 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 375451010570 Right handed beta helix region; Region: Beta_helix; pfam13229 375451010571 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375451010572 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 375451010573 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 375451010574 active site 375451010575 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 375451010576 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 375451010577 Ligand Binding Site [chemical binding]; other site 375451010578 Molecular Tunnel; other site 375451010579 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 375451010580 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 375451010581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010582 Walker A/P-loop; other site 375451010583 ATP binding site [chemical binding]; other site 375451010584 Q-loop/lid; other site 375451010585 ABC transporter signature motif; other site 375451010586 Walker B; other site 375451010587 D-loop; other site 375451010588 H-loop/switch region; other site 375451010589 Bacterial sugar transferase; Region: Bac_transf; pfam02397 375451010590 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 375451010591 non-specific DNA binding site [nucleotide binding]; other site 375451010592 salt bridge; other site 375451010593 sequence-specific DNA binding site [nucleotide binding]; other site 375451010594 Cupin domain; Region: Cupin_2; pfam07883 375451010595 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 375451010596 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451010597 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451010598 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375451010599 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 375451010600 active site pocket [active] 375451010601 choline dehydrogenase; Validated; Region: PRK02106 375451010602 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451010603 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451010604 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451010605 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 375451010606 dimer interface [polypeptide binding]; other site 375451010607 conserved gate region; other site 375451010608 putative PBP binding loops; other site 375451010609 ABC-ATPase subunit interface; other site 375451010610 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451010611 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 375451010612 dimer interface [polypeptide binding]; other site 375451010613 conserved gate region; other site 375451010614 putative PBP binding loops; other site 375451010615 ABC-ATPase subunit interface; other site 375451010616 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451010617 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 375451010618 Walker A/P-loop; other site 375451010619 ATP binding site [chemical binding]; other site 375451010620 Q-loop/lid; other site 375451010621 ABC transporter signature motif; other site 375451010622 Walker B; other site 375451010623 D-loop; other site 375451010624 H-loop/switch region; other site 375451010625 TOBE domain; Region: TOBE_2; pfam08402 375451010626 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451010627 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 375451010628 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 375451010629 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451010630 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451010631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451010632 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 375451010633 dimerization interface [polypeptide binding]; other site 375451010634 Cupin domain; Region: Cupin_2; cl17218 375451010635 Helix-turn-helix domain; Region: HTH_18; pfam12833 375451010636 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 375451010637 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 375451010638 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 375451010639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451010640 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375451010641 NAD(P) binding site [chemical binding]; other site 375451010642 active site 375451010643 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 375451010644 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 375451010645 Metal-binding active site; metal-binding site 375451010646 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 375451010647 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451010648 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451010649 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 375451010650 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 375451010651 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 375451010652 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 375451010653 substrate binding site [chemical binding]; other site 375451010654 ATP binding site [chemical binding]; other site 375451010655 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451010656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010657 Walker A/P-loop; other site 375451010658 ATP binding site [chemical binding]; other site 375451010659 Q-loop/lid; other site 375451010660 ABC transporter signature motif; other site 375451010661 Walker B; other site 375451010662 D-loop; other site 375451010663 H-loop/switch region; other site 375451010664 TOBE domain; Region: TOBE_2; pfam08402 375451010665 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451010666 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 375451010667 dimer interface [polypeptide binding]; other site 375451010668 conserved gate region; other site 375451010669 putative PBP binding loops; other site 375451010670 ABC-ATPase subunit interface; other site 375451010671 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 375451010672 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 375451010673 dimer interface [polypeptide binding]; other site 375451010674 conserved gate region; other site 375451010675 putative PBP binding loops; other site 375451010676 ABC-ATPase subunit interface; other site 375451010677 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451010678 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451010679 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451010680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451010681 Walker A/P-loop; other site 375451010682 ATP binding site [chemical binding]; other site 375451010683 Q-loop/lid; other site 375451010684 ABC transporter signature motif; other site 375451010685 Walker B; other site 375451010686 D-loop; other site 375451010687 H-loop/switch region; other site 375451010688 TOBE domain; Region: TOBE_2; pfam08402 375451010689 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 375451010690 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 375451010691 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451010692 DNA binding site [nucleotide binding] 375451010693 domain linker motif; other site 375451010694 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 375451010695 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 375451010696 putative ligand binding site [chemical binding]; other site 375451010697 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 375451010698 dihydroxyacetone kinase; Provisional; Region: PRK14479 375451010699 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 375451010700 DAK2 domain; Region: Dak2; cl03685 375451010701 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 375451010702 transcriptional repressor DicA; Reviewed; Region: PRK09706 375451010703 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 375451010704 non-specific DNA binding site [nucleotide binding]; other site 375451010705 salt bridge; other site 375451010706 sequence-specific DNA binding site [nucleotide binding]; other site 375451010707 aspartate aminotransferase; Provisional; Region: PRK05764 375451010708 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 375451010709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451010710 homodimer interface [polypeptide binding]; other site 375451010711 catalytic residue [active] 375451010712 GTP-binding protein YchF; Reviewed; Region: PRK09601 375451010713 YchF GTPase; Region: YchF; cd01900 375451010714 G1 box; other site 375451010715 GTP/Mg2+ binding site [chemical binding]; other site 375451010716 Switch I region; other site 375451010717 G2 box; other site 375451010718 Switch II region; other site 375451010719 G3 box; other site 375451010720 G4 box; other site 375451010721 G5 box; other site 375451010722 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 375451010723 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 375451010724 substrate binding site [chemical binding]; other site 375451010725 active site 375451010726 catalytic residues [active] 375451010727 heterodimer interface [polypeptide binding]; other site 375451010728 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 375451010729 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 375451010730 phosphate binding site [ion binding]; other site 375451010731 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451010732 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 375451010733 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 375451010734 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 375451010735 5S rRNA interface [nucleotide binding]; other site 375451010736 CTC domain interface [polypeptide binding]; other site 375451010737 L16 interface [polypeptide binding]; other site 375451010738 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 375451010739 putative active site [active] 375451010740 catalytic residue [active] 375451010741 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 375451010742 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 375451010743 Beta-lactamase; Region: Beta-lactamase; pfam00144 375451010744 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 375451010745 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 375451010746 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 375451010747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451010748 catalytic residue [active] 375451010749 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 375451010750 active site 375451010751 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 375451010752 IHF dimer interface [polypeptide binding]; other site 375451010753 IHF - DNA interface [nucleotide binding]; other site 375451010754 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 375451010755 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 375451010756 RNA binding site [nucleotide binding]; other site 375451010757 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 375451010758 RNA binding site [nucleotide binding]; other site 375451010759 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 375451010760 RNA binding site [nucleotide binding]; other site 375451010761 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 375451010762 RNA binding site [nucleotide binding]; other site 375451010763 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 375451010764 RNA binding site [nucleotide binding]; other site 375451010765 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 375451010766 RNA binding site [nucleotide binding]; other site 375451010767 cytidylate kinase; Provisional; Region: cmk; PRK00023 375451010768 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 375451010769 CMP-binding site; other site 375451010770 The sites determining sugar specificity; other