-- dump date 20120504_131607 -- class Genbank::misc_feature -- table misc_feature_note -- id note 62977000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 62977000002 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 62977000003 Walker A motif; other site 62977000004 ATP binding site [chemical binding]; other site 62977000005 Walker B motif; other site 62977000006 arginine finger; other site 62977000007 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 62977000008 DnaA box-binding interface [nucleotide binding]; other site 62977000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 62977000010 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 62977000011 putative DNA binding surface [nucleotide binding]; other site 62977000012 dimer interface [polypeptide binding]; other site 62977000013 beta-clamp/clamp loader binding surface; other site 62977000014 beta-clamp/translesion DNA polymerase binding surface; other site 62977000015 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 62977000016 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000017 Walker A/P-loop; other site 62977000018 ATP binding site [chemical binding]; other site 62977000019 Q-loop/lid; other site 62977000020 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000021 ABC transporter signature motif; other site 62977000022 Walker B; other site 62977000023 D-loop; other site 62977000024 H-loop/switch region; other site 62977000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 62977000026 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 62977000027 Mg2+ binding site [ion binding]; other site 62977000028 G-X-G motif; other site 62977000029 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 62977000030 anchoring element; other site 62977000031 dimer interface [polypeptide binding]; other site 62977000032 ATP binding site [chemical binding]; other site 62977000033 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 62977000034 active site 62977000035 putative metal-binding site [ion binding]; other site 62977000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 62977000037 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; cl01558 62977000038 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 62977000039 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977000040 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000041 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977000042 ABC transporter; Region: ABC_tran_2; pfam12848 62977000043 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977000044 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 62977000045 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 62977000046 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 62977000047 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 62977000048 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 62977000049 active site 62977000050 HIGH motif; other site 62977000051 dimer interface [polypeptide binding]; other site 62977000052 KMSKS motif; other site 62977000053 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 62977000054 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 62977000055 active site 62977000056 metal binding site [ion binding]; metal-binding site 62977000057 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 62977000058 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977000059 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 62977000060 putative C-terminal domain interface [polypeptide binding]; other site 62977000061 putative GSH binding site (G-site) [chemical binding]; other site 62977000062 putative dimer interface [polypeptide binding]; other site 62977000063 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 62977000064 dimer interface [polypeptide binding]; other site 62977000065 substrate binding pocket (H-site) [chemical binding]; other site 62977000066 N-terminal domain interface [polypeptide binding]; other site 62977000067 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 62977000068 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977000069 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977000070 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 62977000071 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 62977000072 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977000073 active site 62977000074 HIGH motif; other site 62977000075 nucleotide binding site [chemical binding]; other site 62977000076 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 62977000077 active site 62977000078 KMSKS motif; other site 62977000079 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 62977000080 tRNA binding surface [nucleotide binding]; other site 62977000081 anticodon binding site; other site 62977000082 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 62977000083 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 62977000084 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 62977000085 active site 62977000086 Riboflavin kinase; Region: Flavokinase; cl03312 62977000087 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 62977000088 gating phenylalanine in ion channel; other site 62977000089 pyrimidine utilization protein D; Region: RutD; TIGR03611 62977000090 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 62977000091 Helix-turn-helix domains; Region: HTH; cl00088 62977000092 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 62977000093 pyrimidine utilization protein A; Region: RutA; TIGR03612 62977000094 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 62977000095 active site 62977000096 dimer interface [polypeptide binding]; other site 62977000097 non-prolyl cis peptide bond; other site 62977000098 insertion regions; other site 62977000099 Isochorismatase family; Region: Isochorismatase; pfam00857 62977000100 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 62977000101 catalytic triad [active] 62977000102 conserved cis-peptide bond; other site 62977000103 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 62977000104 homotrimer interaction site [polypeptide binding]; other site 62977000105 putative active site [active] 62977000106 Flavin Reductases; Region: FlaRed; cl00801 62977000107 Permease family; Region: Xan_ur_permease; cl00967 62977000108 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 62977000109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000110 NAD(P) binding pocket [chemical binding]; other site 62977000111 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 62977000112 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 62977000113 Walker A/P-loop; other site 62977000114 ATP binding site [chemical binding]; other site 62977000115 Q-loop/lid; other site 62977000116 ABC transporter signature motif; other site 62977000117 Walker B; other site 62977000118 D-loop; other site 62977000119 H-loop/switch region; other site 62977000120 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 62977000121 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 62977000122 putative PBP binding loops; other site 62977000123 dimer interface [polypeptide binding]; other site 62977000124 ABC-ATPase subunit interface; other site 62977000125 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 62977000126 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 62977000127 active site 62977000128 dimer interface [polypeptide binding]; other site 62977000129 non-prolyl cis peptide bond; other site 62977000130 insertion regions; other site 62977000131 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 62977000132 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 62977000133 substrate binding pocket [chemical binding]; other site 62977000134 membrane-bound complex binding site; other site 62977000135 hinge residues; other site 62977000136 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 62977000137 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 62977000138 substrate binding pocket [chemical binding]; other site 62977000139 membrane-bound complex binding site; other site 62977000140 hinge residues; other site 62977000141 N-acetylglutamate synthase; Validated; Region: PRK05279 62977000142 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 62977000143 putative feedback inhibition sensing region; other site 62977000144 putative nucleotide binding site [chemical binding]; other site 62977000145 putative substrate binding site [chemical binding]; other site 62977000146 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977000147 Coenzyme A binding pocket [chemical binding]; other site 62977000148 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977000149 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000151 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 62977000152 NAD(P) binding site [chemical binding]; other site 62977000153 active site 62977000154 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 62977000155 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 62977000156 motif II; other site 62977000157 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 62977000158 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 62977000159 S-adenosylmethionine binding site [chemical binding]; other site 62977000160 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 62977000161 catalytic residues [active] 62977000162 hinge region; other site 62977000163 alpha helical domain; other site 62977000164 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977000165 Helix-turn-helix domains; Region: HTH; cl00088 62977000166 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 62977000167 Helix-turn-helix domains; Region: HTH; cl00088 62977000168 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 62977000169 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 62977000170 FAD binding pocket [chemical binding]; other site 62977000171 FAD binding motif [chemical binding]; other site 62977000172 phosphate binding motif [ion binding]; other site 62977000173 beta-alpha-beta structure motif; other site 62977000174 NAD binding pocket [chemical binding]; other site 62977000175 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 62977000176 catalytic loop [active] 62977000177 iron binding site [ion binding]; other site 62977000178 Fatty acid desaturase; Region: FA_desaturase; pfam00487 62977000179 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 62977000180 putative di-iron ligands [ion binding]; other site 62977000181 ribonuclease PH; Reviewed; Region: rph; PRK00173 62977000182 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 62977000183 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 62977000184 Uncharacterized conserved protein [Function unknown]; Region: COG4104 62977000185 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 62977000186 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 62977000187 dimerization interface [polypeptide binding]; other site 62977000188 active site 62977000189 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 62977000190 substrate binding site [chemical binding]; other site 62977000191 amidase catalytic site [active] 62977000192 Zn binding residues [ion binding]; other site 62977000193 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 62977000194 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 62977000195 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 62977000196 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977000197 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 62977000198 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 62977000199 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977000200 Chain length determinant protein; Region: Wzz; cl01623 62977000201 tyrosine kinase; Provisional; Region: PRK11519 62977000202 Chain length determinant protein; Region: Wzz; cl01623 62977000203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000204 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 62977000205 P loop; other site 62977000206 Nucleotide binding site [chemical binding]; other site 62977000207 DTAP/Switch II; other site 62977000208 Switch I; other site 62977000209 Low molecular weight phosphatase family; Region: LMWPc; cd00115 62977000210 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 62977000211 active site 62977000212 polysaccharide export protein Wza; Provisional; Region: PRK15078 62977000213 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 62977000214 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 62977000215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000216 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 62977000217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000218 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 62977000219 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 62977000220 Probable Catalytic site; other site 62977000221 MatE; Region: MatE; cl10513 62977000222 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 62977000223 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 62977000224 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 62977000225 NAD binding site [chemical binding]; other site 62977000226 substrate binding site [chemical binding]; other site 62977000227 homodimer interface [polypeptide binding]; other site 62977000228 active site 62977000229 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 62977000230 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 62977000231 NADP binding site [chemical binding]; other site 62977000232 active site 62977000233 putative substrate binding site [chemical binding]; other site 62977000234 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 62977000235 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 62977000236 substrate binding site; other site 62977000237 tetramer interface; other site 62977000238 Cupin domain; Region: Cupin_2; cl09118 62977000239 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 62977000240 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 62977000241 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 62977000242 Probable Catalytic site; other site 62977000243 metal-binding site 62977000244 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 62977000245 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 62977000246 Probable Catalytic site; other site 62977000247 metal-binding site 62977000248 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 62977000249 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 62977000250 Substrate binding site; other site 62977000251 Cupin domain; Region: Cupin_2; cl09118 62977000252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000253 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 62977000254 NAD(P) binding pocket [chemical binding]; other site 62977000255 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 62977000256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000257 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 62977000258 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 62977000259 NAD binding site [chemical binding]; other site 62977000260 substrate binding site [chemical binding]; other site 62977000261 homodimer interface [polypeptide binding]; other site 62977000262 active site 62977000263 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 62977000264 MatE; Region: MatE; cl10513 62977000265 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977000266 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 62977000267 putative ADP-binding pocket [chemical binding]; other site 62977000268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977000269 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 62977000270 putative ADP-binding pocket [chemical binding]; other site 62977000271 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 62977000272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977000273 putative ADP-binding pocket [chemical binding]; other site 62977000274 Bacterial sugar transferase; Region: Bac_transf; cl00939 62977000275 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 62977000276 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 62977000277 putative trimer interface [polypeptide binding]; other site 62977000278 putative CoA binding site [chemical binding]; other site 62977000279 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 62977000280 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 62977000281 inhibitor-cofactor binding pocket; inhibition site 62977000282 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977000283 catalytic residue [active] 62977000284 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 62977000285 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 62977000286 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 62977000287 NAD(P) binding site [chemical binding]; other site 62977000288 homodimer interface [polypeptide binding]; other site 62977000289 substrate binding site [chemical binding]; other site 62977000290 active site 62977000291 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 62977000292 Bacterial sugar transferase; Region: Bac_transf; cl00939 62977000293 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 62977000294 active site 62977000295 tetramer interface; other site 62977000296 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 62977000297 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 62977000298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000299 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 62977000300 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 62977000301 active site 62977000302 dimer interface [polypeptide binding]; other site 62977000303 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 62977000304 dimer interface [polypeptide binding]; other site 62977000305 active site 62977000306 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 62977000307 UDP-glucose 4-epimerase; Region: PLN02240 62977000308 NAD binding site [chemical binding]; other site 62977000309 homodimer interface [polypeptide binding]; other site 62977000310 active site 62977000311 substrate binding site [chemical binding]; other site 62977000312 O-Antigen ligase; Region: Wzy_C; cl04850 62977000313 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 62977000314 phosphomannomutase CpsG; Provisional; Region: PRK15414 62977000315 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 62977000316 active site 62977000317 substrate binding site [chemical binding]; other site 62977000318 metal binding site [ion binding]; metal-binding site 62977000319 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977000320 Helix-turn-helix domains; Region: HTH; cl00088 62977000321 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 62977000322 substrate binding pocket [chemical binding]; other site 62977000323 dimerization interface [polypeptide binding]; other site 62977000324 L-lactate permease; Region: Lactate_perm; cl00701 62977000325 glycolate transporter; Provisional; Region: PRK09695 62977000326 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 62977000327 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977000328 DNA-binding site [nucleotide binding]; DNA binding site 62977000329 FCD domain; Region: FCD; cl11656 62977000330 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 62977000331 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 62977000332 active site 62977000333 substrate binding site [chemical binding]; other site 62977000334 FMN binding site [chemical binding]; other site 62977000335 putative catalytic residues [active] 62977000336 D-lactate dehydrogenase; Provisional; Region: PRK11183 62977000337 FAD binding domain; Region: FAD_binding_4; pfam01565 62977000338 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 62977000339 PQ loop repeat; Region: PQ-loop; cl12056 62977000340 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 62977000341 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 62977000342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977000343 homodimer interface [polypeptide binding]; other site 62977000344 catalytic residue [active] 62977000345 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 62977000346 Helix-turn-helix domains; Region: HTH; cl00088 62977000347 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 62977000348 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000349 alanine racemase; Reviewed; Region: dadX; PRK03646 62977000350 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 62977000351 active site 62977000352 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 62977000353 substrate binding site [chemical binding]; other site 62977000354 catalytic residues [active] 62977000355 dimer interface [polypeptide binding]; other site 62977000356 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 62977000357 homotrimer interaction site [polypeptide binding]; other site 62977000358 putative active site [active] 62977000359 Amino acid permease; Region: AA_permease; cl00524 62977000360 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977000361 Fimbrial protein; Region: Fimbrial; cl01416 62977000362 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 62977000363 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; cl15716 62977000364 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 62977000365 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 62977000366 Fimbrial Usher protein; Region: Usher; cl14650 62977000367 putative fimbrial usher protein StbD; Provisional; Region: PRK15247 62977000368 fimbrial assembly chaperone StbE; Provisional; Region: PRK15246 62977000369 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; cl15716 62977000370 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 62977000371 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977000372 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977000373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977000374 EamA-like transporter family; Region: EamA; cl01037 62977000375 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 62977000376 galactarate dehydratase; Region: galactar-dH20; TIGR03248 62977000377 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 62977000378 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 62977000379 D-galactonate transporter; Region: 2A0114; TIGR00893 62977000380 putative substrate translocation pore; other site 62977000381 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 62977000382 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 62977000383 active site 62977000384 tetramer interface [polypeptide binding]; other site 62977000385 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 62977000386 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 62977000387 putative active site [active] 62977000388 catalytic residue [active] 62977000389 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977000390 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 62977000391 dimer interface [polypeptide binding]; other site 62977000392 NADP binding site [chemical binding]; other site 62977000393 catalytic residues [active] 62977000394 Transcriptional regulators [Transcription]; Region: FadR; COG2186 62977000395 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977000396 DNA-binding site [nucleotide binding]; DNA binding site 62977000397 FCD domain; Region: FCD; cl11656 62977000398 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 62977000399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000400 IS2 transposase TnpB; Reviewed; Region: PRK09409 62977000401 Transcriptional regulators [Transcription]; Region: PurR; COG1609 62977000402 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 62977000403 DNA binding site [nucleotide binding] 62977000404 domain linker motif; other site 62977000405 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_8; cd06287 62977000406 putative dimerization interface [polypeptide binding]; other site 62977000407 putative ligand binding site [chemical binding]; other site 62977000408 Permease family; Region: Xan_ur_permease; cl00967 62977000409 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 62977000410 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 62977000411 active site 62977000412 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 62977000413 BolA-like protein; Region: BolA; cl00386 62977000414 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 62977000415 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 62977000416 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 62977000417 P-loop; other site 62977000418 Magnesium ion binding site [ion binding]; other site 62977000419 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 62977000420 Magnesium ion binding site [ion binding]; other site 62977000421 LysE type translocator; Region: LysE; cl00565 62977000422 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 62977000423 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 62977000424 DoxX; Region: DoxX; cl00976 62977000425 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 62977000426 GMP synthase; Reviewed; Region: guaA; PRK00074 62977000427 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 62977000428 AMP/PPi binding site [chemical binding]; other site 62977000429 candidate oxyanion hole; other site 62977000430 catalytic triad [active] 62977000431 potential glutamine specificity residues [chemical binding]; other site 62977000432 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 62977000433 ATP Binding subdomain [chemical binding]; other site 62977000434 Ligand Binding sites [chemical binding]; other site 62977000435 Dimerization subdomain; other site 62977000436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 62977000437 Helix-turn-helix domains; Region: HTH; cl00088 62977000438 Domain of Unknown Function with PDB structure; Region: DUF3861; pfam12977 62977000439 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 62977000440 Cupin domain; Region: Cupin_2; cl09118 62977000441 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 62977000442 OsmC-like protein; Region: OsmC; cl00767 62977000443 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977000444 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 62977000445 putative C-terminal domain interface [polypeptide binding]; other site 62977000446 putative GSH binding site (G-site) [chemical binding]; other site 62977000447 putative dimer interface [polypeptide binding]; other site 62977000448 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 62977000449 putative N-terminal domain interface [polypeptide binding]; other site 62977000450 putative dimer interface [polypeptide binding]; other site 62977000451 putative substrate binding pocket (H-site) [chemical binding]; other site 62977000452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977000453 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977000454 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977000455 EamA-like transporter family; Region: EamA; cl01037 62977000456 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 62977000457 EamA-like transporter family; Region: EamA; cl01037 62977000458 Putative ParB-like nuclease; Region: ParBc_2; cl01772 62977000459 Sporulation related domain; Region: SPOR; cl10051 62977000460 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 62977000461 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 62977000462 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977000463 active site 62977000464 HIGH motif; other site 62977000465 nucleotide binding site [chemical binding]; other site 62977000466 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 62977000467 KMSK motif region; other site 62977000468 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 62977000469 tRNA binding surface [nucleotide binding]; other site 62977000470 anticodon binding site; other site 62977000471 malate dehydrogenase; Provisional; Region: PRK13529 62977000472 Malic enzyme, N-terminal domain; Region: malic; pfam00390 62977000473 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 62977000474 NAD(P) binding site [chemical binding]; other site 62977000475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 62977000476 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 62977000477 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 62977000478 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 62977000479 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977000480 putative peptidoglycan binding site; other site 62977000481 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 62977000482 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 62977000483 LysE type translocator; Region: LysE; cl00565 62977000484 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 62977000485 putative PBP binding regions; other site 62977000486 ABC-ATPase subunit interface; other site 62977000487 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 62977000488 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000489 Walker A/P-loop; other site 62977000490 ATP binding site [chemical binding]; other site 62977000491 Q-loop/lid; other site 62977000492 ABC transporter signature motif; other site 62977000493 Walker B; other site 62977000494 D-loop; other