site 375451010771 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 375451010772 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 375451010773 hinge; other site 375451010774 active site 375451010775 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 375451010776 S-adenosylmethionine synthetase; Validated; Region: PRK05250 375451010777 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 375451010778 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 375451010779 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 375451010780 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 375451010781 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 375451010782 putative active site [active] 375451010783 catalytic triad [active] 375451010784 putative dimer interface [polypeptide binding]; other site 375451010785 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 375451010786 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 375451010787 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 375451010788 Transporter associated domain; Region: CorC_HlyC; smart01091 375451010789 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 375451010790 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 375451010791 PhoH-like protein; Region: PhoH; pfam02562 375451010792 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 375451010793 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 375451010794 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 375451010795 FeS/SAM binding site; other site 375451010796 TRAM domain; Region: TRAM; cl01282 375451010797 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 375451010798 metal binding site 2 [ion binding]; metal-binding site 375451010799 putative DNA binding helix; other site 375451010800 metal binding site 1 [ion binding]; metal-binding site 375451010801 dimer interface [polypeptide binding]; other site 375451010802 structural Zn2+ binding site [ion binding]; other site 375451010803 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 375451010804 active site 1 [active] 375451010805 dimer interface [polypeptide binding]; other site 375451010806 active site 2 [active] 375451010807 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 375451010808 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 375451010809 dimer interface [polypeptide binding]; other site 375451010810 active site 375451010811 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 375451010812 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 375451010813 NAD binding site [chemical binding]; other site 375451010814 homotetramer interface [polypeptide binding]; other site 375451010815 homodimer interface [polypeptide binding]; other site 375451010816 substrate binding site [chemical binding]; other site 375451010817 active site 375451010818 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 375451010819 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 375451010820 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 375451010821 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 375451010822 motif II; other site 375451010823 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 375451010824 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 375451010825 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 375451010826 tetramer interface [polypeptide binding]; other site 375451010827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451010828 catalytic residue [active] 375451010829 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 375451010830 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 375451010831 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 375451010832 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 375451010833 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 375451010834 tetramer interface [polypeptide binding]; other site 375451010835 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 375451010836 putative substrate translocation pore; other site 375451010837 D-galactonate transporter; Region: 2A0114; TIGR00893 375451010838 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 375451010839 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 375451010840 NAD binding site [chemical binding]; other site 375451010841 catalytic Zn binding site [ion binding]; other site 375451010842 substrate binding site [chemical binding]; other site 375451010843 structural Zn binding site [ion binding]; other site 375451010844 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 375451010845 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 375451010846 active site pocket [active] 375451010847 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 375451010848 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 375451010849 substrate binding site [chemical binding]; other site 375451010850 THF binding site; other site 375451010851 zinc-binding site [ion binding]; other site 375451010852 Cupin domain; Region: Cupin_2; pfam07883 375451010853 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451010854 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451010855 Transcriptional regulators [Transcription]; Region: PurR; COG1609 375451010856 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 375451010857 DNA binding site [nucleotide binding] 375451010858 domain linker motif; other site 375451010859 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 375451010860 putative dimerization interface [polypeptide binding]; other site 375451010861 putative ligand binding site [chemical binding]; other site 375451010862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451010863 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 375451010864 NAD(P) binding site [chemical binding]; other site 375451010865 active site 375451010866 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451010867 SnoaL-like domain; Region: SnoaL_2; pfam12680 375451010868 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451010869 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 375451010870 histidinol dehydrogenase; Region: hisD; TIGR00069 375451010871 NAD binding site [chemical binding]; other site 375451010872 dimerization interface [polypeptide binding]; other site 375451010873 product binding site; other site 375451010874 substrate binding site [chemical binding]; other site 375451010875 zinc binding site [ion binding]; other site 375451010876 catalytic residues [active] 375451010877 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 375451010878 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451010879 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 375451010880 putative PBP binding loops; other site 375451010881 dimer interface [polypeptide binding]; other site 375451010882 ABC-ATPase subunit interface; other site 375451010883 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 375451010884 dimer interface [polypeptide binding]; other site 375451010885 conserved gate region; other site 375451010886 ABC-ATPase subunit interface; other site 375451010887 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451010888 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451010889 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 375451010890 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 375451010891 Walker A/P-loop; other site 375451010892 ATP binding site [chemical binding]; other site 375451010893 Q-loop/lid; other site 375451010894 ABC transporter signature motif; other site 375451010895 Walker B; other site 375451010896 D-loop; other site 375451010897 H-loop/switch region; other site 375451010898 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 375451010899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451010900 FAD binding site [chemical binding]; other site 375451010901 substrate binding pocket [chemical binding]; other site 375451010902 catalytic base [active] 375451010903 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 375451010904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451010905 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 375451010906 dimerization interface [polypeptide binding]; other site 375451010907 Uncharacterized conserved protein [Function unknown]; Region: COG2135 375451010908 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 375451010909 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 375451010910 active site 375451010911 metal binding site [ion binding]; metal-binding site 375451010912 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 375451010913 Protein of unknown function (DUF952); Region: DUF952; pfam06108 375451010914 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 375451010915 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 375451010916 active site 375451010917 catalytic residues [active] 375451010918 FMN binding site [chemical binding]; other site 375451010919 quinone interaction residues [chemical binding]; other site 375451010920 substrate binding site [chemical binding]; other site 375451010921 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 375451010922 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 375451010923 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 375451010924 CoenzymeA binding site [chemical binding]; other site 375451010925 subunit interaction site [polypeptide binding]; other site 375451010926 PHB binding site; other site 375451010927 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 375451010928 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 375451010929 CoenzymeA binding site [chemical binding]; other site 375451010930 subunit interaction site [polypeptide binding]; other site 375451010931 PHB binding site; other site 375451010932 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 375451010933 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 375451010934 DNA binding residues [nucleotide binding] 375451010935 putative dimer interface [polypeptide binding]; other site 375451010936 Autoinducer binding domain; Region: Autoind_bind; pfam03472 375451010937 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451010938 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451010939 DNA binding residues [nucleotide binding] 375451010940 dimerization interface [polypeptide binding]; other site 375451010941 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 375451010942 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 375451010943 DNA binding residues [nucleotide binding] 375451010944 putative dimer interface [polypeptide binding]; other site 375451010945 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 375451010946 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 375451010947 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 375451010948 FAD binding site [chemical binding]; other site 375451010949 substrate binding site [chemical binding]; other site 375451010950 catalytic residues [active] 375451010951 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 375451010952 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 375451010953 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 375451010954 active site 375451010955 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 375451010956 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 375451010957 putative C-terminal domain interface [polypeptide binding]; other site 375451010958 putative GSH binding site (G-site) [chemical binding]; other site 375451010959 putative dimer interface [polypeptide binding]; other site 375451010960 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 375451010961 N-terminal domain interface [polypeptide binding]; other site 375451010962 dimer interface [polypeptide binding]; other site 375451010963 substrate binding pocket (H-site) [chemical binding]; other site 375451010964 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 375451010965 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 375451010966 dimer interface [polypeptide binding]; other site 375451010967 active site 375451010968 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 375451010969 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 375451010970 substrate binding site [chemical binding]; other site 375451010971 oxyanion hole (OAH) forming residues; other site 375451010972 trimer interface [polypeptide binding]; other site 375451010973 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 375451010974 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375451010975 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375451010976 acyl-CoA synthetase; Validated; Region: PRK08162 375451010977 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 375451010978 acyl-activating enzyme (AAE) consensus motif; other site 375451010979 putative active site [active] 375451010980 AMP binding site [chemical binding]; other site 375451010981 putative CoA binding site [chemical binding]; other site 375451010982 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 375451010983 active site 375451010984 phosphopentomutase; Provisional; Region: PRK05362 375451010985 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 375451010986 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 375451010987 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 375451010988 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 375451010989 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 375451010990 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 375451010991 active site 375451010992 catalytic motif [active] 375451010993 Zn binding site [ion binding]; other site 375451010994 Cupin domain; Region: Cupin_2; cl17218 375451010995 Cupin domain; Region: Cupin_2; cl17218 375451010996 NAD-dependent malic enzyme 375451010997 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 375451010998 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 375451010999 acyl-activating enzyme (AAE) consensus motif; other site 375451011000 putative AMP binding site [chemical binding]; other site 375451011001 putative active site [active] 375451011002 putative CoA binding site [chemical binding]; other site 375451011003 CsbD-like; Region: CsbD; cl17424 375451011004 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 375451011005 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 375451011006 ATP-NAD kinase; Region: NAD_kinase; pfam01513 375451011007 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 375451011008 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 375451011009 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 375451011010 dimer interface [polypeptide binding]; other site 375451011011 active site 375451011012 glycine-pyridoxal phosphate binding site [chemical binding]; other site 375451011013 folate binding site [chemical binding]; other site 375451011014 DctM-like transporters; Region: DctM; pfam06808 375451011015 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451011016 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 375451011017 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 375451011018 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 375451011019 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 375451011020 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 375451011021 classical (c) SDRs; Region: SDR_c; cd05233 375451011022 NAD(P) binding site [chemical binding]; other site 375451011023 active site 375451011024 Transcriptional regulators [Transcription]; Region: GntR; COG1802 375451011025 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 375451011026 DNA-binding site [nucleotide binding]; DNA binding site 375451011027 FCD domain; Region: FCD; pfam07729 375451011028 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451011029 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451011030 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451011031 RNA polymerase sigma factor; Provisional; Region: PRK12515 375451011032 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451011033 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 375451011034 DNA binding residues [nucleotide binding] 375451011035 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 375451011036 active site 375451011037 catalytic triad [active] 375451011038 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 375451011039 intersubunit interface [polypeptide binding]; other site 375451011040 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 375451011041 metal binding site [ion binding]; metal-binding site 375451011042 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 375451011043 metal binding site 2 [ion binding]; metal-binding site 375451011044 putative DNA binding helix; other site 375451011045 metal binding site 1 [ion binding]; metal-binding site 375451011046 dimer interface [polypeptide binding]; other site 375451011047 structural Zn2+ binding site [ion binding]; other site 375451011048 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 375451011049 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 375451011050 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 375451011051 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 375451011052 ABC-ATPase subunit interface; other site 375451011053 dimer interface [polypeptide binding]; other site 375451011054 putative PBP binding regions; other site 375451011055 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 375451011056 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 375451011057 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 375451011058 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 375451011059 active site 375451011060 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375451011061 Catalytic site; other site 375451011062 elongation factor Tu; Reviewed; Region: PRK00049 375451011063 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 375451011064 G1 box; other site 375451011065 GEF interaction site [polypeptide binding]; other site 375451011066 GTP/Mg2+ binding site [chemical binding]; other site 375451011067 Switch I region; other site 375451011068 G2 box; other site 375451011069 G3 box; other site 375451011070 Switch II region; other site 375451011071 G4 box; other site 375451011072 G5 box; other site 375451011073 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 375451011074 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 375451011075 Antibiotic Binding Site [chemical binding]; other site 375451011076 elongation factor G; Reviewed; Region: PRK00007 375451011077 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 375451011078 G1 box; other site 375451011079 putative GEF interaction site [polypeptide binding]; other site 375451011080 GTP/Mg2+ binding site [chemical binding]; other site 375451011081 Switch I region; other site 375451011082 G2 box; other site 375451011083 G3 box; other site 375451011084 Switch II region; other site 375451011085 G4 box; other site 375451011086 G5 box; other site 375451011087 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 375451011088 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 375451011089 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 375451011090 30S ribosomal protein S7; Validated; Region: PRK05302 375451011091 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 375451011092 S17 interaction site [polypeptide binding]; other site 375451011093 S8 interaction site; other site 375451011094 16S rRNA interaction site [nucleotide binding]; other site 375451011095 streptomycin interaction site [chemical binding]; other site 375451011096 23S rRNA interaction site [nucleotide binding]; other site 375451011097 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 375451011098 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451011099 EamA-like transporter family; Region: EamA; cl17759 375451011100 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 375451011101 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 375451011102 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 375451011103 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 375451011104 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 375451011105 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 375451011106 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 375451011107 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 375451011108 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 375451011109 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 375451011110 DNA binding site [nucleotide binding] 375451011111 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 375451011112 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 375451011113 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 375451011114 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 375451011115 RPB11 interaction site [polypeptide binding]; other site 375451011116 RPB12 interaction site [polypeptide binding]; other site 375451011117 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 375451011118 RPB3 interaction site [polypeptide binding]; other site 375451011119 RPB1 interaction site [polypeptide binding]; other site 375451011120 RPB11 interaction site [polypeptide binding]; other site 375451011121 RPB10 interaction site [polypeptide binding]; other site 375451011122 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 375451011123 core dimer interface [polypeptide binding]; other site 375451011124 peripheral dimer interface [polypeptide binding]; other site 375451011125 L10 interface [polypeptide binding]; other site 375451011126 L11 interface [polypeptide binding]; other site 375451011127 putative EF-Tu interaction site [polypeptide binding]; other site 375451011128 putative EF-G interaction site [polypeptide binding]; other site 375451011129 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 375451011130 23S rRNA interface [nucleotide binding]; other site 375451011131 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 375451011132 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 375451011133 mRNA/rRNA interface [nucleotide binding]; other site 375451011134 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 375451011135 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 375451011136 23S rRNA interface [nucleotide binding]; other site 375451011137 L7/L12 interface [polypeptide binding]; other site 375451011138 putative thiostrepton binding site; other site 375451011139 L25 interface [polypeptide binding]; other site 375451011140 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 375451011141 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 375451011142 putative homodimer interface [polypeptide binding]; other site 375451011143 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 375451011144 heterodimer interface [polypeptide binding]; other site 375451011145 homodimer interface [polypeptide binding]; other site 375451011146 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 375451011147 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 375451011148 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 375451011149 dimer interface [polypeptide binding]; other site 375451011150 conserved gate region; other site 375451011151 putative PBP binding loops; other site 375451011152 ABC-ATPase subunit interface; other site 375451011153 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 375451011154 dimer interface [polypeptide binding]; other site 375451011155 conserved gate region; other site 375451011156 putative PBP binding loops; other site 375451011157 ABC-ATPase subunit interface; other site 375451011158 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451011159 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451011160 Walker A/P-loop; other site 375451011161 ATP binding site [chemical binding]; other site 375451011162 Q-loop/lid; other site 375451011163 ABC transporter signature motif; other site 375451011164 Walker B; other site 375451011165 D-loop; other site 375451011166 H-loop/switch region; other site 375451011167 TOBE domain; Region: TOBE_2; pfam08402 375451011168 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451011169 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451011170 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451011171 YceI-like domain; Region: YceI; pfam04264 375451011172 RNA polymerase sigma factor, SigM family; Region: SigM_subfam; TIGR02950 375451011173 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 375451011174 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 375451011175 DNA binding residues [nucleotide binding] 375451011176 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 375451011177 Putative zinc-finger; Region: zf-HC2; pfam13490 375451011178 TniQ; Region: TniQ; pfam06527 375451011179 AAA domain; Region: AAA_22; pfam13401 375451011180 AAA ATPase domain; Region: AAA_16; pfam13191 375451011181 Integrase core domain; Region: rve; pfam00665 375451011182 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 375451011183 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 375451011184 TniQ; Region: TniQ; pfam06527 375451011185 AAA domain; Region: AAA_22; pfam13401 375451011186 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 375451011187 Walker A motif; other site 375451011188 ATP binding site [chemical binding]; other site 375451011189 Walker B motif; other site 375451011190 arginine finger; other site 375451011191 Mu DNA binding, I gamma subdomain; Region: HTH_Tnp_Mu_2; pfam09039 375451011192 Integrase core domain; Region: rve; pfam00665 375451011193 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 375451011194 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 375451011195 HsdM N-terminal domain; Region: HsdM_N; pfam12161 375451011196 Methyltransferase domain; Region: Methyltransf_26; pfam13659 375451011197 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 375451011198 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 375451011199 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 375451011200 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 375451011201 ATP binding site [chemical binding]; other site 375451011202 putative Mg++ binding site [ion binding]; other site 375451011203 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 375451011204 Walker A motif; other site 375451011205 ATP binding site [chemical binding]; other site 375451011206 Walker B motif; other site 375451011207 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 375451011208 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 375451011209 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 375451011210 active site 375451011211 dimer interface [polypeptide binding]; other site 375451011212 effector binding site; other site 375451011213 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 375451011214 non-specific DNA binding site [nucleotide binding]; other site 375451011215 salt bridge; other site 375451011216 sequence-specific DNA binding site [nucleotide binding]; other site 375451011217 TSCPD domain; Region: TSCPD; pfam12637 375451011218 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 375451011219 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 375451011220 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 375451011221 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 375451011222 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451011223 motif 1; other site 375451011224 dimer interface [polypeptide binding]; other site 375451011225 active site 375451011226 motif 2; other site 375451011227 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451011228 active site 375451011229 motif 3; other site 375451011230 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 375451011231 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 375451011232 dimer interface [polypeptide binding]; other site 375451011233 motif 1; other site 375451011234 motif 2; other site 375451011235 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 375451011236 active site 375451011237 motif 3; other site 375451011238 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 375451011239 anticodon binding site; other site 375451011240 SlyX; Region: SlyX; pfam04102 375451011241 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 375451011242 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 375451011243 putative active site [active] 375451011244 putative PHP Thumb interface [polypeptide binding]; other site 375451011245 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 375451011246 generic binding surface II; other site 375451011247 generic binding surface I; other site 375451011248 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 375451011249 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 375451011250 catalytic loop [active] 375451011251 iron binding site [ion binding]; other site 375451011252 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375451011253 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 375451011254 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 375451011255 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451011256 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451011257 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 375451011258 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 375451011259 XdhC Rossmann domain; Region: XdhC_C; pfam13478 375451011260 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 375451011261 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 375451011262 Walker A/P-loop; other site 375451011263 ATP binding site [chemical binding]; other site 375451011264 Q-loop/lid; other site 375451011265 ABC transporter signature motif; other site 375451011266 Walker B; other site 375451011267 D-loop; other site 375451011268 H-loop/switch region; other site 375451011269 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 375451011270 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451011271 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 375451011272 TM-ABC transporter signature motif; other site 375451011273 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 375451011274 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 375451011275 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 375451011276 TM-ABC transporter signature motif; other site 375451011277 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 375451011278 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 375451011279 putative ligand binding site [chemical binding]; other site 375451011280 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 375451011281 Ligand Binding Site [chemical binding]; other site 375451011282 glutamate--cysteine ligase; Region: PLN02611 375451011283 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 375451011284 UbiA prenyltransferase family; Region: UbiA; pfam01040 375451011285 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 375451011286 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 375451011287 ligand binding site [chemical binding]; other site 375451011288 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 375451011289 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 375451011290 Ligand Binding Site [chemical binding]; other site 375451011291 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 375451011292 MoaE homodimer interface [polypeptide binding]; other site 375451011293 MoaD interaction [polypeptide binding]; other site 375451011294 active site residues [active] 375451011295 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 375451011296 MoaE interaction surface [polypeptide binding]; other site 375451011297 MoeB interaction surface [polypeptide binding]; other site 375451011298 thiocarboxylated glycine; other site 375451011299 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 375451011300 excinuclease ABC, C subunit 375451011301 short chain dehydrogenase; Provisional; Region: PRK09134 375451011302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451011303 NAD(P) binding site [chemical binding]; other site 375451011304 active site 375451011305 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 375451011306 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 375451011307 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 375451011308 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 375451011309 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 375451011310 tandem repeat interface [polypeptide binding]; other site 375451011311 oligomer interface [polypeptide binding]; other site 375451011312 active site residues [active] 375451011313 ABC-2 type transporter; Region: ABC2_membrane; cl17235 375451011314 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 375451011315 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 375451011316 Walker A/P-loop; other site 375451011317 ATP binding site [chemical binding]; other site 375451011318 Q-loop/lid; other site 375451011319 ABC transporter signature motif; other site 375451011320 Walker B; other site 375451011321 D-loop; other site 375451011322 H-loop/switch region; other site 375451011323 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 375451011324 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 375451011325 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 375451011326 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 375451011327 NAD(P) binding site [chemical binding]; other site 375451011328 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 375451011329 reductive dehalogenase; Region: RDH; TIGR02486 375451011330 reductive dehalogenase; Region: RDH; TIGR02486 375451011331 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 375451011332 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 375451011333 FMN-binding pocket [chemical binding]; other site 375451011334 flavin binding motif; other site 375451011335 phosphate binding motif [ion binding]; other site 375451011336 beta-alpha-beta structure motif; other site 375451011337 NAD binding pocket [chemical binding]; other site 375451011338 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 375451011339 catalytic loop [active] 375451011340 iron binding site [ion binding]; other site 375451011341 choline dehydrogenase; Validated; Region: PRK02106 375451011342 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 375451011343 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 375451011344 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 375451011345 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 375451011346 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 375451011347 DctM-like transporters; Region: DctM; pfam06808 375451011348 Transcriptional regulator [Transcription]; Region: IclR; COG1414 375451011349 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 375451011350 Bacterial transcriptional regulator; Region: IclR; pfam01614 375451011351 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 375451011352 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 375451011353 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 