site 62977000495 H-loop/switch region; other site 62977000496 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 62977000497 metal binding site 2 [ion binding]; metal-binding site 62977000498 putative DNA binding helix; other site 62977000499 metal binding site 1 [ion binding]; metal-binding site 62977000500 dimer interface [polypeptide binding]; other site 62977000501 structural Zn2+ binding site [ion binding]; other site 62977000502 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 62977000503 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 62977000504 intersubunit interface [polypeptide binding]; other site 62977000505 ATP synthase I chain; Region: ATP_synt_I; cl09170 62977000506 ATP synthase A chain; Region: ATP-synt_A; cl00413 62977000507 ATP synthase subunit C; Region: ATP-synt_C; cl00466 62977000508 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 62977000509 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 62977000510 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 62977000511 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 62977000512 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 62977000513 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 62977000514 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000515 Walker A motif; other site 62977000516 ATP binding site [chemical binding]; other site 62977000517 Walker B motif; other site 62977000518 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 62977000519 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 62977000520 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 62977000521 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 62977000522 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 62977000523 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 62977000524 alpha subunit interaction interface [polypeptide binding]; other site 62977000525 Walker A motif; other site 62977000526 ATP binding site [chemical binding]; other site 62977000527 Walker B motif; other site 62977000528 inhibitor binding site; inhibition site 62977000529 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 62977000530 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 62977000531 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 62977000532 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 62977000533 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 62977000534 active site 62977000535 phosphate binding residues; other site 62977000536 catalytic residues [active] 62977000537 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 62977000538 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 62977000539 catalytic residues [active] 62977000540 dimer interface [polypeptide binding]; other site 62977000541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977000542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977000543 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 62977000544 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 62977000545 putative substrate translocation pore; other site 62977000546 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977000547 Helix-turn-helix domains; Region: HTH; cl00088 62977000548 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 62977000549 EamA-like transporter family; Region: EamA; cl01037 62977000550 EamA-like transporter family; Region: EamA; cl01037 62977000551 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 62977000552 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 62977000553 putative ligand binding site [chemical binding]; other site 62977000554 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 62977000555 [2Fe-2S] cluster binding site [ion binding]; other site 62977000556 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 62977000557 hydrophobic ligand binding site; other site 62977000558 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977000559 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 62977000560 N-terminal domain interface [polypeptide binding]; other site 62977000561 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 62977000562 Helix-turn-helix domains; Region: HTH; cl00088 62977000563 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 62977000564 putative substrate binding pocket [chemical binding]; other site 62977000565 putative dimerization interface [polypeptide binding]; other site 62977000566 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 62977000567 nucleoside/Zn binding site; other site 62977000568 dimer interface [polypeptide binding]; other site 62977000569 catalytic motif [active] 62977000570 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 62977000571 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 62977000572 Walker A/P-loop; other site 62977000573 ATP binding site [chemical binding]; other site 62977000574 Q-loop/lid; other site 62977000575 ABC transporter signature motif; other site 62977000576 Walker B; other site 62977000577 D-loop; other site 62977000578 H-loop/switch region; other site 62977000579 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 62977000580 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 62977000581 TM-ABC transporter signature motif; other site 62977000582 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 62977000583 TM-ABC transporter signature motif; other site 62977000584 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 62977000585 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 62977000586 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 62977000587 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 62977000588 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 62977000589 active site 62977000590 catalytic residues [active] 62977000591 metal binding site [ion binding]; metal-binding site 62977000592 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 62977000593 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 62977000594 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 62977000595 N-terminal plug; other site 62977000596 ligand-binding site [chemical binding]; other site 62977000597 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977000598 Helix-turn-helix domains; Region: HTH; cl00088 62977000599 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977000600 hypothetical protein; Provisional; Region: PRK01254 62977000601 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 62977000602 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 62977000603 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 62977000604 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 62977000605 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 62977000606 homotrimer interaction site [polypeptide binding]; other site 62977000607 putative active site [active] 62977000608 shikimate transporter; Provisional; Region: PRK09952 62977000609 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 62977000610 putative substrate translocation pore; other site 62977000611 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 62977000612 active site 62977000613 DNA polymerase IV; Validated; Region: PRK02406 62977000614 DNA binding site [nucleotide binding] 62977000615 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 62977000616 active site 62977000617 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 62977000618 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 62977000619 putative transporter; Provisional; Region: PRK10504 62977000620 putative substrate translocation pore; other site 62977000621 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 62977000622 Integral membrane protein TerC family; Region: TerC; cl10468 62977000623 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]; Region: COG2524 62977000624 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 62977000625 Transporter associated domain; Region: CorC_HlyC; cl08393 62977000626 hypothetical protein; Provisional; Region: PRK01752 62977000627 SEC-C motif; Region: SEC-C; pfam02810 62977000628 hypothetical protein; Provisional; Region: PRK10578 62977000629 UPF0126 domain; Region: UPF0126; pfam03458 62977000630 UPF0126 domain; Region: UPF0126; pfam03458 62977000631 benzoate transport; Region: 2A0115; TIGR00895 62977000632 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 62977000633 putative substrate translocation pore; other site 62977000634 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 62977000635 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 62977000636 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 62977000637 CAP-like domain; other site 62977000638 active site 62977000639 primary dimer interface [polypeptide binding]; other site 62977000640 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977000641 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 62977000642 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977000643 MAPEG family; Region: MAPEG; cl09190 62977000644 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 62977000645 dimer interface [polypeptide binding]; other site 62977000646 substrate binding site [chemical binding]; other site 62977000647 metal binding sites [ion binding]; metal-binding site 62977000648 outer membrane porin, OprD family; Region: OprD; cl15714 62977000649 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 62977000650 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 62977000651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000652 Membrane fusogenic activity; Region: BMFP; cl01115 62977000653 Nitrogen regulatory protein P-II; Region: P-II; cl00412 62977000654 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 62977000655 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 62977000656 ATP cone domain; Region: ATP-cone; pfam03477 62977000657 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 62977000658 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 62977000659 catalytic motif [active] 62977000660 Zn binding site [ion binding]; other site 62977000661 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 62977000662 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 62977000663 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 62977000664 Lumazine binding domain; Region: Lum_binding; pfam00677 62977000665 Lumazine binding domain; Region: Lum_binding; pfam00677 62977000666 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 62977000667 multifunctional aminopeptidase A; Provisional; Region: PRK00913 62977000668 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 62977000669 interface (dimer of trimers) [polypeptide binding]; other site 62977000670 Substrate-binding/catalytic site; other site 62977000671 Zn-binding sites [ion binding]; other site 62977000672 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 62977000673 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 62977000674 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 62977000675 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 62977000676 Sulfatase; Region: Sulfatase; cl10460 62977000677 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 62977000678 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 62977000679 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 62977000680 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 62977000681 protein binding site [polypeptide binding]; other site 62977000682 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 62977000683 Catalytic dyad [active] 62977000684 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 62977000685 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 62977000686 active site 62977000687 phosphorylation site [posttranslational modification] 62977000688 intermolecular recognition site; other site 62977000689 dimerization interface [polypeptide binding]; other site 62977000690 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 62977000691 Walker A motif; other site 62977000692 ATP binding site [chemical binding]; other site 62977000693 Walker B motif; other site 62977000694 arginine finger; other site 62977000695 Helix-turn-helix domains; Region: HTH; cl00088 62977000696 sensory histidine kinase AtoS; Provisional; Region: PRK11360 62977000697 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 62977000698 dimer interface [polypeptide binding]; other site 62977000699 phosphorylation site [posttranslational modification] 62977000700 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 62977000701 ATP binding site [chemical binding]; other site 62977000702 Mg2+ binding site [ion binding]; other site 62977000703 G-X-G motif; other site 62977000704 response regulator; Provisional; Region: PRK09483 62977000705 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 62977000706 active site 62977000707 phosphorylation site [posttranslational modification] 62977000708 intermolecular recognition site; other site 62977000709 dimerization interface [polypeptide binding]; other site 62977000710 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 62977000711 DNA binding residues [nucleotide binding] 62977000712 dimerization interface [polypeptide binding]; other site 62977000713 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 62977000714 threonine synthase; Reviewed; Region: PRK06721 62977000715 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 62977000716 homodimer interface [polypeptide binding]; other site 62977000717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977000718 catalytic residue [active] 62977000719 homoserine dehydrogenase; Provisional; Region: PRK06349 62977000720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977000721 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 62977000722 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 62977000723 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 62977000724 dimerization domain [polypeptide binding]; other site 62977000725 dimer interface [polypeptide binding]; other site 62977000726 catalytic residues [active] 62977000727 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 62977000728 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 62977000729 DNA binding site [nucleotide binding] 62977000730 Int/Topo IB signature motif; other site 62977000731 active site 62977000732 FeoA domain; Region: FeoA; cl00838 62977000733 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 62977000734 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 62977000735 G1 box; other site 62977000736 GTP/Mg2+ binding site [chemical binding]; other site 62977000737 Switch I region; other site 62977000738 G2 box; other site 62977000739 G3 box; other site 62977000740 Switch II region; other site 62977000741 G4 box; other site 62977000742 G5 box; other site 62977000743 Nucleoside recognition; Region: Gate; cl00486 62977000744 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 62977000745 Nucleoside recognition; Region: Gate; cl00486 62977000746 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 62977000747 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 62977000748 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977000749 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977000750 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 62977000751 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977000752 active site 62977000753 nucleotide binding site [chemical binding]; other site 62977000754 HIGH motif; other site 62977000755 KMSKS motif; other site 62977000756 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 62977000757 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 62977000758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 62977000759 active site 62977000760 metal binding site [ion binding]; metal-binding site 62977000761 hexamer interface [polypeptide binding]; other site 62977000762 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 62977000763 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 62977000764 ADP-ribose binding site [chemical binding]; other site 62977000765 dimer interface [polypeptide binding]; other site 62977000766 active site 62977000767 nudix motif; other site 62977000768 metal binding site [ion binding]; metal-binding site 62977000769 ThiC family; Region: ThiC; cl08031 62977000770 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 62977000771 transcriptional regulator PhoU; Provisional; Region: PRK11115 62977000772 PhoU domain; Region: PhoU; pfam01895 62977000773 PhoU domain; Region: PhoU; pfam01895 62977000774 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 62977000775 argininosuccinate lyase; Provisional; Region: PRK00855 62977000776 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 62977000777 active sites [active] 62977000778 tetramer interface [polypeptide binding]; other site 62977000779 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 62977000780 Histidine kinase; Region: His_kinase; pfam06580 62977000781 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 62977000782 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 62977000783 active site 62977000784 phosphorylation site [posttranslational modification] 62977000785 intermolecular recognition site; other site 62977000786 dimerization interface [polypeptide binding]; other site 62977000787 LytTr DNA-binding domain; Region: LytTR; cl04498 62977000788 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 62977000789 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 62977000790 domain interfaces; other site 62977000791 active site 62977000792 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 62977000793 active site 62977000794 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 62977000795 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 62977000796 active site 62977000797 H-NS histone family; Region: Histone_HNS; pfam00816 62977000798 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 62977000799 Bacterial type II secretion system protein N; Region: GSPII_N; pfam01203 62977000800 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 62977000801 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 62977000802 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 62977000803 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 62977000804 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 62977000805 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 62977000806 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 62977000807 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 62977000808 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 62977000809 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 62977000810 phosphopeptide binding site; other site 62977000811 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 62977000812 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 62977000813 motif II; other site 62977000814 anthranilate synthase component I; Provisional; Region: PRK13565 62977000815 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 62977000816 chorismate binding enzyme; Region: Chorismate_bind; cl10555 62977000817 elongation factor Tu; Reviewed; Region: PRK00049 62977000818 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 62977000819 G1 box; other site 62977000820 GEF interaction site [polypeptide binding]; other site 62977000821 GTP/Mg2+ binding site [chemical binding]; other site 62977000822 Switch I region; other site 62977000823 G2 box; other site 62977000824 G3 box; other site 62977000825 Switch II region; other site 62977000826 G4 box; other site 62977000827 G5 box; other site 62977000828 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 62977000829 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 62977000830 Antibiotic Binding Site [chemical binding]; other site 62977000831 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 62977000832 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 62977000833 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 62977000834 putative homodimer interface [polypeptide binding]; other site 62977000835 KOW motif; Region: KOW; cl00354 62977000836 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 62977000837 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 62977000838 23S rRNA interface [nucleotide binding]; other site 62977000839 L7/L12 interface [polypeptide binding]; other site 62977000840 putative thiostrepton binding site; other site 62977000841 L25 interface [polypeptide binding]; other site 62977000842 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 62977000843 mRNA/rRNA interface [nucleotide binding]; other site 62977000844 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 62977000845 23S rRNA interface [nucleotide binding]; other site 62977000846 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 62977000847 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 62977000848 core dimer interface [polypeptide binding]; other site 62977000849 peripheral dimer interface [polypeptide binding]; other site 62977000850 L10 interface [polypeptide binding]; other site 62977000851 L11 interface [polypeptide binding]; other site 62977000852 putative EF-Tu interaction site [polypeptide binding]; other site 62977000853 putative EF-G interaction site [polypeptide binding]; other site 62977000854 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 62977000855 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 62977000856 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 62977000857 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 62977000858 RPB11 interaction site [polypeptide binding]; other site 62977000859 RPB12 interaction site [polypeptide binding]; other site 62977000860 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 62977000861 RPB1 interaction site [polypeptide binding]; other site 62977000862 RPB11 interaction site [polypeptide binding]; other site 62977000863 RPB10 interaction site [polypeptide binding]; other site 62977000864 RPB3 interaction site [polypeptide binding]; other site 62977000865 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 62977000866 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 62977000867 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 62977000868 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 62977000869 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 62977000870 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 62977000871 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 62977000872 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 62977000873 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 62977000874 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 62977000875 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 62977000876 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 62977000877 DNA binding site [nucleotide binding] 62977000878 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 62977000879 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 62977000880 CoenzymeA binding site [chemical binding]; other site 62977000881 subunit interaction site [polypeptide binding]; other site 62977000882 PHB binding site; other site 62977000883 short chain dehydrogenase; Validated; Region: PRK05855 62977000884 Predicted permease [General function prediction only]; Region: COG2056 62977000885 Surface antigen; Region: Surface_Ag_2; cl01155 62977000886 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 62977000887 heat shock protein 90; Provisional; Region: PRK05218 62977000888 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 62977000889 ATP binding site [chemical binding]; other site 62977000890 Mg2+ binding site [ion binding]; other site 62977000891 G-X-G motif; other site 62977000892 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 62977000893 aspartate racemase; Region: asp_race; TIGR00035 62977000894 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977000895 Helix-turn-helix domains; Region: HTH; cl00088 62977000896 putative transposase OrfB; Reviewed; Region: PHA02517 62977000897 Integrase core domain; Region: rve; cl01316 62977000898 cell density-dependent motility repressor; Provisional; Region: PRK10082 62977000899 Helix-turn-helix domains; Region: HTH; cl00088 62977000900 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 62977000901 dimerization interface [polypeptide binding]; other site 62977000902 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 62977000903 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 62977000904 catalytic residues [active] 62977000905 aconitate hydratase; Validated; Region: PRK09277 62977000906 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 62977000907 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 62977000908 dimer interface [polypeptide binding]; other site 62977000909 active site 62977000910 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 62977000911 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 62977000912 substrate binding site [chemical binding]; other site 62977000913 oxyanion hole (OAH) forming residues; other site 62977000914 trimer interface [polypeptide binding]; other site 62977000915 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; cl12011 62977000916 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 62977000917 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 62977000918 Cupin domain; Region: Cupin_2; cl09118 62977000919 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 62977000920 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 62977000921 GIY-YIG motif/motif A; other site 62977000922 active site 62977000923 catalytic site [active] 62977000924 putative DNA binding site [nucleotide binding]; other site 62977000925 metal binding site [ion binding]; metal-binding site 62977000926 UvrB/uvrC motif; Region: UVR; pfam02151 62977000927 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 62977000928 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 62977000929 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 62977000930 active site 62977000931 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 62977000932 active site 62977000933 dimer interface [polypeptide binding]; other site 62977000934 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 62977000935 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 62977000936 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977000937 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 62977000938 DNA binding site [nucleotide binding] 62977000939 active site 62977000940 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977000941 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977000942 Helix-turn-helix domains; Region: HTH; cl00088 62977000943 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977000944 Fusaric acid resistance protein family; Region: FUSC; pfam04632 62977000945 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 62977000946 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 62977000947 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 62977000948 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 62977000949 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 62977000950 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 62977000951 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 62977000952 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 62977000953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977000954 Walker A/P-loop; other site 62977000955 ATP binding site [chemical binding]; other site 62977000956 Q-loop/lid; other site 62977000957 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 62977000958 ABC transporter signature motif; other site 62977000959 Walker B; other site 62977000960 D-loop; other site 62977000961 H-loop/switch region; other site 62977000962 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 62977000963 TPR motif; other site 62977000964 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 62977000965 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 62977000966 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 62977000967 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 62977000968 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 62977000969 EamA-like transporter family; Region: EamA; cl01037 62977000970 EamA-like transporter family; Region: EamA; cl01037 62977000971 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 62977000972 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 62977000973 CoA-binding site [chemical binding]; other site 62977000974 ATP-binding [chemical binding]; other site 62977000975 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 62977000976 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 62977000977 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 62977000978 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 62977000979 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 62977000980 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 62977000981 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 62977000982 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 62977000983 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 62977000984 Walker A motif; other site 62977000985 ATP binding site [chemical binding]; other site 62977000986 Walker B motif; other site 62977000987 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 62977000988 substrate binding site [chemical binding]; other site 62977000989 dimer interface [polypeptide binding]; other site 62977000990 catalytic triad [active] 62977000991 Preprotein translocase SecG subunit; Region: SecG; cl09123 62977000992 ribosome maturation protein RimP; Reviewed; Region: PRK00092 62977000993 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 62977000994 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 62977000995 Sm1 motif; other site 62977000996 D3 - B interaction site; other site 62977000997 D1 - D2 interaction site; other site 62977000998 Hfq - Hfq interaction site; other site 62977000999 RNA binding pocket [nucleotide binding]; other site 62977001000 Sm2 motif; other site 62977001001 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 62977001002 NusA N-terminal domain; Region: NusA_N; pfam08529 62977001003 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 62977001004 RNA binding site [nucleotide binding]; other site 62977001005 homodimer interface [polypeptide binding]; other site 62977001006 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 62977001007 G-X-X-G motif; other site 62977001008 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 62977001009 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 62977001010 translation initiation factor IF-2; Validated; Region: infB; PRK05306 62977001011 translation initiation factor IF-2; Region: IF-2; TIGR00487 62977001012 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 62977001013 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 62977001014 G1 box; other site 62977001015 putative GEF interaction site [polypeptide binding]; other site 62977001016 GTP/Mg2+ binding site [chemical binding]; other site 62977001017 Switch I region; other site 62977001018 G2 box; other site 62977001019 G3 box; other site 62977001020 Switch II region; other site 62977001021 G4 box; other site 62977001022 G5 box; other site 62977001023 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 62977001024 Translation-initiation factor 2; Region: IF-2; pfam11987 62977001025 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 62977001026 Ribosome-binding factor A; Region: RBFA; cl00542 62977001027 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 62977001028 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 62977001029 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 62977001030 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 62977001031 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 62977001032 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 62977001033 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 62977001034 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 62977001035 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 62977001036 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 62977001037 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 62977001038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001039 Walker A/P-loop; other site 62977001040 ATP binding site [chemical binding]; other site 62977001041 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001042 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 62977001043 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 62977001044 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 62977001045 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 62977001046 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 62977001047 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 62977001048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001049 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 62977001050 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; cl15691 62977001051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 62977001052 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 62977001053 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 62977001054 S-adenosylmethionine binding site [chemical binding]; other site 62977001055 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; cl12011 62977001056 Fimbrial protein; Region: Fimbrial; cl01416 62977001057 putative chaperone protein EcpD; Provisional; Region: PRK09926 62977001058 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; cl15716 62977001059 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 62977001060 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 62977001061 Fimbrial Usher protein; Region: Usher; cl14650 62977001062 Fimbrial protein; Region: Fimbrial; cl01416 62977001063 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 62977001064 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 62977001065 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001066 active site 62977001067 citrate-proton symporter; Provisional; Region: PRK15075 62977001068 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 62977001069 putative substrate translocation pore; other site 62977001070 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; cl15476 62977001071 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 62977001072 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 62977001073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001075 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 62977001076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001077 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977001078 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 62977001079 16S/18S rRNA binding site [nucleotide binding]; other site 62977001080 S13e-L30e interaction site [polypeptide binding]; other site 62977001081 25S rRNA binding site [nucleotide binding]; other site 62977001082 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 62977001083 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 62977001084 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 62977001085 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 62977001086 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 62977001087 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 62977001088 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 62977001089 putative nucleic acid binding region [nucleotide binding]; other site 62977001090 G-X-X-G motif; other site 62977001091 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 62977001092 RNA binding site [nucleotide binding]; other site 62977001093 domain interface; other site 62977001094 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 62977001095 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 62977001096 CrcB-like protein; Region: CRCB; cl09114 62977001097 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 62977001098 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 62977001099 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 62977001100 HSP70 interaction site [polypeptide binding]; other site 62977001101 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 62977001102 substrate binding site [polypeptide binding]; other site 62977001103 dimer interface [polypeptide binding]; other site 62977001104 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 62977001105 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 62977001106 dimerization interface [polypeptide binding]; other site 62977001107 domain crossover interface; other site 62977001108 redox-dependent activation switch; other site 62977001109 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 62977001110 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 62977001111 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001112 primosome assembly protein PriA; Validated; Region: PRK05580 62977001113 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 62977001114 ATP binding site [chemical binding]; other site 62977001115 putative Mg++ binding site [ion binding]; other site 62977001116 FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1; Region: FYVE; cl15382 62977001117 Zn binding sites [ion binding]; other site 62977001118 phosphatidylinositol 3-phosphate binding site [chemical binding]; other site 62977001119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001120 general secretion pathway protein F; Region: GspF; TIGR02120 62977001121 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 62977001122 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 62977001123 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 62977001124 Bacterial type II secretion system protein G; Region: GSPII_G; pfam08334 62977001125 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 62977001126 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 62977001127 putative active site [active] 62977001128 catalytic triad [active] 62977001129 putative dimer interface [polypeptide binding]; other site 62977001130 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 62977001131 FOG: CBS domain [General function prediction only]; Region: COG0517 62977001132 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 62977001133 Transporter associated domain; Region: CorC_HlyC; cl08393 62977001134 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 62977001135 CPxP motif; other site 62977001136 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 62977001137 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 62977001138 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 62977001139 shikimate binding site; other site 62977001140 NAD(P) binding site [chemical binding]; other site 62977001141 Domain of unknown function (DUF329); Region: DUF329; cl01144 62977001142 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; cl12011 62977001143 Predicted flavoproteins [General function prediction only]; Region: COG2081 62977001144 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001145 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001146 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 62977001147 HopJ type III effector protein; Region: HopJ; pfam08888 62977001148 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 62977001149 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; cl15691 62977001150 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977001151 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 62977001152 Flavin binding site [chemical binding]; other site 62977001153 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 62977001154 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977001155 Flavin binding site [chemical binding]; other site 62977001156 multidrug efflux protein; Reviewed; Region: PRK01766 62977001157 MatE; Region: MatE; cl10513 62977001158 MatE; Region: MatE; cl10513 62977001159 Protein of unknown function, DUF606; Region: DUF606; cl01273 62977001160 HemN family oxidoreductase; Provisional; Region: PRK05660 62977001161 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 62977001162 FeS/SAM binding site; other site 62977001163 HemN C-terminal region; Region: HemN_C; pfam06969 62977001164 short chain dehydrogenase; Provisional; Region: PRK12744 62977001165 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 62977001166 NADP binding site [chemical binding]; other site 62977001167 homodimer interface [polypeptide binding]; other site 62977001168 active site 62977001169 substrate binding site [chemical binding]; other site 62977001170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977001171 Helix-turn-helix domains; Region: HTH; cl00088 62977001172 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 62977001173 putative effector binding pocket; other site 62977001174 putative dimerization interface [polypeptide binding]; other site 62977001175 peroxiredoxin; Region: AhpC; TIGR03137 62977001176 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 62977001177 dimer interface [polypeptide binding]; other site 62977001178 decamer (pentamer of dimers) interface [polypeptide binding]; other site 62977001179 catalytic triad [active] 62977001180 peroxidatic and resolving cysteines [active] 62977001181 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 62977001182 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977001183 ribonuclease E; Reviewed; Region: rne; PRK10811 62977001184 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 62977001185 homodimer interface [polypeptide binding]; other site 62977001186 oligonucleotide binding site [chemical binding]; other site 62977001187 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 62977001188 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 62977001189 RNA binding surface [nucleotide binding]; other site 62977001190 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 62977001191 active site 62977001192 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 62977001193 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 62977001194 motif II; other site 62977001195 Predicted transcriptional regulator [Transcription]; Region: COG2378 62977001196 Helix-turn-helix domains; Region: HTH; cl00088 62977001197 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977001198 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 62977001199 putative C-terminal domain interface [polypeptide binding]; other site 62977001200 putative GSH binding site (G-site) [chemical binding]; other site 62977001201 putative dimer interface [polypeptide binding]; other site 62977001202 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 62977001203 dimer interface [polypeptide binding]; other site 62977001204 N-terminal domain interface [polypeptide binding]; other site 62977001205 putative substrate binding pocket (H-site) [chemical binding]; other site 62977001206 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 62977001207 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 62977001208 Helix-turn-helix domains; Region: HTH; cl00088 62977001209 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 62977001210 putative dimerization interface [polypeptide binding]; other site 62977001211 putative substrate binding pocket [chemical binding]; other site 62977001212 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 62977001213 Cation efflux family; Region: Cation_efflux; cl00316 62977001214 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977001215 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 62977001216 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 62977001217 tetramer interface [polypeptide binding]; other site 62977001218 heme binding pocket [chemical binding]; other site 62977001219 NADPH binding site [chemical binding]; other site 62977001220 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 62977001221 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977001222 active site 62977001223 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 62977001224 GAF domain; Region: GAF; cl00853 62977001225 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 62977001226 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 62977001227 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 62977001228 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 62977001229 putative active site [active] 62977001230 Ap4A binding site [chemical binding]; other site 62977001231 nudix motif; other site 62977001232 putative metal binding site [ion binding]; other site 62977001233 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 62977001234 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977001235 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977001236 Helix-turn-helix domains; Region: HTH; cl00088 62977001237 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 62977001238 dimerization interface [polypeptide binding]; other site 62977001239 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 62977001240 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 62977001241 [2Fe-2S] cluster binding site [ion binding]; other site 62977001242 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 62977001243 hydrophobic ligand binding site; other site 62977001244 DinB superfamily; Region: DinB_2; cl00986 62977001245 TIGR03440 family protein; Region: unchr_TIGR03440 62977001246 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 62977001247 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 62977001248 S-adenosylmethionine binding site [chemical binding]; other site 62977001249 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977001250 Helix-turn-helix domains; Region: HTH; cl00088 62977001251 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 62977001252 dimerization interface [polypeptide binding]; other site 62977001253 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 62977001254 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 62977001255 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 62977001256 substrate binding site [chemical binding]; other site 62977001257 ligand binding site [chemical binding]; other site 62977001258 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977001259 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 62977001260 putative C-terminal domain interface [polypeptide binding]; other site 62977001261 putative GSH binding site (G-site) [chemical binding]; other site 62977001262 putative dimer interface [polypeptide binding]; other site 62977001263 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 62977001264 putative N-terminal domain interface [polypeptide binding]; other site 62977001265 putative dimer interface [polypeptide binding]; other site 62977001266 putative substrate binding pocket (H-site) [chemical binding]; other site 62977001267 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 62977001268 substrate binding site [chemical binding]; other site 62977001269 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 62977001270 tartrate dehydrogenase; Provisional; Region: PRK08194 62977001271 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 62977001272 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 62977001273 rRNA binding site [nucleotide binding]; other site 62977001274 predicted 30S ribosome binding site; other site 62977001275 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977001276 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977001277 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977001278 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 62977001279 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 62977001280 dimerization interface 3.5A [polypeptide binding]; other site 62977001281 active site 62977001282 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 62977001283 active site 62977001284 homodimer interface [polypeptide binding]; other site 62977001285 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 62977001286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001287 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 62977001288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 62977001289 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 62977001290 putative catalytic site [active] 62977001291 putative phosphate binding site [ion binding]; other site 62977001292 putative metal binding site [ion binding]; other site 62977001293 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977001294 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977001295 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 62977001296 putative ADP-binding pocket [chemical binding]; other site 62977001297 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 62977001298 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 62977001299 putative acyl-acceptor binding pocket; other site 62977001300 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 62977001301 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 62977001302 LysE type translocator; Region: LysE; cl00565 62977001303 ABC transporter ATPase component; Reviewed; Region: PRK11147 62977001304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001305 Walker A/P-loop; other site 62977001306 ATP binding site [chemical binding]; other site 62977001307 ABC transporter signature motif; other site 62977001308 Walker B; other site 62977001309 D-loop; other site 62977001310 H-loop/switch region; other site 62977001311 ABC transporter; Region: ABC_tran_2; pfam12848 62977001312 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977001313 SlyX; Region: SlyX; cl01090 62977001314 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 62977001315 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 62977001316 active site 62977001317 interdomain interaction site; other site 62977001318 putative metal-binding site [ion binding]; other site 62977001319 nucleotide binding site [chemical binding]; other site 62977001320 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 62977001321 domain I; other site 62977001322 DNA binding groove [nucleotide binding] 62977001323 phosphate binding site [ion binding]; other site 62977001324 domain II; other site 62977001325 domain III; other site 62977001326 nucleotide binding site [chemical binding]; other site 62977001327 catalytic site [active] 62977001328 domain IV; other site 62977001329 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 62977001330 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 62977001331 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 62977001332 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 62977001333 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 62977001334 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001335 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 62977001336 RNA/DNA binding site [nucleotide binding]; other site 62977001337 RRM dimerization site [polypeptide binding]; other site 62977001338 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 62977001339 putative cation:proton antiport protein; Provisional; Region: PRK10669 62977001340 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 62977001341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001342 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 62977001343 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 62977001344 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 62977001345 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 62977001346 NAD(P) binding site [chemical binding]; other site 62977001347 catalytic residues [active] 62977001348 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977001349 Helix-turn-helix domains; Region: HTH; cl00088 62977001350 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 62977001351 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 62977001352 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 62977001353 putative active site [active] 62977001354 putative substrate binding site [chemical binding]; other site 62977001355 putative cosubstrate binding site; other site 62977001356 catalytic site [active] 62977001357 Gram-negative bacterial tonB protein; Region: TonB; cl10048 62977001358 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 62977001359 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 62977001360 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 62977001361 META domain; Region: META; cl01245 62977001362 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 62977001363 folate binding site [chemical binding]; other site 62977001364 NADP+ binding site [chemical binding]; other site 62977001365 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 62977001366 dimerization interface [polypeptide binding]; other site 62977001367 active site 62977001368 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 62977001369 Protein of unknown function (DUF833); Region: DUF833; cl01315 62977001370 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 62977001371 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 62977001372 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 62977001373 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 62977001374 Membrane transport protein; Region: Mem_trans; cl09117 62977001375 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 62977001376 active site 62977001377 dimerization interface [polypeptide binding]; other site 62977001378 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 62977001379 Sel1 repeat; Region: Sel1; cl02723 62977001380 Sel1 repeat; Region: Sel1; cl02723 62977001381 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 62977001382 S-adenosylmethionine binding site [chemical binding]; other site 62977001383 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 62977001384 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 62977001385 2-isopropylmalate synthase; Validated; Region: PRK03739 62977001386 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 62977001387 active site 62977001388 catalytic residues [active] 62977001389 metal binding site [ion binding]; metal-binding site 62977001390 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 62977001391 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977001392 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 62977001393 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 62977001394 N-terminal plug; other site 62977001395 ligand-binding site [chemical binding]; other site 62977001396 trigger factor; Provisional; Region: tig; PRK01490 62977001397 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977001398 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 62977001399 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 62977001400 oligomer interface [polypeptide binding]; other site 62977001401 active site residues [active] 62977001402 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 62977001403 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 62977001404 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 62977001405 Walker A motif; other site 62977001406 ATP binding site [chemical binding]; other site 62977001407 Walker B motif; other site 62977001408 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 62977001409 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 62977001410 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 62977001411 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 62977001412 Fumarase C-terminus; Region: Fumerase_C; cl00795 62977001413 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 62977001414 S-adenosylmethionine binding site [chemical binding]; other site 62977001415 phosphate acetyltransferase; Reviewed; Region: PRK05632 62977001416 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001417 DRTGG domain; Region: DRTGG; cl12147 62977001418 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 62977001419 Acetokinase family; Region: Acetate_kinase; cl01029 62977001420 Dehydratase family; Region: ILVD_EDD; cl00340 62977001421 6-phosphogluconate dehydratase; Region: edd; TIGR01196 62977001422 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 62977001423 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 62977001424 active site 62977001425 intersubunit interface [polypeptide binding]; other site 62977001426 catalytic residue [active] 62977001427 gluconate transporter; Region: gntP; TIGR00791 62977001428 GntP family permease; Region: GntP_permease; cl15264 62977001429 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 62977001430 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 62977001431 ATP-binding site [chemical binding]; other site 62977001432 Gluconate-6-phosphate binding site [chemical binding]; other site 62977001433 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 62977001434 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977001435 tetrameric interface [polypeptide binding]; other site 62977001436 activator binding site; other site 62977001437 NADP binding site [chemical binding]; other site 62977001438 substrate binding site [chemical binding]; other site 62977001439 catalytic residues [active] 62977001440 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 62977001441 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 62977001442 putative catalytic cysteine [active] 62977001443 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977001444 Leucine carboxyl methyltransferase; Region: LCM; cl01306 62977001445 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 62977001446 carboxy-terminal protease; Provisional; Region: PRK11186 62977001447 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 62977001448 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 62977001449 protein binding site [polypeptide binding]; other site 62977001450 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 62977001451 Catalytic dyad [active] 62977001452 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 62977001453 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977001454 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 62977001455 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 62977001456 active site 62977001457 Protein of unknown function (DUF528); Region: DUF528; cl01123 62977001458 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 62977001459 active site 62977001460 multimer interface [polypeptide binding]; other site 62977001461 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 62977001462 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 62977001463 FeS/SAM