375451011354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 375451011355 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 375451011356 Uncharacterized conserved protein [Function unknown]; Region: COG2308 375451011357 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 375451011358 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 375451011359 Ligand Binding Site [chemical binding]; other site 375451011360 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 375451011361 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 375451011362 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 375451011363 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 375451011364 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 375451011365 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 375451011366 hydroxyglutarate oxidase; Provisional; Region: PRK11728 375451011367 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 375451011368 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 375451011369 hypothetical protein; Provisional; Region: PRK07483 375451011370 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 375451011371 inhibitor-cofactor binding pocket; inhibition site 375451011372 pyridoxal 5'-phosphate binding site [chemical binding]; other site 375451011373 catalytic residue [active] 375451011374 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 375451011375 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 375451011376 Penicillinase repressor; Region: Pencillinase_R; pfam03965 375451011377 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 375451011378 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 375451011379 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 375451011380 dimer interface [polypeptide binding]; other site 375451011381 conserved gate region; other site 375451011382 putative PBP binding loops; other site 375451011383 ABC-ATPase subunit interface; other site 375451011384 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 375451011385 putative PBP binding loops; other site 375451011386 dimer interface [polypeptide binding]; other site 375451011387 ABC-ATPase subunit interface; other site 375451011388 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451011389 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 375451011390 Walker A/P-loop; other site 375451011391 ATP binding site [chemical binding]; other site 375451011392 Q-loop/lid; other site 375451011393 ABC transporter signature motif; other site 375451011394 Walker B; other site 375451011395 D-loop; other site 375451011396 H-loop/switch region; other site 375451011397 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 375451011398 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 375451011399 Walker A/P-loop; other site 375451011400 ATP binding site [chemical binding]; other site 375451011401 Q-loop/lid; other site 375451011402 ABC transporter signature motif; other site 375451011403 Walker B; other site 375451011404 D-loop; other site 375451011405 H-loop/switch region; other site 375451011406 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 375451011407 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 375451011408 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 375451011409 active site 375451011410 VCBS repeat; Region: VCBS_repeat; TIGR01965 375451011411 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451011412 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451011413 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 375451011414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451011415 Walker A/P-loop; other site 375451011416 ATP binding site [chemical binding]; other site 375451011417 Q-loop/lid; other site 375451011418 ABC transporter signature motif; other site 375451011419 Walker B; other site 375451011420 D-loop; other site 375451011421 H-loop/switch region; other site 375451011422 TOBE domain; Region: TOBE_2; pfam08402 375451011423 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 375451011424 dimer interface [polypeptide binding]; other site 375451011425 conserved gate region; other site 375451011426 putative PBP binding loops; other site 375451011427 ABC-ATPase subunit interface; other site 375451011428 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 375451011429 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 375451011430 dimer interface [polypeptide binding]; other site 375451011431 conserved gate region; other site 375451011432 putative PBP binding loops; other site 375451011433 ABC-ATPase subunit interface; other site 375451011434 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 375451011435 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 375451011436 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 375451011437 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 375451011438 active site 375451011439 Zn binding site [ion binding]; other site 375451011440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451011441 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 375451011442 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 375451011443 homotrimer interaction site [polypeptide binding]; other site 375451011444 putative active site [active] 375451011445 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 375451011446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451011447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451011448 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 375451011449 putative substrate binding pocket [chemical binding]; other site 375451011450 dimerization interface [polypeptide binding]; other site 375451011451 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 375451011452 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 375451011453 FMN binding site [chemical binding]; other site 375451011454 active site 375451011455 homodimer interface [polypeptide binding]; other site 375451011456 putative catalytic residue [active] 375451011457 4Fe-4S cluster binding site [ion binding]; other site 375451011458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 375451011459 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451011460 acetylornithine deacetylase; Provisional; Region: PRK07522 375451011461 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 375451011462 metal binding site [ion binding]; metal-binding site 375451011463 putative dimer interface [polypeptide binding]; other site 375451011464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 375451011465 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 375451011466 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 375451011467 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 375451011468 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 375451011469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451011470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451011471 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 375451011472 dimerization interface [polypeptide binding]; other site 375451011473 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 375451011474 amidase catalytic site [active] 375451011475 Zn binding residues [ion binding]; other site 375451011476 substrate binding site [chemical binding]; other site 375451011477 Predicted membrane protein [Function unknown]; Region: COG3748 375451011478 Protein of unknown function (DUF989); Region: DUF989; pfam06181 375451011479 Cytochrome c; Region: Cytochrom_C; pfam00034 375451011480 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451011481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451011482 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 375451011483 putative effector binding pocket; other site 375451011484 dimerization interface [polypeptide binding]; other site 375451011485 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 375451011486 active site 375451011487 homotetramer interface [polypeptide binding]; other site 375451011488 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 375451011489 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 375451011490 active site 375451011491 catalytic site [active] 375451011492 tetramer interface [polypeptide binding]; other site 375451011493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 375451011494 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 375451011495 ureidoglycolate hydrolase; Provisional; Region: PRK03606 375451011496 xanthine permease; Region: pbuX; TIGR03173 375451011497 Beta/Gamma crystallin; Region: Crystall; cl02528 375451011498 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 375451011499 putative dimer interface [polypeptide binding]; other site 375451011500 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451011501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 375451011502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 375451011503 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 375451011504 short chain dehydrogenase; Provisional; Region: PRK12829 375451011505 classical (c) SDRs; Region: SDR_c; cd05233 375451011506 NAD(P) binding site [chemical binding]; other site 375451011507 active site 375451011508 3-hydroxyacyl-CoA dehydrogenase; Validated; Region: PRK06129 375451011509 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 375451011510 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 375451011511 classical (c) SDRs; Region: SDR_c; cd05233 375451011512 NAD(P) binding site [chemical binding]; other site 375451011513 active site 375451011514 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 375451011515 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 375451011516 Coenzyme A binding pocket [chemical binding]; other site 375451011517 siroheme synthase; Provisional; Region: cysG; PRK10637 375451011518 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 375451011519 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 375451011520 active site 375451011521 SAM binding site [chemical binding]; other site 375451011522 homodimer interface [polypeptide binding]; other site 375451011523 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 375451011524 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 375451011525 [4Fe-4S] binding site [ion binding]; other site 375451011526 molybdopterin cofactor binding site; other site 375451011527 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 375451011528 molybdopterin cofactor binding site; other site 375451011529 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 375451011530 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 375451011531 [2Fe-2S] cluster binding site [ion binding]; other site 375451011532 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 375451011533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 375451011534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 375451011535 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 375451011536 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 375451011537 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451011538 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375451011539 Walker A/P-loop; other site 375451011540 ATP binding site [chemical binding]; other site 375451011541 Q-loop/lid; other site 375451011542 ABC transporter signature motif; other site 375451011543 Walker B; other site 375451011544 D-loop; other site 375451011545 H-loop/switch region; other site 375451011546 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 375451011547 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 375451011548 Walker A/P-loop; other site 375451011549 ATP binding site [chemical binding]; other site 375451011550 Q-loop/lid; other