binding site; other site 62977001464 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 62977001465 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 62977001466 binding surface 62977001467 TPR motif; other site 62977001468 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 62977001469 binding surface 62977001470 TPR motif; other site 62977001471 Helix-turn-helix domains; Region: HTH; cl00088 62977001472 cytoskeletal protein RodZ; Provisional; Region: PRK10856 62977001473 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 62977001474 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 62977001475 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 62977001476 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 62977001477 dimer interface [polypeptide binding]; other site 62977001478 motif 1; other site 62977001479 active site 62977001480 motif 2; other site 62977001481 motif 3; other site 62977001482 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 62977001483 anticodon binding site; other site 62977001484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 62977001485 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 62977001486 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 62977001487 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 62977001488 Trp docking motif [polypeptide binding]; other site 62977001489 active site 62977001490 GTP-binding protein Der; Reviewed; Region: PRK00093 62977001491 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 62977001492 G1 box; other site 62977001493 GTP/Mg2+ binding site [chemical binding]; other site 62977001494 Switch I region; other site 62977001495 G2 box; other site 62977001496 Switch II region; other site 62977001497 G3 box; other site 62977001498 G4 box; other site 62977001499 G5 box; other site 62977001500 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 62977001501 G1 box; other site 62977001502 GTP/Mg2+ binding site [chemical binding]; other site 62977001503 Switch I region; other site 62977001504 G2 box; other site 62977001505 G3 box; other site 62977001506 Switch II region; other site 62977001507 G4 box; other site 62977001508 G5 box; other site 62977001509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 62977001510 putative acyl-acceptor binding pocket; other site 62977001511 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977001512 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977001513 Predicted membrane protein [Function unknown]; Region: COG4648 62977001514 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 62977001515 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977001516 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 62977001517 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 62977001518 Ligand binding site; other site 62977001519 Putative Catalytic site; other site 62977001520 DXD motif; other site 62977001521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 62977001522 putative acyl-acceptor binding pocket; other site 62977001523 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 62977001524 active sites [active] 62977001525 tetramer interface [polypeptide binding]; other site 62977001526 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 62977001527 active site 62977001528 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 62977001529 Predicted exporter [General function prediction only]; Region: COG4258 62977001530 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 62977001531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001532 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 62977001533 dimer interface [polypeptide binding]; other site 62977001534 active site 62977001535 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 62977001536 putative active site 1 [active] 62977001537 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 62977001538 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 62977001539 NAD(P) binding site [chemical binding]; other site 62977001540 homotetramer interface [polypeptide binding]; other site 62977001541 homodimer interface [polypeptide binding]; other site 62977001542 active site 62977001543 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 62977001544 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 62977001545 dimer interface [polypeptide binding]; other site 62977001546 active site 62977001547 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 62977001548 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 62977001549 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 62977001550 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 62977001551 Protein export membrane protein; Region: SecD_SecF; cl14618 62977001552 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 62977001553 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 62977001554 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 62977001555 Protein export membrane protein; Region: SecD_SecF; cl14618 62977001556 Preprotein translocase subunit; Region: YajC; cl00806 62977001557 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 62977001558 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 62977001559 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 62977001560 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 62977001561 dimer interface [polypeptide binding]; other site 62977001562 phosphorylation site [posttranslational modification] 62977001563 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 62977001564 ATP binding site [chemical binding]; other site 62977001565 Mg2+ binding site [ion binding]; other site 62977001566 G-X-G motif; other site 62977001567 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 62977001568 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 62977001569 metal binding triad; other site 62977001570 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 62977001571 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 62977001572 metal binding triad; other site 62977001573 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 62977001574 homodimer interface [polypeptide binding]; other site 62977001575 substrate-cofactor binding pocket; other site 62977001576 Aminotransferase class IV; Region: Aminotran_4; pfam01063 62977001577 catalytic residue [active] 62977001578 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 62977001579 Protein of unknown function (DUF1022); Region: DUF1022; pfam06258 62977001580 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 62977001581 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 62977001582 putative active site [active] 62977001583 putative metal binding site [ion binding]; other site 62977001584 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 62977001585 putative metal binding site; other site 62977001586 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 62977001587 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 62977001588 putative ADP-binding pocket [chemical binding]; other site 62977001589 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 62977001590 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 62977001591 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 62977001592 active site 62977001593 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 62977001594 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 62977001595 dimer interface [polypeptide binding]; other site 62977001596 anticodon binding site; other site 62977001597 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 62977001598 homodimer interface [polypeptide binding]; other site 62977001599 motif 1; other site 62977001600 active site 62977001601 motif 2; other site 62977001602 GAD domain; Region: GAD; pfam02938 62977001603 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 62977001604 active site 62977001605 motif 3; other site 62977001606 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 62977001607 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 62977001608 N-terminal plug; other site 62977001609 ligand-binding site [chemical binding]; other site 62977001610 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 62977001611 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 62977001612 N-terminal plug; other site 62977001613 ligand-binding site [chemical binding]; other site 62977001614 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 62977001615 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 62977001616 putative active site [active] 62977001617 putative catalytic site [active] 62977001618 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 62977001619 putative active site [active] 62977001620 putative catalytic site [active] 62977001621 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977001622 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977001623 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977001624 Phosphate-starvation-inducible E; Region: PsiE; cl01264 62977001625 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 62977001626 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 62977001627 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 62977001628 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977001629 active site 62977001630 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 62977001631 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 62977001632 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 62977001633 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977001634 active site 62977001635 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 62977001636 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 62977001637 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 62977001638 dimerization interface [polypeptide binding]; other site 62977001639 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 62977001640 dimer interface [polypeptide binding]; other site 62977001641 phosphorylation site [posttranslational modification] 62977001642 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 62977001643 ATP binding site [chemical binding]; other site 62977001644 Mg2+ binding site [ion binding]; other site 62977001645 G-X-G motif; other site 62977001646 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 62977001647 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 62977001648 active site 62977001649 phosphorylation site [posttranslational modification] 62977001650 intermolecular recognition site; other site 62977001651 dimerization interface [polypeptide binding]; other site 62977001652 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 62977001653 DNA binding site [nucleotide binding] 62977001654 Protein of unknown function (DUF419); Region: DUF419; cl15265 62977001655 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 62977001656 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 62977001657 Di-iron ligands [ion binding]; other site 62977001658 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 62977001659 META domain; Region: META; cl01245 62977001660 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 62977001661 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 62977001662 active site 62977001663 catalytic site [active] 62977001664 metal binding site [ion binding]; metal-binding site 62977001665 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 62977001666 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 62977001667 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 62977001668 N-terminal plug; other site 62977001669 ligand-binding site [chemical binding]; other site 62977001670 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 62977001671 active site 62977001672 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 62977001673 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 62977001674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977001675 catalytic residue [active] 62977001676 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 62977001677 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 62977001678 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977001679 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977001680 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977001681 Helix-turn-helix domain; Region: HTH_18; pfam12833 62977001682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977001683 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 62977001684 substrate binding site [chemical binding]; other site 62977001685 active site 62977001686 catalytic residues [active] 62977001687 heterodimer interface [polypeptide binding]; other site 62977001688 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 62977001689 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; cl14780 62977001690 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 62977001691 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977001692 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977001693 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 62977001694 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 62977001695 dimer interface [polypeptide binding]; other site 62977001696 decamer (pentamer of dimers) interface [polypeptide binding]; other site 62977001697 catalytic triad [active] 62977001698 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 62977001699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977001700 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 62977001701 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 62977001702 nucleotide binding region [chemical binding]; other site 62977001703 ATP-binding site [chemical binding]; other site 62977001704 hypothetical protein; Provisional; Region: PRK10396 62977001705 SEC-C motif; Region: SEC-C; pfam02810 62977001706 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 62977001707 heterotetramer interface [polypeptide binding]; other site 62977001708 active site pocket [active] 62977001709 cleavage site 62977001710 Quinolinate synthetase A protein; Region: NadA; cl00420 62977001711 putative outer membrane lipoprotein; Provisional; Region: PRK09967 62977001712 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977001713 ligand binding site [chemical binding]; other site 62977001714 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 62977001715 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977001716 metal binding site [ion binding]; metal-binding site 62977001717 active site 62977001718 I-site; other site 62977001719 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 62977001720 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 62977001721 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 62977001722 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 62977001723 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 62977001724 30S subunit binding site; other site 62977001725 BolA-like protein; Region: BolA; cl00386 62977001726 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 62977001727 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 62977001728 hinge; other site 62977001729 active site 62977001730 ATP phosphoribosyltransferase; Region: HisG; cl15266 62977001731 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 62977001732 histidinol dehydrogenase; Region: hisD; TIGR00069 62977001733 NAD binding site [chemical binding]; other site 62977001734 dimerization interface [polypeptide binding]; other site 62977001735 product binding site; other site 62977001736 substrate binding site [chemical binding]; other site 62977001737 zinc binding site [ion binding]; other site 62977001738 catalytic residues [active] 62977001739 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 62977001740 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 62977001741 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977001742 homodimer interface [polypeptide binding]; other site 62977001743 catalytic residue [active] 62977001744 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 62977001745 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 62977001746 chorismate binding enzyme; Region: Chorismate_bind; cl10555 62977001747 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 bacteriocins; Region: Peptidase_C39G; cd02423 62977001748 putative active site [active] 62977001749 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977001750 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 62977001751 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 62977001752 nudix motif; other site 62977001753 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 62977001754 putative active site [active] 62977001755 putative CoA binding site [chemical binding]; other site 62977001756 nudix motif; other site 62977001757 metal binding site [ion binding]; metal-binding site 62977001758 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 62977001759 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 62977001760 trimer interface [polypeptide binding]; other site 62977001761 putative metal binding site [ion binding]; other site 62977001762 Glycoprotease family; Region: Peptidase_M22; pfam00814 62977001763 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 62977001764 Bacitracin resistance protein BacA; Region: BacA; cl00858 62977001765 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; cl12011 62977001766 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 62977001767 Peptidase C13 family; Region: Peptidase_C13; cl02159 62977001768 Predicted esterase [General function prediction only]; Region: COG0627 62977001769 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977001770 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 62977001771 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 62977001772 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 62977001773 substrate binding site [chemical binding]; other site 62977001774 hexamer interface [polypeptide binding]; other site 62977001775 metal binding site [ion binding]; metal-binding site 62977001776 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 62977001777 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 62977001778 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 62977001779 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 62977001780 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 62977001781 Cation efflux family; Region: Cation_efflux; cl00316 62977001782 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 62977001783 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 62977001784 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 62977001785 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 62977001786 DNA binding site [nucleotide binding] 62977001787 active site 62977001788 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 62977001789 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 62977001790 dimer interface [polypeptide binding]; other site 62977001791 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 62977001792 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 62977001793 dimer interface [polypeptide binding]; other site 62977001794 active site 62977001795 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 62977001796 Type II transport protein GspH; Region: GspH; pfam12019 62977001797 Surface antigen; Region: Surface_Ag_2; cl01155 62977001798 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977001799 ligand binding site [chemical binding]; other site 62977001800 Amino acid permease; Region: AA_permease; cl00524 62977001801 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977001802 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 62977001803 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 62977001804 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 62977001805 S-adenosylmethionine binding site [chemical binding]; other site 62977001806 Permease family; Region: Xan_ur_permease; cl00967 62977001807 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 62977001808 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 62977001809 G1 box; other site 62977001810 putative GEF interaction site [polypeptide binding]; other site 62977001811 GTP/Mg2+ binding site [chemical binding]; other site 62977001812 Switch I region; other site 62977001813 G2 box; other site 62977001814 G3 box; other site 62977001815 Switch II region; other site 62977001816 G4 box; other site 62977001817 G5 box; other site 62977001818 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 62977001819 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 62977001820 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 62977001821 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 62977001822 putative active site pocket [active] 62977001823 dimerization interface [polypeptide binding]; other site 62977001824 putative catalytic residue [active] 62977001825 PPIC-type PPIASE domain; Region: Rotamase; cl08278 62977001826 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 62977001827 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 62977001828 DNA binding site [nucleotide binding] 62977001829 catalytic residue [active] 62977001830 H2TH interface [polypeptide binding]; other site 62977001831 putative catalytic residues [active] 62977001832 turnover-facilitating residue; other site 62977001833 intercalation triad [nucleotide binding]; other site 62977001834 8OG recognition residue [nucleotide binding]; other site 62977001835 putative reading head residues; other site 62977001836 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 62977001837 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 62977001838 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 62977001839 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 62977001840 N-terminal plug; other site 62977001841 ligand-binding site [chemical binding]; other site 62977001842 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 62977001843 active site 62977001844 FMN binding site [chemical binding]; other site 62977001845 substrate binding site [chemical binding]; other site 62977001846 homotetramer interface [polypeptide binding]; other site 62977001847 catalytic residue [active] 62977001848 Membrane transport protein; Region: Mem_trans; cl09117 62977001849 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 62977001850 Sel1 repeat; Region: Sel1; cl02723 62977001851 Sel1 repeat; Region: Sel1; cl02723 62977001852 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 62977001853 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 62977001854 dimerization domain [polypeptide binding]; other site 62977001855 dimer interface [polypeptide binding]; other site 62977001856 catalytic residues [active] 62977001857 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 62977001858 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 62977001859 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 62977001860 active site 62977001861 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 62977001862 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 62977001863 putative hydrophobic ligand binding site [chemical binding]; other site 62977001864 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 62977001865 hypothetical protein; Provisional; Region: PRK10220 62977001866 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 62977001867 PhnA protein; Region: PhnA; pfam03831 62977001868 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_21; cd04680 62977001869 nudix motif; other site 62977001870 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 62977001871 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 62977001872 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 62977001873 dimer interface [polypeptide binding]; other site 62977001874 putative radical transfer pathway; other site 62977001875 diiron center [ion binding]; other site 62977001876 tyrosyl radical; other site 62977001877 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 62977001878 ATP cone domain; Region: ATP-cone; pfam03477 62977001879 Class I ribonucleotide reductase; Region: RNR_I; cd01679 62977001880 active site 62977001881 dimer interface [polypeptide binding]; other site 62977001882 catalytic residues [active] 62977001883 effector binding site; other site 62977001884 R2 peptide binding site; other site 62977001885 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 62977001886 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 62977001887 active site 62977001888 phosphorylation site [posttranslational modification] 62977001889 intermolecular recognition site; other site 62977001890 dimerization interface [polypeptide binding]; other site 62977001891 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 62977001892 DNA binding site [nucleotide binding] 62977001893 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 62977001894 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 62977001895 dimerization interface [polypeptide binding]; other site 62977001896 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 62977001897 dimer interface [polypeptide binding]; other site 62977001898 phosphorylation site [posttranslational modification] 62977001899 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 62977001900 ATP binding site [chemical binding]; other site 62977001901 Mg2+ binding site [ion binding]; other site 62977001902 G-X-G motif; other site 62977001903 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 62977001904 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 62977001905 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 62977001906 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 62977001907 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 62977001908 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 62977001909 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 62977001910 putative dimer interface [polypeptide binding]; other site 62977001911 [2Fe-2S] cluster binding site [ion binding]; other site 62977001912 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 62977001913 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 62977001914 SLBB domain; Region: SLBB; pfam10531 62977001915 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 62977001916 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 62977001917 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 62977001918 catalytic loop [active] 62977001919 iron binding site [ion binding]; other site 62977001920 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 62977001921 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 62977001922 [4Fe-4S] binding site [ion binding]; other site 62977001923 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 62977001924 NADH dehydrogenase; Region: NADHdh; cl00469 62977001925 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 62977001926 4Fe-4S binding domain; Region: Fer4; cl02805 62977001927 4Fe-4S binding domain; Region: Fer4; cl02805 62977001928 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 62977001929 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 62977001930 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 62977001931 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 62977001932 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 62977001933 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 62977001934 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 62977001935 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 62977001936 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 62977001937 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 62977001938 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977001939 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977001940 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 62977001941 N-terminal plug; other site 62977001942 ligand-binding site [chemical binding]; other site 62977001943 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 62977001944 Helix-turn-helix domains; Region: HTH; cl00088 62977001945 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 62977001946 putative dimerization interface [polypeptide binding]; other site 62977001947 ferredoxin-NADP reductase; Provisional; Region: PRK10926 62977001948 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 62977001949 FAD binding pocket [chemical binding]; other site 62977001950 FAD binding motif [chemical binding]; other site 62977001951 phosphate binding motif [ion binding]; other site 62977001952 beta-alpha-beta structure motif; other site 62977001953 NAD binding pocket [chemical binding]; other site 62977001954 Conserved TM helix; Region: TM_helix; pfam05552 62977001955 Conserved TM helix; Region: TM_helix; pfam05552 62977001956 Conserved TM helix; Region: TM_helix; pfam05552 62977001957 Conserved TM helix; Region: TM_helix; pfam05552 62977001958 Predicted flavoproteins [General function prediction only]; Region: COG2081 62977001959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977001960 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 62977001961 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 62977001962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977001963 catalytic residue [active] 62977001964 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977001965 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 62977001966 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 62977001967 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 62977001968 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 62977001969 putative substrate translocation pore; other site 62977001970 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977001971 Helix-turn-helix domains; Region: HTH; cl00088 62977001972 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 62977001973 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 62977001974 S-adenosylmethionine binding site [chemical binding]; other site 62977001975 LysE type translocator; Region: LysE; cl00565 62977001976 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 62977001977 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 62977001978 active site 62977001979 putative substrate binding pocket [chemical binding]; other site 62977001980 Permease family; Region: Xan_ur_permease; cl00967 62977001981 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 62977001982 flavanone-3-hydroxylase; Provisional; Region: PLN03176 62977001983 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977001984 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977001985 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977001986 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977001987 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 62977001988 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 62977001989 active site 62977001990 HIGH motif; other site 62977001991 KMSKS motif; other site 62977001992 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 62977001993 tRNA binding surface [nucleotide binding]; other site 62977001994 anticodon binding site; other site 62977001995 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 62977001996 dimer interface [polypeptide binding]; other site 62977001997 putative tRNA-binding site [nucleotide binding]; other site 62977001998 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 62977001999 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 62977002000 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 62977002001 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 62977002002 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 62977002003 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 62977002004 LysE type translocator; Region: LysE; cl00565 62977002005 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 62977002006 trimer interface [polypeptide binding]; other site 62977002007 active site 62977002008 prolyl-tRNA synthetase; Provisional; Region: PRK09194 62977002009 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 62977002010 dimer interface [polypeptide binding]; other site 62977002011 motif 1; other site 62977002012 active site 62977002013 motif 2; other site 62977002014 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 62977002015 putative deacylase active site [active] 62977002016 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 62977002017 active site 62977002018 motif 3; other site 62977002019 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 62977002020 anticodon binding site; other site 62977002021 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 62977002022 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 62977002023 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 62977002024 E3 interaction surface; other site 62977002025 lipoyl attachment site [posttranslational modification]; other site 62977002026 Response regulator receiver domain; Region: Response_reg; pfam00072 62977002027 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 62977002028 active site 62977002029 phosphorylation site [posttranslational modification] 62977002030 intermolecular recognition site; other site 62977002031 dimerization interface [polypeptide binding]; other site 62977002032 Response regulator receiver domain; Region: Response_reg; pfam00072 62977002033 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 62977002034 active site 62977002035 phosphorylation site [posttranslational modification] 62977002036 intermolecular recognition site; other site 62977002037 dimerization interface [polypeptide binding]; other site 62977002038 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 62977002039 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 62977002040 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 62977002041 putative binding surface; other site 62977002042 active site 62977002043 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 62977002044 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 62977002045 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 62977002046 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 62977002047 ATP binding site [chemical binding]; other site 62977002048 Mg2+ binding site [ion binding]; other site 62977002049 G-X-G motif; other site 62977002050 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 62977002051 Response regulator receiver domain; Region: Response_reg; pfam00072 62977002052 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 62977002053 active site 62977002054 phosphorylation site [posttranslational modification] 62977002055 intermolecular recognition site; other site 62977002056 dimerization interface [polypeptide binding]; other site 62977002057 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 62977002058 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 62977002059 metal binding site [ion binding]; metal-binding site 62977002060 dimer interface [polypeptide binding]; other site 62977002061 Entericidin EcnA/B family; Region: Entericidin; cl02322 62977002062 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 62977002063 Protein of unknown function (DUF454); Region: DUF454; cl01063 62977002064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 62977002065 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 62977002066 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 62977002067 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 62977002068 putative active site [active] 62977002069 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 62977002070 PepSY-associated TM helix; Region: PepSY_TM; pfam03929 62977002071 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 62977002072 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977002073 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 62977002074 FAD binding pocket [chemical binding]; other site 62977002075 FAD binding motif [chemical binding]; other site 62977002076 catalytic residues [active] 62977002077 NAD binding pocket [chemical binding]; other site 62977002078 phosphate binding motif [ion binding]; other site 62977002079 beta-alpha-beta structure motif; other site 62977002080 hypothetical membrane protein, TIGR01666; Region: YCCS 62977002081 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 62977002082 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 62977002083 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 62977002084 putative substrate translocation pore; other site 62977002085 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 62977002086 putative FMN binding site [chemical binding]; other site 62977002087 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 62977002088 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 62977002089 hypothetical protein; Provisional; Region: PRK10279 62977002090 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 62977002091 active site 62977002092 nucleophile elbow; other site 62977002093 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 62977002094 conserved cys residue [active] 62977002095 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977002096 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 62977002097 Chromate transporter; Region: Chromate_transp; pfam02417 62977002098 Chromate transporter; Region: Chromate_transp; pfam02417 62977002099 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 62977002100 Helix-turn-helix domains; Region: HTH; cl00088 62977002101 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 62977002102 putative dimerization interface [polypeptide binding]; other site 62977002103 putative substrate binding pocket [chemical binding]; other site 62977002104 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 62977002105 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 62977002106 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 62977002107 GatB domain; Region: GatB_Yqey; cl11497 62977002108 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 62977002109 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; cl11426 62977002110 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 62977002111 rod shape-determining protein MreB; Provisional; Region: PRK13927 62977002112 Cell division protein FtsA; Region: FtsA; cl11496 62977002113 rod shape-determining protein MreC; Provisional; Region: PRK13922 62977002114 rod shape-determining protein MreC; Region: MreC; pfam04085 62977002115 Maf-like protein; Region: Maf; pfam02545 62977002116 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 62977002117 active site 62977002118 dimer interface [polypeptide binding]; other site 62977002119 ribonuclease G; Provisional; Region: PRK11712 62977002120 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 62977002121 homodimer interface [polypeptide binding]; other site 62977002122 oligonucleotide binding site [chemical binding]; other site 62977002123 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 62977002124 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 62977002125 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 62977002126 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 62977002127 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 62977002128 Active Sites [active] 62977002129 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977002130 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 62977002131 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977002132 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977002133 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 62977002134 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 62977002135 FMN binding site [chemical binding]; other site 62977002136 active site 62977002137 catalytic residues [active] 62977002138 substrate binding site [chemical binding]; other site 62977002139 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 62977002140 signal recognition particle protein; Provisional; Region: PRK10867 62977002141 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 62977002142 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 62977002143 GTP binding site [chemical binding]; other site 62977002144 Signal peptide binding domain; Region: SRP_SPB; pfam02978 62977002145 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 62977002146 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 62977002147 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 62977002148 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 62977002149 Transcriptional regulators [Transcription]; Region: GntR; COG1802 62977002150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977002151 DNA-binding site [nucleotide binding]; DNA binding site 62977002152 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 62977002153 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 62977002154 Walker A/P-loop; other site 62977002155 ATP binding site [chemical binding]; other site 62977002156 Q-loop/lid; other site 62977002157 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 62977002158 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 62977002159 ABC transporter signature motif; other site 62977002160 Walker B; other site 62977002161 D-loop; other site 62977002162 H-loop/switch region; other site 62977002163 Cell division protein [Cell division and chromosome partitioning]; Region: ZipA; COG3115 62977002164 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 62977002165 FtsZ protein binding site [polypeptide binding]; other site 62977002166 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 62977002167 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 62977002168 nucleotide binding pocket [chemical binding]; other site 62977002169 K-X-D-G motif; other site 62977002170 catalytic site [active] 62977002171 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 62977002172 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 62977002173 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 62977002174 Dimer interface [polypeptide binding]; other site 62977002175 BRCT sequence motif; other site 62977002176 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 62977002177 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 62977002178 NADP binding site [chemical binding]; other site 62977002179 putative substrate binding site [chemical binding]; other site 62977002180 active site 62977002181 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 62977002182 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 62977002183 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 62977002184 heme binding site [chemical binding]; other site 62977002185 ferroxidase pore; other site 62977002186 ferroxidase diiron center [ion binding]; other site 62977002187 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 62977002188 catalytic triad [active] 62977002189 putative pimeloyl-BioC--CoA transferase BioH; Region: bioH; TIGR01738 62977002190 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 62977002191 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 62977002192 inhibitor-cofactor binding pocket; inhibition site 62977002193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977002194 catalytic residue [active] 62977002195 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 62977002196 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 62977002197 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977002198 catalytic residue [active] 62977002199 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 62977002200 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 62977002201 S-adenosylmethionine binding site [chemical binding]; other site 62977002202 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002204 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 62977002205 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 62977002206 RNA binding surface [nucleotide binding]; other site 62977002207 PseudoU_synth_RluB: Pseudouridine synthase, Escherichia coli RluB like. This group is comprised of bacterial and eukaryotic proteins similar to E. coli RluB. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluB; cd02556 62977002208 probable active site [active] 62977002209 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 62977002210 ScpA/B protein; Region: ScpA_ScpB; cl00598 62977002211 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 62977002212 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977002213 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 62977002214 Protein of unknown function, DUF462; Region: DUF462; cl01190 62977002215 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 62977002216 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 62977002217 Acyl transferase domain; Region: Acyl_transf_1; cl08282 62977002218 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 62977002219 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 62977002220 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 62977002221 NAD(P) binding site [chemical binding]; other site 62977002222 homotetramer interface [polypeptide binding]; other site 62977002223 homodimer interface [polypeptide binding]; other site 62977002224 active site 62977002225 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977002226 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 62977002227 BON domain; Region: BON; cl02771 62977002228 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002229 putative peptidoglycan binding site; other site 62977002230 Restriction endonuclease; Region: Mrr_cat; cl00747 62977002231 Domain of unknown function (DUF955); Region: DUF955; cl01076 62977002232 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 62977002233 dimer interface [polypeptide binding]; other site 62977002234 substrate binding site [chemical binding]; other site 62977002235 ATP binding site [chemical binding]; other site 62977002236 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 62977002237 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 62977002238 motif II; other site 62977002239 OpgC protein; Region: OpgC_C; cl00792 62977002240 Acyltransferase family; Region: Acyl_transf_3; pfam01757 62977002241 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 62977002242 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 62977002243 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 62977002244 dimer interface [polypeptide binding]; other site 62977002245 active site 62977002246 EcsC protein family; Region: EcsC; pfam12787 62977002247 response regulator; Provisional; Region: PRK09483 62977002248 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 62977002249 S17 interaction site [polypeptide binding]; other site 62977002250 S8 interaction site; other site 62977002251 16S rRNA interaction site [nucleotide binding]; other site 62977002252 streptomycin interaction site [chemical binding]; other site 62977002253 23S rRNA interaction site [nucleotide binding]; other site 62977002254 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 62977002255 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 62977002256 elongation factor G; Reviewed; Region: PRK00007 62977002257 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 62977002258 G1 box; other site 62977002259 putative GEF interaction site [polypeptide binding]; other site 62977002260 GTP/Mg2+ binding site [chemical binding]; other site 62977002261 Switch I region; other site 62977002262 G2 box; other site 62977002263 G3 box; other site 62977002264 Switch II region; other site 62977002265 G4 box; other site 62977002266 G5 box; other site 62977002267 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 62977002268 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 62977002269 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 62977002270 elongation factor Tu; Reviewed; Region: PRK00049 62977002271 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 62977002272 G1 box; other site 62977002273 GEF interaction site [polypeptide binding]; other site 62977002274 GTP/Mg2+ binding site [chemical binding]; other site 62977002275 Switch I region; other site 62977002276 G2 box; other site 62977002277 G3 box; other site 62977002278 Switch II region; other site 62977002279 G4 box; other site 62977002280 G5 box; other site 62977002281 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 62977002282 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 62977002283 Antibiotic Binding Site [chemical binding]; other site 62977002284 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977002285 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977002286 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 62977002287 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977002288 Coenzyme A binding pocket [chemical binding]; other site 62977002289 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 62977002290 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 62977002291 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 62977002292 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 62977002293 thioredoxin reductase; Provisional; Region: PRK10262 62977002294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002295 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 62977002296 DNA translocase FtsK; Provisional; Region: PRK10263 62977002297 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002298 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 62977002299 Septum formation topological specificity factor MinE; Region: MinE; cl00538 62977002300 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 62977002301 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 62977002302 Switch I; other site 62977002303 Switch II; other site 62977002304 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 62977002305 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 62977002306 putative acyl-acceptor binding pocket; other site 62977002307 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977002308 ligand binding site [chemical binding]; other site 62977002309 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 62977002310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002311 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 62977002312 trimer interface [polypeptide binding]; other site 62977002313 active site 62977002314 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 62977002315 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 62977002316 active site 62977002317 substrate binding site [chemical binding]; other site 62977002318 metal binding site [ion binding]; metal-binding site 62977002319 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 62977002320 feedback inhibition sensing region; other site 62977002321 homohexameric interface [polypeptide binding]; other site 62977002322 nucleotide binding site [chemical binding]; other site 62977002323 N-acetyl-L-glutamate binding site [chemical binding]; other site 62977002324 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977002325 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 62977002326 putative active site [active] 62977002327 putative dimer interface [polypeptide binding]; other site 62977002328 Uncharacterised protein family (UPF0182); Region: UPF0182; pfam03699 62977002329 Ubiquitin-like proteins; Region: UBQ; cl00155 62977002330 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 62977002331 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 62977002332 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 62977002333 metal binding site 2 [ion binding]; metal-binding site 62977002334 putative DNA binding helix; other site 62977002335 metal binding site 1 [ion binding]; metal-binding site 62977002336 dimer interface [polypeptide binding]; other site 62977002337 structural Zn2+ binding site [ion binding]; other site 62977002338 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 62977002339 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002340 Walker A motif; other site 62977002341 ATP binding site [chemical binding]; other site 62977002342 Walker B motif; other site 62977002343 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 62977002344 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 62977002345 Walker A motif; other site 62977002346 ATP binding site [chemical binding]; other site 62977002347 Walker B motif; other site 62977002348 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 62977002349 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 62977002350 catalytic residue [active] 62977002351 Bacitracin resistance protein BacA; Region: BacA; cl00858 62977002352 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 62977002353 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 62977002354 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002355 Walker A/P-loop; other site 62977002356 ATP binding site [chemical binding]; other site 62977002357 Q-loop/lid; other site 62977002358 exonuclease subunit SbcC; Provisional; Region: PRK10246 62977002359 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 62977002360 ABC transporter signature motif; other site 62977002361 Walker B; other site 62977002362 D-loop; other site 62977002363 H-loop/switch region; other site 62977002364 exonuclease subunit SbcD; Provisional; Region: PRK10966 62977002365 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 62977002366 active site 62977002367 metal binding site [ion binding]; metal-binding site 62977002368 DNA binding site [nucleotide binding] 62977002369 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 62977002370 OsmC-like protein; Region: OsmC; cl00767 62977002371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002372 TIGR01777 family protein; Region: yfcH 62977002373 NAD(P) binding site [chemical binding]; other site 62977002374 active site 62977002375 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 62977002376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002378 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 62977002379 dimer interface [polypeptide binding]; other site 62977002380 allosteric magnesium binding site [ion binding]; other site 62977002381 active site 62977002382 aspartate-rich active site metal binding site; other site 62977002383 Schiff base residues; other site 62977002384 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 62977002385 CoenzymeA binding site [chemical binding]; other site 62977002386 subunit interaction site [polypeptide binding]; other site 62977002387 PHB binding site; other site 62977002388 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 62977002389 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 62977002390 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 62977002391 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 62977002392 putative substrate translocation pore; other site 62977002393 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 62977002394 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 62977002395 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 62977002396 glycerol kinase; Provisional; Region: glpK; PRK00047 62977002397 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 62977002398 N- and C-terminal domain interface [polypeptide binding]; other site 62977002399 active site 62977002400 MgATP binding site [chemical binding]; other site 62977002401 catalytic site [active] 62977002402 metal binding site [ion binding]; metal-binding site 62977002403 glycerol binding site [chemical binding]; other site 62977002404 homotetramer interface [polypeptide binding]; other site 62977002405 homodimer interface [polypeptide binding]; other site 62977002406 FBP binding site [chemical binding]; other site 62977002407 protein IIAGlc interface [polypeptide binding]; other site 62977002408 DoxX; Region: DoxX; cl00976 62977002409 Protein of unknown function (DUF692); Region: DUF692; cl01263 62977002410 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 62977002411 RNA polymerase sigma factor; Provisional; Region: PRK12544 62977002412 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977002413 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 62977002414 DNA binding residues [nucleotide binding] 62977002415 Protein of unknown function (DUF805); Region: DUF805; cl01224 62977002416 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 62977002417 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977002418 Surface antigen; Region: Bac_surface_Ag; cl03097 62977002419 haemagglutination activity domain; Region: Haemagg_act; cl05436 62977002420 putative transposase OrfB; Reviewed; Region: PHA02517 62977002421 Integrase core domain; Region: rve; cl01316 62977002422 Helix-turn-helix domains; Region: HTH; cl00088 62977002423 putative transposase OrfB; Reviewed; Region: PHA02517 62977002424 Integrase core domain; Region: rve; cl01316 62977002425 Helix-turn-helix domains; Region: HTH; cl00088 62977002426 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 62977002427 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977002428 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 62977002429 NAD(P) binding site [chemical binding]; other site 62977002430 catalytic residues [active] 62977002431 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 62977002432 nudix motif; other site 62977002433 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 62977002434 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 62977002435 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 62977002436 active site 62977002437 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977002438 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 62977002439 active site 62977002440 LysE type translocator; Region: LysE; cl00565 62977002441 transcriptional regulator, ArgP family; Region: argP; TIGR03298 62977002442 Helix-turn-helix domains; Region: HTH; cl00088 62977002443 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 62977002444 dimerization interface [polypeptide binding]; other site 62977002445 Transcriptional regulators [Transcription]; Region: GntR; COG1802 62977002446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977002447 DNA-binding site [nucleotide binding]; DNA binding site 62977002448 FCD domain; Region: FCD; cl11656 62977002449 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 62977002450 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 62977002451 Walker A/P-loop; other site 62977002452 ATP binding site [chemical binding]; other site 62977002453 Q-loop/lid; other site 62977002454 ABC transporter signature motif; other site 62977002455 Walker B; other site 62977002456 D-loop; other site 62977002457 