site 375451011551 ABC transporter signature motif; other site 375451011552 Walker B; other site 375451011553 D-loop; other site 375451011554 H-loop/switch region; other site 375451011555 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 375451011556 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 375451011557 dimer interface [polypeptide binding]; other site 375451011558 conserved gate region; other site 375451011559 putative PBP binding loops; other site 375451011560 ABC-ATPase subunit interface; other site 375451011561 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 375451011562 NMT1-like family; Region: NMT1_2; pfam13379 375451011563 NMT1-like family; Region: NMT1_2; pfam13379 375451011564 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 375451011565 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 375451011566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 375451011567 active site 375451011568 phosphorylation site [posttranslational modification] 375451011569 intermolecular recognition site; other site 375451011570 dimerization interface [polypeptide binding]; other site 375451011571 ANTAR domain; Region: ANTAR; pfam03861 375451011572 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 375451011573 AAA domain; Region: AAA_33; pfam13671 375451011574 AAA domain; Region: AAA_17; pfam13207 375451011575 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 375451011576 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375451011577 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 375451011578 S-adenosylmethionine binding site [chemical binding]; other site 375451011579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451011580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451011581 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 375451011582 dimerization interface [polypeptide binding]; other site 375451011583 Domain of unknown function (DUF4281); Region: DUF4281; pfam14108 375451011584 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 375451011585 Na binding site [ion binding]; other site 375451011586 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 375451011587 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 375451011588 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 375451011589 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 375451011590 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 375451011591 putative hemin binding site; other site 375451011592 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 375451011593 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 375451011594 ABC-ATPase subunit interface; other site 375451011595 dimer interface [polypeptide binding]; other site 375451011596 putative PBP binding regions; other site 375451011597 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 375451011598 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 375451011599 Walker A/P-loop; other site 375451011600 ATP binding site [chemical binding]; other site 375451011601 Q-loop/lid; other site 375451011602 ABC transporter signature motif; other site 375451011603 Walker B; other site 375451011604 D-loop; other site 375451011605 H-loop/switch region; other site 375451011606 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 375451011607 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 375451011608 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 375451011609 N-terminal plug; other site 375451011610 ligand-binding site [chemical binding]; other site 375451011611 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 375451011612 Zn binding site [ion binding]; other site 375451011613 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 375451011614 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 375451011615 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 375451011616 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 375451011617 LytTr DNA-binding domain; Region: LytTR; smart00850 375451011618 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 375451011619 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 375451011620 Walker A/P-loop; other site 375451011621 ATP binding site [chemical binding]; other site 375451011622 Q-loop/lid; other site 375451011623 ABC transporter signature motif; other site 375451011624 Walker B; other site 375451011625 D-loop; other site 375451011626 H-loop/switch region; other site 375451011627 UDP-glucose 4-epimerase; Region: PLN02240 375451011628 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 375451011629 NAD binding site [chemical binding]; other site 375451011630 homodimer interface [polypeptide binding]; other site 375451011631 active site 375451011632 substrate binding site [chemical binding]; other site 375451011633 TPR repeat; Region: TPR_11; pfam13414 375451011634 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 375451011635 NeuB family; Region: NeuB; pfam03102 375451011636 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 375451011637 NeuB binding interface [polypeptide binding]; other site 375451011638 putative substrate binding site [chemical binding]; other site 375451011639 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 375451011640 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 375451011641 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 375451011642 ligand binding site; other site 375451011643 tetramer interface; other site 375451011644 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 375451011645 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 375451011646 PAS domain; Region: PAS_9; pfam13426 375451011647 putative active site [active] 375451011648 heme pocket [chemical binding]; other site 375451011649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 375451011650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 375451011651 metal binding site [ion binding]; metal-binding site 375451011652 active site 375451011653 I-site; other site 375451011654 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 375451011655 Domain of unknown function (DUF4157); Region: DUF4157; pfam13699 375451011656 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 375451011657 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 375451011658 substrate binding pocket [chemical binding]; other site 375451011659 Methyltransferase domain; Region: Methyltransf_23; pfam13489 375451011660 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 375451011661 S-adenosylmethionine binding site [chemical binding]; other site 375451011662 Protein of unknown function (DUF4255); Region: DUF4255; pfam14065 375451011663 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 375451011664 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 375451011665 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 375451011666 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 375451011667 Phage protein D [General function prediction only]; Region: COG3500 375451011668 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 375451011669 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 375451011670 Uncharacterized conserved protein [Function unknown]; Region: COG4104 375451011671 Gene 25-like lysozyme; Region: GPW_gp25; pfam04965 375451011672 conserved hypothetical protein, phage tail-like region; Region: TIGR02243 375451011673 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 375451011674 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 375451011675 Walker B motif; other site 375451011676 arginine finger; other site 375451011677 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 375451011678 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 375451011679 putative dimer interface [polypeptide binding]; other site 375451011680 [2Fe-2S] cluster binding site [ion binding]; other site 375451011681 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 375451011682 SLBB domain; Region: SLBB; pfam10531 375451011683 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 375451011684 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 375451011685 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 375451011686 catalytic loop [active] 375451011687 iron binding site [ion binding]; other site 375451011688 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 375451011689 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 375451011690 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 375451011691 [4Fe-4S] binding site [ion binding]; other site 375451011692 molybdopterin cofactor binding site; other site 375451011693 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 375451011694 molybdopterin cofactor binding site; other site 375451011695 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 375451011696 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 375451011697 Potassium binding sites [ion binding]; other site 375451011698 Cesium cation binding sites [ion binding]; other site 375451011699 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 375451011700 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 375451011701 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 375451011702 homodimer interface [polypeptide binding]; other site 375451011703 NADP binding site [chemical binding]; other site 375451011704 substrate binding site [chemical binding]; other site 375451011705 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 375451011706 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 375451011707 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 375451011708 homodimer interface [polypeptide binding]; other site 375451011709 NADP binding site [chemical binding]; other site 375451011710 substrate binding site [chemical binding]; other site 375451011711 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 375451011712 heme-binding site [chemical binding]; other site 375451011713 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 375451011714 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 375451011715 MOFRL family; Region: MOFRL; pfam05161 375451011716 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 375451011717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 375451011718 active site 375451011719 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 375451011720 phosphorylation site [posttranslational modification] 375451011721 intermolecular recognition site; other site 375451011722 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 375451011723 DNA binding residues [nucleotide binding] 375451011724 dimerization interface [polypeptide binding]; other site 375451011725 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 375451011726 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 375451011727 catalytic residue [active] 375451011728 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 375451011729 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 375451011730 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 375451011731 CoA-ligase; Region: Ligase_CoA; pfam00549 375451011732 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 375451011733 CoA binding domain; Region: CoA_binding; smart00881 375451011734 CoA-ligase; Region: Ligase_CoA; pfam00549 375451011735 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 375451011736 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 375451011737 dimerization interface [polypeptide binding]; other site 375451011738 ligand binding site [chemical binding]; other site 375451011739 NADP binding site [chemical binding]; other site 375451011740 catalytic site [active] 375451011741 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 375451011742 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 375451011743 