H-loop/switch region; other site 62977002458 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 62977002459 ABC-ATPase subunit interface; other site 62977002460 dimer interface [polypeptide binding]; other site 62977002461 putative PBP binding regions; other site 62977002462 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 62977002463 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 62977002464 intersubunit interface [polypeptide binding]; other site 62977002465 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977002466 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 62977002467 N-terminal plug; other site 62977002468 ligand-binding site [chemical binding]; other site 62977002469 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977002470 Coenzyme A binding pocket [chemical binding]; other site 62977002471 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 62977002472 flavanone-3-hydroxylase; Provisional; Region: PLN03176 62977002473 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977002474 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 62977002475 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977002476 DNA-binding site [nucleotide binding]; DNA binding site 62977002477 FCD domain; Region: FCD; cl11656 62977002478 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 62977002479 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 62977002480 FMN-binding pocket [chemical binding]; other site 62977002481 flavin binding motif; other site 62977002482 phosphate binding motif [ion binding]; other site 62977002483 beta-alpha-beta structure motif; other site 62977002484 NAD binding pocket [chemical binding]; other site 62977002485 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 62977002486 catalytic loop [active] 62977002487 iron binding site [ion binding]; other site 62977002488 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 62977002489 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 62977002490 iron-sulfur cluster [ion binding]; other site 62977002491 [2Fe-2S] cluster binding site [ion binding]; other site 62977002492 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 62977002493 alpha subunit interface [polypeptide binding]; other site 62977002494 active site 62977002495 substrate binding site [chemical binding]; other site 62977002496 Fe binding site [ion binding]; other site 62977002497 benzoate transport; Region: 2A0115; TIGR00895 62977002498 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 62977002499 putative substrate translocation pore; other site 62977002500 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 62977002501 outer membrane porin, OprD family; Region: OprD; cl15714 62977002502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002503 salicylate hydroxylase; Provisional; Region: PRK06475 62977002504 Helix-turn-helix domains; Region: HTH; cl00088 62977002505 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977002506 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977002507 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 62977002508 [2Fe-2S] cluster binding site [ion binding]; other site 62977002509 Herpes virus intermediate/early protein 2/3; Region: Herpes_IE2_3; pfam03361 62977002510 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 62977002511 iron-sulfur cluster [ion binding]; other site 62977002512 [2Fe-2S] cluster binding site [ion binding]; other site 62977002513 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 62977002514 hydrophobic ligand binding site; other site 62977002515 short chain dehydrogenase; Provisional; Region: PRK12939 62977002516 classical (c) SDRs; Region: SDR_c; cd05233 62977002517 NAD(P) binding site [chemical binding]; other site 62977002518 active site 62977002519 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 62977002520 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 62977002521 putative active site [active] 62977002522 putative metal binding site [ion binding]; other site 62977002523 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 62977002524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002525 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 62977002526 D-galactonate transporter; Region: 2A0114; TIGR00893 62977002527 putative substrate translocation pore; other site 62977002528 Cupin domain; Region: Cupin_2; cl09118 62977002529 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977002530 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977002531 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 62977002532 short chain dehydrogenase; Provisional; Region: PRK07062 62977002533 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 62977002534 putative NAD(P) binding site [chemical binding]; other site 62977002535 putative active site [active] 62977002536 L-aspartate dehydrogenase; Provisional; Region: PRK13303 62977002537 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002538 Domain of unknown function DUF108; Region: DUF108; pfam01958 62977002539 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977002540 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 62977002541 NAD(P) binding site [chemical binding]; other site 62977002542 catalytic residues [active] 62977002543 hypothetical protein; Provisional; Region: PRK07064 62977002544 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 62977002545 PYR/PP interface [polypeptide binding]; other site 62977002546 dimer interface [polypeptide binding]; other site 62977002547 TPP binding site [chemical binding]; other site 62977002548 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 62977002549 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 62977002550 TPP-binding site [chemical binding]; other site 62977002551 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 62977002552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977002553 Coenzyme A binding pocket [chemical binding]; other site 62977002554 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977002555 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 62977002556 N-terminal plug; other site 62977002557 ligand-binding site [chemical binding]; other site 62977002558 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 62977002559 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 62977002560 H+ Antiporter protein; Region: 2A0121; TIGR00900 62977002561 putative substrate translocation pore; other site 62977002562 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002563 Predicted dehydrogenase [General function prediction only]; Region: COG0579 62977002564 choline dehydrogenase; Validated; Region: PRK02106 62977002565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002566 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 62977002567 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977002568 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 62977002569 tetrameric interface [polypeptide binding]; other site 62977002570 NAD binding site [chemical binding]; other site 62977002571 catalytic residues [active] 62977002572 transcriptional regulator BetI; Validated; Region: PRK00767 62977002573 Helix-turn-helix domains; Region: HTH; cl00088 62977002574 BCCT family transporter; Region: BCCT; cl00569 62977002575 BCCT family transporter; Region: BCCT; cl00569 62977002576 MarC family integral membrane protein; Region: MarC; cl00919 62977002577 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 62977002578 Helix-turn-helix domains; Region: HTH; cl00088 62977002579 lipoyl synthase; Provisional; Region: PRK05481 62977002580 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 62977002581 FeS/SAM binding site; other site 62977002582 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 62977002583 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 62977002584 tetramer interface [polypeptide binding]; other site 62977002585 TPP-binding site [chemical binding]; other site 62977002586 heterodimer interface [polypeptide binding]; other site 62977002587 phosphorylation loop region [posttranslational modification] 62977002588 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 62977002589 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 62977002590 alpha subunit interface [polypeptide binding]; other site 62977002591 TPP binding site [chemical binding]; other site 62977002592 heterodimer interface [polypeptide binding]; other site 62977002593 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 62977002594 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 62977002595 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 62977002596 E3 interaction surface; other site 62977002597 lipoyl attachment site [posttranslational modification]; other site 62977002598 e3 binding domain; Region: E3_binding; pfam02817 62977002599 e3 binding domain; Region: E3_binding; pfam02817 62977002600 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 62977002601 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 62977002602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002604 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 62977002605 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 62977002606 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 62977002607 putative NAD(P) binding site [chemical binding]; other site 62977002608 catalytic Zn binding site [ion binding]; other site 62977002609 acetoin reductases; Region: 23BDH; TIGR02415 62977002610 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 62977002611 NAD binding site [chemical binding]; other site 62977002612 homotetramer interface [polypeptide binding]; other site 62977002613 homodimer interface [polypeptide binding]; other site 62977002614 active site 62977002615 substrate binding site [chemical binding]; other site 62977002616 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 62977002617 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 62977002618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002619 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977002620 YaeQ protein; Region: YaeQ; cl01913 62977002621 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977002622 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 62977002623 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 62977002624 putative active site [active] 62977002625 putative metal binding site [ion binding]; other site 62977002626 Uncharacterised BCR, COG1649; Region: DUF187; cl15398 62977002627 N-glycosyltransferase; Provisional; Region: PRK11204 62977002628 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 62977002629 DXD motif; other site 62977002630 hemin storage system protein; Provisional; Region: hmsS; cl14676 62977002631 OpgC protein; Region: OpgC_C; cl00792 62977002632 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 62977002633 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 62977002634 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977002635 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 62977002636 metabolite-proton symporter; Region: 2A0106; TIGR00883 62977002637 putative substrate translocation pore; other site 62977002638 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 62977002639 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 62977002640 active site 62977002641 motif I; other site 62977002642 motif II; other site 62977002643 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977002644 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 62977002645 active site 62977002646 catalytic residues [active] 62977002647 metal binding site [ion binding]; metal-binding site 62977002648 Glutaminase; Region: Glutaminase; cl00907 62977002649 Helix-turn-helix domain; Region: HTH_18; pfam12833 62977002650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977002651 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 62977002652 putative substrate translocation pore; other site 62977002653 Major Facilitator Superfamily; Region: MFS_1; pfam07690 62977002654 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 62977002655 DNA-binding site [nucleotide binding]; DNA binding site 62977002656 RNA-binding motif; other site 62977002657 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 62977002658 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 62977002659 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 62977002660 substrate binding pocket [chemical binding]; other site 62977002661 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 62977002662 B12 binding site [chemical binding]; other site 62977002663 cobalt ligand [ion binding]; other site 62977002664 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 62977002665 Phosphate transporter family; Region: PHO4; cl00396 62977002666 Phosphate transporter family; Region: PHO4; cl00396 62977002667 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 62977002668 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977002669 catalytic residue [active] 62977002670 Rhomboid family; Region: Rhomboid; cl11446 62977002671 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 62977002672 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 62977002673 NifU-like domain; Region: NifU; cl00484 62977002674 outer membrane receptor FepA; Provisional; Region: PRK13524 62977002675 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 62977002676 N-terminal plug; other site 62977002677 ligand-binding site [chemical binding]; other site 62977002678 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 62977002679 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 62977002680 N-terminal plug; other site 62977002681 ligand-binding site [chemical binding]; other site 62977002682 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_cladeC; cd03378 62977002683 active site clefts [active] 62977002684 zinc binding site [ion binding]; other site 62977002685 dimer interface [polypeptide binding]; other site 62977002686 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 62977002687 active site 62977002688 catalytic triad [active] 62977002689 oxyanion hole [active] 62977002690 switch loop; other site 62977002691 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 62977002692 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 62977002693 Walker A/P-loop; other site 62977002694 ATP binding site [chemical binding]; other site 62977002695 Q-loop/lid; other site 62977002696 ABC transporter signature motif; other site 62977002697 Walker B; other site 62977002698 D-loop; other site 62977002699 H-loop/switch region; other site 62977002700 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 62977002701 FtsX-like permease family; Region: FtsX; pfam02687 62977002702 FtsX-like permease family; Region: FtsX; pfam02687 62977002703 Rhomboid family; Region: Rhomboid; cl11446 62977002704 Transglycosylase; Region: Transgly; cl07896 62977002705 polyphosphate kinase; Provisional; Region: PRK05443 62977002706 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 62977002707 putative active site [active] 62977002708 catalytic site [active] 62977002709 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 62977002710 putative active site [active] 62977002711 putative domain interface [polypeptide binding]; other site 62977002712 catalytic site [active] 62977002713 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 62977002714 Helix-turn-helix domains; Region: HTH; cl00088 62977002715 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 62977002716 dimerization interface [polypeptide binding]; other site 62977002717 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977002718 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 62977002719 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 62977002720 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002721 Rubredoxin [Energy production and conversion]; Region: COG1773 62977002722 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 62977002723 iron binding site [ion binding]; other site 62977002724 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 62977002725 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 62977002726 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 62977002727 dimer interface [polypeptide binding]; other site 62977002728 putative anticodon binding site; other site 62977002729 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 62977002730 motif 1; other site 62977002731 active site 62977002732 motif 2; other site 62977002733 motif 3; other site 62977002734 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 62977002735 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 62977002736 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 62977002737 cobyric acid synthase; Provisional; Region: PRK00784 62977002738 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002740 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 62977002741 catalytic triad [active] 62977002742 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 62977002743 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 62977002744 Active Sites [active] 62977002745 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 62977002746 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 62977002747 CysD dimerization site [polypeptide binding]; other site 62977002748 G1 box; other site 62977002749 putative GEF interaction site [polypeptide binding]; other site 62977002750 GTP/Mg2+ binding site [chemical binding]; other site 62977002751 Switch I region; other site 62977002752 G2 box; other site 62977002753 G3 box; other site 62977002754 Switch II region; other site 62977002755 G4 box; other site 62977002756 G5 box; other site 62977002757 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 62977002758 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 62977002759 Citrate transporter; Region: CitMHS; pfam03600 62977002760 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 62977002761 transmembrane helices; other site 62977002762 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 62977002763 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 62977002764 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 62977002765 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 62977002766 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 62977002767 Domain of unknown function DUF21; Region: DUF21; pfam01595 62977002768 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 62977002769 Transporter associated domain; Region: CorC_HlyC; cl08393 62977002770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977002771 Helix-turn-helix domains; Region: HTH; cl00088 62977002772 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 62977002773 substrate binding pocket [chemical binding]; other site 62977002774 dimerization interface [polypeptide binding]; other site 62977002775 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 62977002776 tetramer interface [polypeptide binding]; other site 62977002777 active site 62977002778 Mg2+/Mn2+ binding site [ion binding]; other site 62977002779 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 62977002780 Uncharacterized lipoprotein NlpE involved in copper resistance; Region: NlpE; cl01138 62977002781 UreD urease accessory protein; Region: UreD; cl00530 62977002782 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 62977002783 alpha-gamma subunit interface [polypeptide binding]; other site 62977002784 beta-gamma subunit interface [polypeptide binding]; other site 62977002785 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 62977002786 gamma-beta subunit interface [polypeptide binding]; other site 62977002787 alpha-beta subunit interface [polypeptide binding]; other site 62977002788 urease subunit alpha; Reviewed; Region: ureC; PRK13207 62977002789 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 62977002790 subunit interactions [polypeptide binding]; other site 62977002791 active site 62977002792 flap region; other site 62977002793 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 62977002794 catalytic core [active] 62977002795 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 62977002796 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 62977002797 dimer interface [polypeptide binding]; other site 62977002798 catalytic residues [active] 62977002799 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 62977002800 UreF; Region: UreF; pfam01730 62977002801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977002802 HupE / UreJ protein; Region: HupE_UreJ; cl01011 62977002803 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 62977002804 S-adenosylmethionine binding site [chemical binding]; other site 62977002805 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 62977002806 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 62977002807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977002808 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 62977002809 adenylate kinase; Reviewed; Region: adk; PRK00279 62977002810 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 62977002811 AMP-binding site [chemical binding]; other site 62977002812 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 62977002813 endonuclease III; Provisional; Region: PRK10702 62977002814 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 62977002815 minor groove reading motif; other site 62977002816 helix-hairpin-helix signature motif; other site 62977002817 substrate binding pocket [chemical binding]; other site 62977002818 active site 62977002819 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 62977002820 electron transport complex protein RnfB; Provisional; Region: PRK05113 62977002821 Putative Fe-S cluster; Region: FeS; pfam04060 62977002822 4Fe-4S binding domain; Region: Fer4; cl02805 62977002823 glutamate dehydrogenase; Provisional; Region: PRK09414 62977002824 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 62977002825 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 62977002826 NAD(P) binding site [chemical binding]; other site 62977002827 META domain; Region: META; cl01245 62977002828 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 62977002829 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 62977002830 putative active site [active] 62977002831 metal binding site [ion binding]; metal-binding site 62977002832 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 62977002833 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 62977002834 Found in ATP-dependent protease La (LON); Region: LON; smart00464 62977002835 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 62977002836 Walker A motif; other site 62977002837 ATP binding site [chemical binding]; other site 62977002838 Walker B motif; other site 62977002839 arginine finger; other site 62977002840 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 62977002841 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 62977002842 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl15364 62977002843 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 62977002844 GtrA-like protein; Region: GtrA; cl00971 62977002845 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 62977002846 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 62977002847 Ligand binding site; other site 62977002848 Putative Catalytic site; other site 62977002849 DXD motif; other site 62977002850 YdjC-like protein; Region: YdjC; cl01344 62977002851 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 becoming...; Region: Lipase; cl14883 62977002852 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977002853 nucleophilic elbow; other site 62977002854 catalytic triad; other site 62977002855 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 62977002856 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 62977002857 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 62977002858 proline aminopeptidase P II; Provisional; Region: PRK10879 62977002859 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 62977002860 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 62977002861 active site 62977002862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002863 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 62977002864 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 62977002865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977002866 Predicted methyltransferases [General function prediction only]; Region: COG0313 62977002867 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 62977002868 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 62977002869 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 62977002870 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 62977002871 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 62977002872 BON domain; Region: BON; cl02771 62977002873 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 62977002874 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977002875 substrate binding pocket [chemical binding]; other site 62977002876 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 62977002877 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 62977002878 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 62977002879 putative NADH binding site [chemical binding]; other site 62977002880 putative active site [active] 62977002881 nudix motif; other site 62977002882 putative metal binding site [ion binding]; other site 62977002883 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 62977002884 RNA/DNA hybrid binding site [nucleotide binding]; other site 62977002885 active site 62977002886 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 62977002887 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 62977002888 active site 62977002889 substrate binding site [chemical binding]; other site 62977002890 catalytic site [active] 62977002891 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 62977002892 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977002893 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977002894 catalytic residue [active] 62977002895 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002896 putative peptidoglycan binding site; other site 62977002897 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002898 putative peptidoglycan binding site; other site 62977002899 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002900 putative peptidoglycan binding site; other site 62977002901 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 62977002902 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002903 putative peptidoglycan binding site; other site 62977002904 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 62977002905 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002906 putative peptidoglycan binding site; other site 62977002907 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002908 putative peptidoglycan binding site; other site 62977002909 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977002910 putative peptidoglycan binding site; other site 62977002911 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 62977002912 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 62977002913 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 62977002914 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 62977002915 dimer interface [polypeptide binding]; other site 62977002916 conserved gate region; other site 62977002917 ABC-ATPase subunit interface; other site 62977002918 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 62977002919 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 62977002920 dimer interface [polypeptide binding]; other site 62977002921 conserved gate region; other site 62977002922 putative PBP binding loops; other site 62977002923 ABC-ATPase subunit interface; other site 62977002924 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 62977002925 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 62977002926 Walker A/P-loop; other site 62977002927 ATP binding site [chemical binding]; other site 62977002928 Q-loop/lid; other site 62977002929 ABC transporter signature motif; other site 62977002930 Walker B; other site 62977002931 D-loop; other site 62977002932 H-loop/switch region; other site 62977002933 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 62977002934 Walker A/P-loop; other site 62977002935 ATP binding site [chemical binding]; other site 62977002936 Q-loop/lid; other site 62977002937 ABC transporter signature motif; other site 62977002938 Walker B; other site 62977002939 D-loop; other site 62977002940 H-loop/switch region; other site 62977002941 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 62977002942 putative active site [active] 62977002943 putative FMN binding site [chemical binding]; other site 62977002944 putative substrate binding site [chemical binding]; other site 62977002945 putative catalytic residue [active] 62977002946 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977002947 Amino acid permease; Region: AA_permease; cl00524 62977002948 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 62977002949 dimer interface [polypeptide binding]; other site 62977002950 putative active site [active] 62977002951 putative substrate binding site [chemical binding]; other site 62977002952 catalytic site [active] 62977002953 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 62977002954 active site 62977002955 substrate binding pocket [chemical binding]; other site 62977002956 dimer interface [polypeptide binding]; other site 62977002957 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 62977002958 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 62977002959 ANP binding site [chemical binding]; other site 62977002960 Substrate Binding Site II [chemical binding]; other site 62977002961 Substrate Binding Site I [chemical binding]; other site 62977002962 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977002963 Helix-turn-helix domains; Region: HTH; cl00088 62977002964 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 62977002965 dimerization interface [polypeptide binding]; other site 62977002966 EamA-like transporter family; Region: EamA; cl01037 62977002967 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 62977002968 EamA-like transporter family; Region: EamA; cl01037 62977002969 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 62977002970 active site 62977002971 FMN binding site [chemical binding]; other site 62977002972 2,4-decadienoyl-CoA binding site; other site 62977002973 catalytic residue [active] 62977002974 4Fe-4S cluster binding site [ion binding]; other site 62977002975 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 62977002976 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 62977002977 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 62977002978 E3 interaction surface; other site 62977002979 lipoyl attachment site [posttranslational modification]; other site 62977002980 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 62977002981 Protein export membrane protein; Region: SecD_SecF; cl14618 62977002982 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 62977002983 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 62977002984 RNA polymerase sigma factor; Provisional; Region: PRK12528 62977002985 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977002986 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; cl15358 62977002987 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 62977002988 FecR protein; Region: FecR; pfam04773 62977002989 Secretin and TonB N terminus short domain; Region: STN; cl06624 62977002990 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977002991 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 62977002992 N-terminal plug; other site 62977002993 ligand-binding site [chemical binding]; other site 62977002994 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 62977002995 conserved cys residue [active] 62977002996 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 62977002997 Autoinducer binding domain; Region: Autoind_bind; pfam03472 62977002998 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 62977002999 DNA binding residues [nucleotide binding] 62977003000 dimerization interface [polypeptide binding]; other site 62977003001 urocanate hydratase; Provisional; Region: PRK05414 62977003002 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 62977003003 Amino acid permease; Region: AA_permease; cl00524 62977003004 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977003005 Arginase family; Region: Arginase; cl00306 62977003006 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 62977003007 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 62977003008 FeS/SAM binding site; other site 62977003009 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 62977003010 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 62977003011 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 62977003012 putative catalytic residue [active] 62977003013 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 62977003014 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 62977003015 TPR motif; other site 62977003016 binding surface 62977003017 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 62977003018 active site 62977003019 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 62977003020 homodimer interface [polypeptide binding]; other site 62977003021 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 62977003022 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 62977003023 DXD motif; other site 62977003024 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 62977003025 DNA photolyase; Region: DNA_photolyase; pfam00875 62977003026 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 62977003027 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 62977003028 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 62977003029 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 62977003030 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 62977003031 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 62977003032 protein binding site [polypeptide binding]; other site 62977003033 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 62977003034 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 62977003035 active site 62977003036 homotetramer interface [polypeptide binding]; other site 62977003037 PseudoU_synth_RluE: Pseudouridine synthase, Escherichia coli RluE. This group is comprised of bacterial proteins similar to E. coli RluE. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines; Region: PseudoU_synth_RluE; cd02566 62977003038 pseudouridine synthase; Region: TIGR00093 62977003039 probable active site [active] 62977003040 isocitrate dehydrogenase; Validated; Region: PRK07362 62977003041 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 62977003042 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977003043 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 62977003044 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 62977003045 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 62977003046 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 62977003047 putative Cl- selectivity filter; other site 62977003048 putative pore gating glutamate residue; other site 62977003049 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 62977003050 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 62977003051 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 62977003052 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 62977003053 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 62977003054 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 62977003055 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 62977003056 putative active site [active] 62977003057 putative metal binding residues [ion binding]; other site 62977003058 signature motif; other site 62977003059 putative triphosphate binding site [ion binding]; other site 62977003060 CHAD domain; Region: CHAD; cl10506 62977003061 Protein of unknown function (DUF962); Region: DUF962; cl01879 62977003062 Surface antigen; Region: Surface_Ag_2; cl01155 62977003063 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 62977003064 thiamine phosphate binding site [chemical binding]; other site 62977003065 active site 62977003066 pyrophosphate binding site [ion binding]; other site 62977003067 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 62977003068 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 62977003069 inhibitor-cofactor binding pocket; inhibition site 62977003070 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003071 catalytic residue [active] 62977003072 Domain of unknown function (DUF336); Region: DUF336; cl01249 62977003073 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 62977003074 active site 62977003075 ATP-dependent helicase HepA; Validated; Region: PRK04914 62977003076 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 62977003077 ATP binding site [chemical binding]; other site 62977003078 putative Mg++ binding site [ion binding]; other site 62977003079 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 62977003080 nucleotide binding region [chemical binding]; other site 62977003081 ATP-binding site [chemical binding]; other site 62977003082 Ferritin-like domain; Region: Ferritin; pfam00210 62977003083 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 62977003084 dimerization interface [polypeptide binding]; other site 62977003085 DPS ferroxidase diiron center [ion binding]; other site 62977003086 ion pore; other site 62977003087 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 62977003088 Helix-turn-helix domains; Region: HTH; cl00088 62977003089 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 62977003090 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 62977003091 FAD binding pocket [chemical binding]; other site 62977003092 FAD binding motif [chemical binding]; other site 62977003093 phosphate binding motif [ion binding]; other site 62977003094 beta-alpha-beta structure motif; other site 62977003095 NAD binding pocket [chemical binding]; other site 62977003096 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 62977003097 catalytic loop [active] 62977003098 iron binding site [ion binding]; other site 62977003099 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 62977003100 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 62977003101 putative di-iron ligands [ion binding]; other site 62977003102 Protein of unknown function (DUF541); Region: SIMPL; cl01077 62977003103 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 62977003104 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 62977003105 inhibitor-cofactor binding pocket; inhibition site 62977003106 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003107 catalytic residue [active] 62977003108 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 62977003109 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 62977003110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003111 catalytic residue [active] 62977003112 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 62977003113 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 62977003114 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 62977003115 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 62977003116 dimer interface [polypeptide binding]; other site 62977003117 conserved gate region; other site 62977003118 putative PBP binding loops; other site 62977003119 ABC-ATPase subunit interface; other site 62977003120 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 62977003121 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 62977003122 dimer interface [polypeptide binding]; other site 62977003123 conserved gate region; other site 62977003124 putative PBP binding loops; other site 62977003125 ABC-ATPase subunit interface; other site 62977003126 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 62977003127 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 62977003128 Walker A/P-loop; other site 62977003129 ATP binding site [chemical binding]; other site 62977003130 Q-loop/lid; other site 62977003131 ABC transporter signature motif; other site 62977003132 Walker B; other site 62977003133 D-loop; other site 62977003134 H-loop/switch region; other site 62977003135 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 62977003136 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 62977003137 tandem repeat interface [polypeptide binding]; other site 62977003138 oligomer interface [polypeptide binding]; other site 62977003139 active site residues [active] 62977003140 Predicted membrane protein (DUF2238); Region: DUF2238; cl01464 62977003141 adenylosuccinate lyase; Provisional; Region: PRK09285 62977003142 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 62977003143 tetramer interface [polypeptide binding]; other site 62977003144 active site 62977003145 Protein of unknown function (DUF489); Region: DUF489; cl01097 62977003146 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 62977003147 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 62977003148 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, 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_2; cd03675 62977003149 nudix motif; other site 62977003150 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 62977003151 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 62977003152 active site 62977003153 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 62977003154 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 62977003155 trimer interface [polypeptide binding]; other site 62977003156 putative metal binding site [ion binding]; other site 62977003157 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 62977003158 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 62977003159 Survival protein SurE; Region: SurE; cl00448 62977003160 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 62977003161 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 62977003162 putative peptidoglycan binding site; other site 62977003163 Helix-turn-helix domains; Region: HTH; cl00088 62977003164 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977003165 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 62977003166 putative effector binding pocket; other site 62977003167 dimerization interface [polypeptide binding]; other site 62977003168 acetylornithine aminotransferase; Provisional; Region: PRK02627 62977003169 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 62977003170 inhibitor-cofactor binding pocket; inhibition site 62977003171 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003172 catalytic residue [active] 62977003173 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 62977003174 putative GSH binding site [chemical binding]; other site 62977003175 catalytic residues [active] 62977003176 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 62977003177 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 62977003178 catalytic residue [active] 62977003179 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 62977003180 catalytic residues [active] 62977003181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003182 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 62977003183 S-adenosylmethionine binding site [chemical binding]; other site 62977003184 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 62977003185 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 62977003186 Ligand Binding Site [chemical binding]; other site 62977003187 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977003188 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 62977003189 N-terminal plug; other site 62977003190 ligand-binding site [chemical binding]; other site 62977003191 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 62977003192 Permease family; Region: Xan_ur_permease; cl00967 62977003193 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 62977003194 Permease family; Region: Xan_ur_permease; cl00967 62977003195 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 62977003196 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 62977003197 active site 62977003198 purine riboside binding site [chemical binding]; other site 62977003199 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 62977003200 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 62977003201 RNA/DNA hybrid binding site [nucleotide binding]; other site 62977003202 active site 62977003203 putative transposase OrfB; Reviewed; Region: PHA02517 62977003204 Integrase core domain; Region: rve; cl01316 62977003205 Helix-turn-helix domains; Region: HTH; cl00088 62977003206 Global regulator protein family; Region: CsrA; cl00670 62977003207 aspartate kinase; Reviewed; Region: PRK06635 62977003208 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 62977003209 putative nucleotide binding site [chemical binding]; other site 62977003210 putative catalytic residues [active] 62977003211 putative Mg ion binding site [ion binding]; other site 62977003212 putative aspartate binding site [chemical binding]; other site 62977003213 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 62977003214 putative allosteric regulatory site; other site 62977003215 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 62977003216 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 62977003217 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 62977003218 motif 1; other site 62977003219 active site 62977003220 motif 2; other site 62977003221 motif 3; other site 62977003222 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 62977003223 DHHA1 domain; Region: DHHA1; pfam02272 62977003224 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 62977003225 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 62977003226 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 62977003227 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 62977003228 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 62977003229 dimer interface [polypeptide binding]; other site 62977003230 motif 1; other site 62977003231 active site 62977003232 motif 2; other site 62977003233 motif 3; other site 62977003234 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 62977003235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977003236 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977003237 Peptidase family M48; Region: Peptidase_M48; cl12018 62977003238 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 62977003239 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 62977003240 active site 62977003241 catalytic tetrad [active] 62977003242 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 62977003243 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 62977003244 ligand binding site [chemical binding]; other site 62977003245 flexible hinge region; other site 62977003246 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 62977003247 putative switch regulator; other site 62977003248 non-specific DNA interactions [nucleotide binding]; other site 62977003249 DNA binding site [nucleotide binding] 62977003250 sequence specific DNA binding site [nucleotide binding]; other site 62977003251 putative cAMP binding site [chemical binding]; other site 62977003252 OsmC-like protein; Region: OsmC; cl00767 62977003253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977003254 Coenzyme A binding pocket [chemical binding]; other site 62977003255 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 62977003256 Clp amino terminal domain; Region: Clp_N; pfam02861 62977003257 Clp amino terminal domain; Region: Clp_N; pfam02861 62977003258 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 62977003259 Walker A motif; other site 62977003260 ATP binding site [chemical binding]; other site 62977003261 Walker B motif; other site 62977003262 arginine finger; other site 62977003263 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 62977003264 Walker A motif; other site 62977003265 ATP binding site [chemical binding]; other site 62977003266 Walker B motif; other site 62977003267 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 62977003268 Dehydratase family; Region: ILVD_EDD; cl00340 62977003269 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 62977003270 THUMP domain; Region: THUMP; cl12076 62977003271 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; cl12011 62977003272 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; cl12011 62977003273 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 62977003274 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 62977003275 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003276 dihydroorotase; Validated; Region: pyrC; PRK09357 62977003277 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 62977003278 active site 62977003279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003280 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 62977003281 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 62977003282 S-adenosylmethionine binding site [chemical binding]; other site 62977003283 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977003284 Amino acid permease; Region: AA_permease; cl00524 62977003285 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 62977003286 Ligand Binding Site [chemical binding]; other site 62977003287 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 62977003288 Ligand Binding Site [chemical binding]; other site 62977003289 cyanophycin synthetase; Provisional; Region: PRK14016 62977003290 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977003291 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977003292 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977003293 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 62977003294 proposed catalytic triad [active] 62977003295 active site nucleophile [active] 62977003296 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 62977003297 proposed catalytic triad [active] 62977003298 active site nucleophile [active] 62977003299 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 62977003300 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 62977003301 active site 62977003302 Zn binding site [ion binding]; other site 62977003303 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 62977003304 Helix-turn-helix domains; Region: HTH; cl00088 62977003305 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 62977003306 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 62977003307 inhibitor-cofactor binding pocket; inhibition site 62977003308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003309 catalytic residue [active] 62977003310 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 62977003311 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 62977003312 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977003313 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 62977003314 NAD(P) binding site [chemical binding]; other site 62977003315 catalytic residues [active] 62977003316 Succinylarginine dihydrolase; Region: AstB; cl01511 62977003317 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 62977003318 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 62977003319 putative active site [active] 62977003320 Zn binding site [ion binding]; other site 62977003321 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977003322 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 62977003323 intersubunit interface [polypeptide binding]; other site 62977003324 active site 62977003325 Zn2+ binding site [ion binding]; other site 62977003326 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977003327 Helix-turn-helix domains; Region: HTH; cl00088 62977003328 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 62977003329 dimerization interface [polypeptide binding]; other site 62977003330 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 62977003331 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 62977003332 flavanone-3-hydroxylase; Provisional; Region: PLN03176 62977003333 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977003334 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 62977003335 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 62977003336 substrate binding pocket [chemical binding]; other site 62977003337 membrane-bound complex binding site; other site 62977003338 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 62977003339 dimer interface [polypeptide binding]; other site 62977003340 conserved gate region; other site 62977003341 putative PBP binding loops; other site 62977003342 ABC-ATPase subunit interface; other site 62977003343 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 62977003344 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 62977003345 Walker A/P-loop; other site 62977003346 ATP binding site [chemical binding]; other site 62977003347 Q-loop/lid; other site 62977003348 ABC transporter signature motif; other site 62977003349 Walker B; other site 62977003350 D-loop; other site 62977003351 H-loop/switch region; other site 62977003352 Arginase family; Region: Arginase; cl00306 62977003353 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977003354 Helix-turn-helix domains; Region: HTH; cl00088 62977003355 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 62977003356 dimerization interface [polypeptide binding]; other site 62977003357 glycerate dehydrogenase; Provisional; Region: PRK06932 62977003358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003359 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; cl12011 62977003360 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 62977003361 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 62977003362 generic binding surface II; other site 62977003363 generic binding surface I; other site 62977003364 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 62977003365 putative active site [active] 62977003366 putative catalytic site [active] 62977003367 putative Mg binding site IVb [ion binding]; other site 62977003368 putative phosphate binding site [ion binding]; other site 62977003369 putative DNA binding site [nucleotide binding]; other site 62977003370 putative Mg binding site IVa [ion binding]; other site 62977003371 glutathionine S-transferase; Provisional; Region: PRK10542 62977003372 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 62977003373 C-terminal domain interface [polypeptide binding]; other site 62977003374 GSH binding site (G-site) [chemical binding]; other site 62977003375 dimer interface [polypeptide binding]; other site 62977003376 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 62977003377 dimer interface [polypeptide binding]; other site 62977003378 N-terminal domain interface [polypeptide binding]; other site 62977003379 substrate binding pocket (H-site) [chemical binding]; other site 62977003380 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 62977003381 ThiS interaction site; other site 62977003382 putative active site [active] 62977003383 tetramer interface [polypeptide binding]; other site 62977003384 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 62977003385 thiS-thiF/thiG interaction site; other site 62977003386 Protein of unknown function (DUF423); Region: DUF423; cl01008 62977003387 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 62977003388 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 62977003389 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977003390 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 62977003391 DNA binding residues [nucleotide binding] 62977003392 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 62977003393 CPxP motif; other site 62977003394 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 62977003395 DNA-binding site [nucleotide binding]; DNA binding site 62977003396 RNA-binding motif; other site 62977003397 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 62977003398 DEAD-like helicases superfamily; Region: DEXDc; smart00487 62977003399 ATP binding site [chemical binding]; other site 62977003400 Mg++ binding site [ion binding]; other site 62977003401 motif III; other site 62977003402 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 62977003403 nucleotide binding region [chemical binding]; other site 62977003404 ATP-binding site [chemical binding]; other site 62977003405 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 62977003406 putative FMN binding site [chemical binding]; other site 62977003407 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 62977003408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003409 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 62977003410 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 62977003411 catalytic core [active] 62977003412 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 62977003413 GspL periplasmic domain; Region: GspL_C; cl14909 62977003414 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 62977003415 quinone interaction residues [chemical binding]; other site 62977003416 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 62977003417 active site 62977003418 catalytic residues [active] 62977003419 FMN binding site [chemical binding]; other site 62977003420 substrate binding site [chemical binding]; other site 62977003421 Colicin V production protein; Region: Colicin_V; cl00567 62977003422 amidophosphoribosyltransferase; Provisional; Region: PRK09246 62977003423 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 62977003424 active site 62977003425 tetramer interface [polypeptide binding]; other site 62977003426 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977003427 Peptidase family M48; Region: Peptidase_M48; cl12018 62977003428 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 62977003429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003430 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 62977003431 Peptidase family M48; Region: Peptidase_M48; cl12018 62977003432 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 62977003433 binding surface 62977003434 TPR motif; other site 62977003435 GatB domain; Region: GatB_Yqey; cl11497 62977003436 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 62977003437 UGMP family protein; Validated; Region: PRK09604 62977003438 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 62977003439 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 62977003440 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 62977003441 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 62977003442 Walker A motif; other site 62977003443 