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 375451011744 dimer interface [polypeptide binding]; other site 375451011745 active site 375451011746 glycine-pyridoxal phosphate binding site [chemical binding]; other site 375451011747 folate binding site [chemical binding]; other site 375451011748 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 375451011749 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 375451011750 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 375451011751 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 375451011752 active site 375451011753 FMN binding site [chemical binding]; other site 375451011754 substrate binding site [chemical binding]; other site 375451011755 3Fe-4S cluster binding site [ion binding]; other site 375451011756 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 375451011757 domain_subunit interface; other site 375451011758 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 375451011759 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 375451011760 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 375451011761 putative active site [active] 375451011762 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 375451011763 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 375451011764 BCCT family transporter; Region: BCCT; pfam02028 375451011765 Winged helix-turn helix; Region: HTH_29; pfam13551 375451011766 Helix-turn-helix domain; Region: HTH_28; pfam13518 375451011767 Integrase core domain; Region: rve; pfam00665 375451011768 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 375451011769 Integrase core domain; Region: rve_3; pfam13683 375451011770 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 375451011771 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 375451011772 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 375451011773 Walker A motif; other site 375451011774 ATP binding site [chemical binding]; other site 375451011775 Walker B motif; other site 375451011776 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 375451011777 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 375451011778 VirB7 interaction site; other site 375451011779 VirB8 protein; Region: VirB8; pfam04335 375451011780 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 375451011781 Type IV secretion system proteins; Region: T4SS; pfam07996 375451011782 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 375451011783 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 375451011784 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 375451011785 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 375451011786 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 375451011787 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 375451011788 N-acetyl-D-glucosamine binding site [chemical binding]; other site 375451011789 catalytic residue [active] 375451011790 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 375451011791 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 375451011792 P-loop; other site 375451011793 Magnesium ion binding site [ion binding]; other site 375451011794 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 375451011795 ParB-like nuclease domain; Region: ParBc; pfam02195 375451011796 Replication protein C N-terminal domain; Region: RP-C; pfam03428 375451011797 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 375451011798 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 375451011799 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 375451011800 oligomeric interface; other site 375451011801 putative active site [active] 375451011802 homodimer interface [polypeptide binding]; other site 375451011803 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 375451011804 active site 375451011805 Int/Topo IB signature motif; other site 375451011806 DNA binding site [nucleotide binding] 375451011807 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 375451011808 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 375451011809 Protein of unknown function (DUF433); Region: DUF433; pfam04255 375451011810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 375451011811 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 375451011812 tellurite resistance protein terB; Region: terB; cd07176 375451011813 putative metal binding site [ion binding]; other site 375451011814 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 375451011815 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 375451011816 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 375451011817 ATP binding site [chemical binding]; other site 375451011818 putative Mg++ binding site [ion binding]; other site 375451011819 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 375451011820 nucleotide binding region [chemical binding]; other site 375451011821 ATP-binding site [chemical binding]; other site 375451011822 Mpr1p, Pad1p N-terminal (MPN) domains; Region: MPN; cl13996 375451011823 Ubiquitin-conjugating enzyme E2, catalytic (UBCc) domain. This is part of the ubiquitin-mediated protein degradation pathway in which a thiol-ester linkage forms between a conserved cysteine and the C-terminus of ubiquitin and complexes with ubiquitin...; Region: UBCc; cl00154 375451011824 ThiF family; Region: ThiF; pfam00899 375451011825 ATP binding site [chemical binding]; other site 375451011826 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 375451011827 active site 375451011828 NTP binding site [chemical binding]; other site 375451011829 metal binding triad [ion binding]; metal-binding site 375451011830 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 375451011831 WYL domain; Region: WYL; pfam13280 375451011832 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 375451011833 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 375451011834 active site 375451011835 metal binding site [ion binding]; metal-binding site 375451011836 DNA binding site [nucleotide binding] 375451011837 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 375451011838 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 375451011839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451011840 Walker A/P-loop; other site 375451011841 ATP binding site [chemical binding]; other site 375451011842 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451011843 Q-loop/lid; other site 375451011844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 375451011845 ABC transporter signature motif; other site 375451011846 Walker B; other site 375451011847 D-loop; other site 375451011848 H-loop/switch region; other site 375451011849 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 375451011850 HNH endonuclease; Region: HNH; pfam01844 375451011851 active site 375451011852 AAA domain; Region: AAA_13; pfam13166 375451011853 AAA domain; Region: AAA_13; pfam13166 375451011854 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 375451011855 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 375451011856 active site 375451011857 DNA binding site [nucleotide binding] 375451011858 Int/Topo IB signature motif; other site 375451011859 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 375451011860 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 375451011861 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 375451011862 DDE domain; Region: DDE_Tnp_IS240; pfam13610 375451011863 Integrase core domain; Region: rve; pfam00665 375451011864 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 375451011865 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 375451011866 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 375451011867 Walker A motif; other site 375451011868 ATP binding site [chemical binding]; other site 375451011869 Walker B motif; other site 375451011870 arginine finger; other site 375451011871 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375451011872 Catalytic site; other site 375451011873 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 375451011874 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 375451011875 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 375451011876 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375451011877 Catalytic site; other site 375451011878 IS21 family transposase 375451011879 multiple promoter invertase; Provisional; Region: mpi; PRK13413 375451011880 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 375451011881 catalytic residues [active] 375451011882 catalytic nucleophile [active] 375451011883 Presynaptic Site I dimer interface [polypeptide binding]; other site 375451011884 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 375451011885 Synaptic Flat tetramer interface [polypeptide binding]; other site 375451011886 Synaptic Site I dimer interface [polypeptide binding]; other site 375451011887 DNA binding site [nucleotide binding] 375451011888 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 375451011889 Staphylococcal nuclease homologues; Region: SNc; smart00318 375451011890 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 375451011891 Catalytic site; other site 375451011892 Protein of unknown function (DUF1419); Region: DUF1419; pfam07215 375451011893 ParB-like nuclease domain; Region: ParBc; cl02129 375451011894 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 375451011895 Ligand Binding Site [chemical binding]; other site 375451011896 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 375451011897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3742 375451011898 putative active site [active] 375451011899 Protein of unknown function (DUF736); Region: DUF736; pfam05284 375451011900 Major Facilitator Superfamily; Region: MFS_1; pfam07690 375451011901 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 375451011902 putative substrate translocation pore; other site 375451011903 Pirin-related protein [General function prediction only]; Region: COG1741 375451011904 Pirin; Region: Pirin; pfam02678 375451011905 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 375451011906 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 375451011907 catalytic core [active] 375451011908 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 375451011909 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451011910 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 375451011911 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 375451011912 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 375451011913 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 375451011914 catalytic loop [active] 375451011915 iron binding site [ion binding]; other site 375451011916 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 375451011917 Transmembrane secretion effector; Region: MFS_3; pfam05977 375451011918 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 375451011919 putative substrate translocation pore; other site 375451011920 Predicted acetyltransferase [General function prediction only]; Region: COG2388 375451011921 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 375451011922 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 375451011923 dimerization interface [polypeptide binding]; other site 375451011924 DPS ferroxidase diiron center [ion binding]; other site 375451011925 ion pore; other site 375451011926 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 375451011927 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 375451011928 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 375451011929 active site 375451011930 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 375451011931 Isochorismatase family; Region: Isochorismatase; pfam00857 375451011932 catalytic triad [active] 375451011933 dimer interface [polypeptide binding]; other site 375451011934 conserved cis-peptide bond; other site 375451011935 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 375451011936 Predicted esterase [General function prediction only]; Region: COG0400 375451011937 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 375451011938 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 375451011939 Zn binding site [ion binding]; other site 375451011940 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 375451011941 Zn binding site [ion binding]; other site 375451011942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 375451011943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 375451011944 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 375451011945 putative effector binding pocket; other site 375451011946 dimerization interface [polypeptide binding]; other site 375451011947 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 375451011948 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451011949 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 375451011950 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 375451011951 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 375451011952 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 375451011953 Domain of unknown function (DUF955); Region: DUF955; cl01076 375451011954 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 375451011955 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 375451011956 P-loop; other site 375451011957 Magnesium ion binding site [ion binding]; other site 375451011958 type IV secretion system T-DNA border endonuclease VirD1; Provisional; Region: PRK13858 375451011959 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 375451011960 type IV secretion system protein VirD4; Provisional; Region: PRK13850 375451011961 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 375451011962 Walker A motif; other site 375451011963 ATP binding site [chemical binding]; other site 375451011964 Walker B motif; other site 375451011965 Domain of unknown function (DUF303); Region: DUF303; pfam03629 375451011966 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 375451011967 Interdomain contacts; other site 375451011968 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 375451011969 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 375451011970 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375451011971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451011972 active site 375451011973 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 375451011974 putative ADP-binding pocket [chemical binding]; other site 375451011975 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 375451011976 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 375451011977 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 375451011978 active site 375451011979 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 375451011980 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 375451011981 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 375451011982 Probable Catalytic site; other site 375451011983 metal-binding site 375451011984 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 375451011985 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 375451011986 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 375451011987 active site 375451011988 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 375451011989 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 375451011990 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 375451011991 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 375451011992 Walker A/P-loop; other site 375451011993 ATP binding site [chemical binding]; other site 375451011994 Q-loop/lid; other site 375451011995 ABC transporter signature motif; other site 375451011996 Walker B; other site 375451011997 D-loop; other site 375451011998 H-loop/switch region; other site 375451011999 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 375451012000 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 375451012001 HlyD family secretion protein; Region: HlyD_3; pfam13437 375451012002 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 375451012003 active site 375451012004 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 375451012005 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 375451012006 active site 375451012007 substrate binding site [chemical binding]; other site 375451012008 metal binding site [ion binding]; metal-binding site 375451012009 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 375451012010 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 375451012011 substrate binding site; other site 375451012012 tetramer interface; other site 375451012013 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 375451012014 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 375451012015 NADP binding site [chemical binding]; other site 375451012016 active site 375451012017 putative substrate binding site [chemical binding]; other site 375451012018 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 375451012019 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 375451012020 NAD binding site [chemical binding]; other site 375451012021 substrate binding site [chemical binding]; other site 375451012022 homodimer interface [polypeptide binding]; other site 375451012023 active site 375451012024 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 375451012025 AAA domain; Region: AAA_31; pfam13614 375451012026 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 375451012027 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 375451012028 Chain length determinant protein; Region: Wzz; cl15801 375451012029 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 375451012030 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 375451012031 Walker A motif; other site 375451012032 ATP binding site [chemical binding]; other site 375451012033 Walker B motif; other site 375451012034 arginine finger; other site 375451012035 Bacterial sugar transferase; Region: Bac_transf; pfam02397 375451012036 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 375451012037 binding surface 375451012038 TPR motif; other site 375451012039 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 375451012040 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 375451012041 TPR motif; other site 375451012042 binding surface 375451012043 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 375451012044 TPR motif; other site 375451012045 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 375451012046 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 375451012047 SLBB domain; Region: SLBB; pfam10531 375451012048 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 375451012049 Rhomboid family; Region: Rhomboid; pfam01694 375451012050 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 375451012051 ATP-sulfurylase; Region: ATPS; cd00517 375451012052 active site 375451012053 HXXH motif; other site 375451012054 flexible loop; other site 375451012055 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 375451012056 ligand-binding site [chemical binding]; other site 375451012057 von Willebrand factor (vWF) type A domain; Region: VWA; smart00327 375451012058 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 375451012059 TPR repeat; Region: TPR_11; pfam13414 375451012060 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 375451012061 binding surface 375451012062 TPR motif; other site 375451012063 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 375451012064 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 375451012065 Substrate binding site; other site 375451012066 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 375451012067 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 375451012068 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 375451012069 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 375451012070 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 375451012071 Acyltransferase family; Region: Acyl_transf_3; pfam01757 375451012072 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 375451012073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451012074 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 375451012075 NAD(P) binding site [chemical binding]; other site 375451012076 active site 375451012077 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 375451012078 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 375451012079 NAD(P) binding site [chemical binding]; other site 375451012080 active site 375451012081 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 375451012082 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 375451012083 ParB-like nuclease domain; Region: ParBc; pfam02195 375451012084 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 375451012085 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 375451012086 P-loop; other site 375451012087 Magnesium ion binding site [ion binding]; other site 375451012088 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 375451012089 Magnesium ion binding site [ion binding]; other site 375451012090 Replication initiator protein A; Region: RPA; pfam10134 375451012091 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 375451012092 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 375451012093 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451012094 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 375451012095 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 375451012096 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 375451012097 Acyltransferase family; Region: Acyl_transf_3; pfam01757 375451012098 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 375451012099 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 375451012100 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 375451012101 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 375451012102 Walker A motif; other site 375451012103 ATP binding site [chemical binding]; other site 375451012104 Walker B motif; other site 375451012105 MobA/MobL family; Region: MobA_MobL; pfam03389 375451012106 multiple promoter invertase; Provisional; Region: mpi; PRK13413 375451012107 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 375451012108 catalytic residues [active] 375451012109 catalytic nucleophile [active] 375451012110 Presynaptic Site I dimer interface [polypeptide binding]; other site 375451012111 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 375451012112 Synaptic Flat tetramer interface [polypeptide binding]; other site 375451012113 Synaptic Site I dimer interface [polypeptide binding]; other site 375451012114 DNA binding site [nucleotide binding] 375451012115 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 375451012116 DNA-binding interface [nucleotide binding]; DNA binding site 375451012117 LAG1, DNA binding; Region: LAG1-DNAbind; pfam09271 375451012118 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 375451012119 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 375451012120 cofactor binding site; other site 375451012121 DNA binding site [nucleotide binding] 375451012122 substrate interaction site [chemical binding]; other site 375451012123 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 375451012124 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 375451012125 AAA domain; Region: AAA_31; pfam13614 375451012126 P-loop; other site 375451012127 Magnesium ion binding site [ion binding]; other site 375451012128 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 375451012129 Replication initiator protein A; Region: RPA; pfam10134