ATP binding site [chemical binding]; other site 62977003444 Walker B motif; other site 62977003445 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 62977003446 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 62977003447 active site 62977003448 nucleophile elbow; other site 62977003449 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 62977003450 active site 62977003451 ATP binding site [chemical binding]; other site 62977003452 substrate binding site [chemical binding]; other site 62977003453 activation loop (A-loop); other site 62977003454 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 62977003455 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977003456 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 62977003457 putative active site [active] 62977003458 Amino acid permease; Region: AA_permease; cl00524 62977003459 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977003460 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 62977003461 Helix-turn-helix domains; Region: HTH; cl00088 62977003462 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 62977003463 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 62977003464 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 62977003465 superoxide dismutase; Provisional; Region: PRK10543 62977003466 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 62977003467 Uncharacterized conserved protein [Function unknown]; Region: COG0327 62977003468 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 62977003469 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 62977003470 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 62977003471 protein binding site [polypeptide binding]; other site 62977003472 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 62977003473 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 62977003474 iron-sulfur cluster [ion binding]; other site 62977003475 [2Fe-2S] cluster binding site [ion binding]; other site 62977003476 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 62977003477 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 adenosine...; Region: adenosine_kinase; cd01168 62977003478 substrate binding site [chemical binding]; other site 62977003479 ATP binding site [chemical binding]; other site 62977003480 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 62977003481 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 62977003482 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 62977003483 Peptidase M16C associated; Region: M16C_assoc; pfam08367 62977003484 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 62977003485 dimerization interface [polypeptide binding]; other site 62977003486 substrate binding site [chemical binding]; other site 62977003487 active site 62977003488 calcium binding site [ion binding]; other site 62977003489 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 62977003490 Cation transport protein; Region: TrkH; cl10514 62977003491 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 62977003492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003493 threonine dehydratase; Reviewed; Region: PRK09224 62977003494 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 62977003495 tetramer interface [polypeptide binding]; other site 62977003496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003497 catalytic residue [active] 62977003498 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 62977003499 putative Ile/Val binding site [chemical binding]; other site 62977003500 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 62977003501 putative Ile/Val binding site [chemical binding]; other site 62977003502 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 62977003503 tetramer (dimer of dimers) interface [polypeptide binding]; other site 62977003504 active site 62977003505 dimer interface [polypeptide binding]; other site 62977003506 Protein of unknown function DUF45; Region: DUF45; cl00636 62977003507 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 62977003508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003509 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 62977003510 Membrane-anchored protein predicted to be involved in regulation of amylopullulanase [Carbohydrate transport and metabolism]; Region: COG4945 62977003511 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 62977003512 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 62977003513 Clp amino terminal domain; Region: Clp_N; pfam02861 62977003514 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 62977003515 Walker A motif; other site 62977003516 ATP binding site [chemical binding]; other site 62977003517 Walker B motif; other site 62977003518 arginine finger; other site 62977003519 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 62977003520 Walker A motif; other site 62977003521 ATP binding site [chemical binding]; other site 62977003522 Walker B motif; other site 62977003523 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 62977003524 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 62977003525 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 62977003526 ornithine carbamoyltransferase; Provisional; Region: PRK00779 62977003527 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 62977003528 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003529 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977003530 Helix-turn-helix domains; Region: HTH; cl00088 62977003531 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 62977003532 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 62977003533 active site 62977003534 phosphorylation site [posttranslational modification] 62977003535 intermolecular recognition site; other site 62977003536 dimerization interface [polypeptide binding]; other site 62977003537 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 62977003538 Walker A motif; other site 62977003539 ATP binding site [chemical binding]; other site 62977003540 Walker B motif; other site 62977003541 arginine finger; other site 62977003542 Helix-turn-helix domains; Region: HTH; cl00088 62977003543 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 62977003544 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 62977003545 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 62977003546 dimer interface [polypeptide binding]; other site 62977003547 phosphorylation site [posttranslational modification] 62977003548 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 62977003549 ATP binding site [chemical binding]; other site 62977003550 Mg2+ binding site [ion binding]; other site 62977003551 G-X-G motif; other site 62977003552 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 62977003553 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 62977003554 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 62977003555 FeS/SAM binding site; other site 62977003556 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 62977003557 putative nucleotide binding site [chemical binding]; other site 62977003558 uridine monophosphate binding site [chemical binding]; other site 62977003559 homohexameric interface [polypeptide binding]; other site 62977003560 ribosome recycling factor; Reviewed; Region: frr; PRK00083 62977003561 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 62977003562 hinge region; other site 62977003563 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 62977003564 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 62977003565 catalytic residue [active] 62977003566 putative FPP diphosphate binding site; other site 62977003567 putative FPP binding hydrophobic cleft; other site 62977003568 dimer interface [polypeptide binding]; other site 62977003569 putative IPP diphosphate binding site; other site 62977003570 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 62977003571 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 62977003572 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 62977003573 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 62977003574 zinc metallopeptidase RseP; Provisional; Region: PRK10779 62977003575 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 62977003576 active site 62977003577 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 62977003578 protein binding site [polypeptide binding]; other site 62977003579 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 62977003580 protein binding site [polypeptide binding]; other site 62977003581 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 62977003582 putative substrate binding region [chemical binding]; other site 62977003583 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 62977003584 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977003585 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977003586 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977003587 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977003588 Surface antigen; Region: Bac_surface_Ag; cl03097 62977003589 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 62977003590 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 62977003591 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 62977003592 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 62977003593 trimer interface [polypeptide binding]; other site 62977003594 active site 62977003595 UDP-GlcNAc binding site [chemical binding]; other site 62977003596 lipid binding site [chemical binding]; lipid-binding site 62977003597 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 62977003598 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 62977003599 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 62977003600 active site 62977003601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 62977003602 RecX family; Region: RecX; cl00936 62977003603 recombinase A; Provisional; Region: recA; PRK09354 62977003604 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 62977003605 hexamer interface [polypeptide binding]; other site 62977003606 Walker A motif; other site 62977003607 ATP binding site [chemical binding]; other site 62977003608 Walker B motif; other site 62977003609 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 62977003610 RNA binding surface [nucleotide binding]; other site 62977003611 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 62977003612 active site 62977003613 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 62977003614 catalytic core [active] 62977003615 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 62977003616 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 62977003617 NAD binding site [chemical binding]; other site 62977003618 active site 62977003619 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 62977003620 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 62977003621 putative C-terminal domain interface [polypeptide binding]; other site 62977003622 putative GSH binding site (G-site) [chemical binding]; other site 62977003623 putative dimer interface [polypeptide binding]; other site 62977003624 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 62977003625 putative C-terminal domain interface [polypeptide binding]; other site 62977003626 putative GSH binding site (G-site) [chemical binding]; other site 62977003627 putative dimer interface [polypeptide binding]; other site 62977003628 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 62977003629 transcription-repair coupling factor; Provisional; Region: PRK10689 62977003630 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 62977003631 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 62977003632 ATP binding site [chemical binding]; other site 62977003633 putative Mg++ binding site [ion binding]; other site 62977003634 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 62977003635 nucleotide binding region [chemical binding]; other site 62977003636 ATP-binding site [chemical binding]; other site 62977003637 TRCF domain; Region: TRCF; cl04088 62977003638 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 62977003639 cyclase homology domain; Region: CHD; cd07302 62977003640 nucleotidyl binding site; other site 62977003641 metal binding site [ion binding]; metal-binding site 62977003642 dimer interface [polypeptide binding]; other site 62977003643 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 62977003644 catalytic loop [active] 62977003645 iron binding site [ion binding]; other site 62977003646 chaperone protein HscA; Provisional; Region: hscA; PRK05183 62977003647 co-chaperone HscB; Provisional; Region: hscB; PRK05014 62977003648 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 62977003649 HSP70 interaction site [polypeptide binding]; other site 62977003650 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 62977003651 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 62977003652 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 62977003653 trimerization site [polypeptide binding]; other site 62977003654 active site 62977003655 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 62977003656 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 62977003657 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977003658 catalytic residue [active] 62977003659 Helix-turn-helix domains; Region: HTH; cl00088 62977003660 Rrf2 family protein; Region: rrf2_super; TIGR00738 62977003661 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 62977003662 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 62977003663 IHF dimer interface [polypeptide binding]; other site 62977003664 IHF - DNA interface [nucleotide binding]; other site 62977003665 periplasmic folding chaperone; Provisional; Region: PRK10788 62977003666 SurA N-terminal domain; Region: SurA_N; pfam09312 62977003667 PPIC-type PPIASE domain; Region: Rotamase; cl08278 62977003668 Cupin domain; Region: Cupin_2; cl09118 62977003669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977003670 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977003671 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977003672 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 62977003673 Di-iron ligands [ion binding]; other site 62977003674 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977003675 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977003676 active site 62977003677 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977003678 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977003679 active site 62977003680 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; cl15691 62977003681 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 62977003682 Amino acid permease; Region: AA_permease; cl00524 62977003683 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 62977003684 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 62977003685 dihydroorotase; Reviewed; Region: PRK09236 62977003686 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 62977003687 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 62977003688 active site 62977003689 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 62977003690 Gamma carbonic anhydrases (CA): Carbonic anhydrases are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism, involving the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide, followed...; Region: LbH_gamma_CA; cd00710 62977003691 trimer interface [polypeptide binding]; other site 62977003692 active site 62977003693 sensor protein QseC; Provisional; Region: PRK10337 62977003694 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 62977003695 dimer interface [polypeptide binding]; other site 62977003696 phosphorylation site [posttranslational modification] 62977003697 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 62977003698 ATP binding site [chemical binding]; other site 62977003699 Mg2+ binding site [ion binding]; other site 62977003700 G-X-G motif; other site 62977003701 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 62977003702 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 62977003703 active site 62977003704 phosphorylation site [posttranslational modification] 62977003705 intermolecular recognition site; other site 62977003706 dimerization interface [polypeptide binding]; other site 62977003707 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 62977003708 DNA binding site [nucleotide binding] 62977003709 putative metal dependent hydrolase; Provisional; Region: PRK11598 62977003710 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 62977003711 Sulfatase; Region: Sulfatase; cl10460 62977003712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977003713 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 62977003714 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977003715 Helix-turn-helix domains; Region: HTH; cl00088 62977003716 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 62977003717 substrate binding pocket [chemical binding]; other site 62977003718 dimerization interface [polypeptide binding]; other site 62977003719 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977003720 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977003721 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977003722 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 62977003723 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977003724 substrate binding pocket [chemical binding]; other site 62977003725 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 62977003726 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 62977003727 catalytic Zn binding site [ion binding]; other site 62977003728 NAD binding site [chemical binding]; other site 62977003729 structural Zn binding site [ion binding]; other site 62977003730 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977003731 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 62977003732 NAD(P) binding site [chemical binding]; other site 62977003733 catalytic residues [active] 62977003734 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 62977003735 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 62977003736 Walker A motif; other site 62977003737 ATP binding site [chemical binding]; other site 62977003738 Walker B motif; other site 62977003739 arginine finger; other site 62977003740 Helix-turn-helix domains; Region: HTH; cl00088 62977003741 outer membrane porin, OprD family; Region: OprD; cl15714 62977003742 benzoate transport; Region: 2A0115; TIGR00895 62977003743 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 62977003744 putative substrate translocation pore; other site 62977003745 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 62977003746 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 62977003747 Helix-turn-helix domains; Region: HTH; cl00088 62977003748 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 62977003749 dimerizarion interface [polypeptide binding]; other site 62977003750 CrgA pocket; other site 62977003751 substrate binding pocket [chemical binding]; other site 62977003752 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 62977003753 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 62977003754 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 62977003755 putative alpha subunit interface [polypeptide binding]; other site 62977003756 putative active site [active] 62977003757 putative substrate binding site [chemical binding]; other site 62977003758 Fe binding site [ion binding]; other site 62977003759 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 62977003760 inter-subunit interface; other site 62977003761 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 62977003762 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 62977003763 catalytic loop [active] 62977003764 iron binding site [ion binding]; other site 62977003765 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 62977003766 FAD binding pocket [chemical binding]; other site 62977003767 FAD binding motif [chemical binding]; other site 62977003768 phosphate binding motif [ion binding]; other site 62977003769 beta-alpha-beta structure motif; other site 62977003770 NAD binding pocket [chemical binding]; other site 62977003771 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 62977003772 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 62977003773 putative NAD(P) binding site [chemical binding]; other site 62977003774 active site 62977003775 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 62977003776 Permease family; Region: Xan_ur_permease; cl00967 62977003777 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 62977003778 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 62977003779 dimer interface [polypeptide binding]; other site 62977003780 active site 62977003781 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 62977003782 G1 box; other site 62977003783 GTP/Mg2+ binding site [chemical binding]; other site 62977003784 Switch II region; other site 62977003785 G3 box; other site 62977003786 G4 box; other site 62977003787 G5 box; other site 62977003788 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 62977003789 G1 box; other site 62977003790 GTP/Mg2+ binding site [chemical binding]; other site 62977003791 Switch I region; other site 62977003792 G2 box; other site 62977003793 Switch II region; other site 62977003794 G3 box; other site 62977003795 G4 box; other site 62977003796 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 62977003797 Helix-turn-helix domains; Region: HTH; cl00088 62977003798 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 62977003799 dimerizarion interface [polypeptide binding]; other site 62977003800 CrgA pocket; other site 62977003801 substrate binding pocket [chemical binding]; other site 62977003802 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 62977003803 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 62977003804 octamer interface [polypeptide binding]; other site 62977003805 active site 62977003806 Muconolactone delta-isomerase; Region: MIase; cl01992 62977003807 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977003808 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977003809 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 62977003810 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 62977003811 dimer interface [polypeptide binding]; other site 62977003812 active site 62977003813 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 62977003814 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 62977003815 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 62977003816 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 62977003817 inhibitor-cofactor binding pocket; inhibition site 62977003818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977003819 catalytic residue [active] 62977003820 Helix-turn-helix domains; Region: HTH; cl00088 62977003821 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 62977003822 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 62977003823 putative NAD(P) binding site [chemical binding]; other site 62977003824 dimer interface [polypeptide binding]; other site 62977003825 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977003826 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 62977003827 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977003828 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977003829 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; cl15691 62977003830 active site 62977003831 substrate binding site [chemical binding]; other site 62977003832 Phosphotransferase enzyme family; Region: APH; pfam01636 62977003833 ATP binding site [chemical binding]; other site 62977003834 ethanolamine permease; Region: 2A0305; TIGR00908 62977003835 Amino acid permease; Region: AA_permease; cl00524 62977003836 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977003837 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 62977003838 N-terminal plug; other site 62977003839 ligand-binding site [chemical binding]; other site 62977003840 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 62977003841 Transcriptional regulators [Transcription]; Region: FadR; COG2186 62977003842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977003843 DNA-binding site [nucleotide binding]; DNA binding site 62977003844 FCD domain; Region: FCD; cl11656 62977003845 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977003846 NMT1/THI5 like; Region: NMT1; pfam09084 62977003847 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 62977003848 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 62977003849 Walker A/P-loop; other site 62977003850 ATP binding site [chemical binding]; other site 62977003851 Q-loop/lid; other site 62977003852 ABC transporter signature motif; other site 62977003853 Walker B; other site 62977003854 D-loop; other site 62977003855 H-loop/switch region; other site 62977003856 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 62977003857 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 62977003858 dimer interface [polypeptide binding]; other site 62977003859 conserved gate region; other site 62977003860 putative PBP binding loops; other site 62977003861 ABC-ATPase subunit interface; other site 62977003862 amidohydrolase; Provisional; Region: PRK12393 62977003863 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 62977003864 active site 62977003865 putative substrate binding pocket [chemical binding]; other site 62977003866 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977003867 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; cl15358 62977003868 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 62977003869 FecR protein; Region: FecR; pfam04773 62977003870 Secretin and TonB N terminus short domain; Region: STN; cl06624 62977003871 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 62977003872 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 62977003873 Protein of unknown function (DUF560); Region: DUF560; pfam04575 62977003874 Gram-negative bacterial tonB protein; Region: TonB; cl10048 62977003875 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 62977003876 heme binding pocket [chemical binding]; other site 62977003877 heme ligand [chemical binding]; other site 62977003878 Protein of unknown function (DUF454); Region: DUF454; cl01063 62977003879 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 62977003880 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 62977003881 active site 62977003882 HIGH motif; other site 62977003883 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 62977003884 KMSKS motif; other site 62977003885 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 62977003886 tRNA binding surface [nucleotide binding]; other site 62977003887 anticodon binding site; other site 62977003888 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 62977003889 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 62977003890 putative active site [active] 62977003891 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 62977003892 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977003893 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 62977003894 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 62977003895 OstA-like protein; Region: OstA; cl00844 62977003896 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 62977003897 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 62977003898 Walker A/P-loop; other site 62977003899 ATP binding site [chemical binding]; other site 62977003900 Q-loop/lid; other site 62977003901 ABC transporter signature motif; other site 62977003902 Walker B; other site 62977003903 D-loop; other site 62977003904 H-loop/switch region; other site 62977003905 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 62977003906 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 62977003907 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 62977003908 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977003909 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977003910 Walker A/P-loop; other site 62977003911 ATP binding site [chemical binding]; other site 62977003912 Q-loop/lid; other site 62977003913 ABC transporter signature motif; other site 62977003914 Walker B; other site 62977003915 D-loop; other site 62977003916 H-loop/switch region; other site 62977003917 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 62977003918 Uncharacterized conserved protein [Function unknown]; Region: COG1739 62977003919 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 62977003920 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 62977003921 putative trimer interface [polypeptide binding]; other site 62977003922 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 62977003923 trimer interface [polypeptide binding]; other site 62977003924 active site 62977003925 substrate binding site [chemical binding]; other site 62977003926 putative CoA binding site [chemical binding]; other site 62977003927 CoA binding site [chemical binding]; other site 62977003928 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 62977003929 Ligand Binding Site [chemical binding]; other site 62977003930 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 62977003931 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; cl12011 62977003932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 62977003933 Ferredoxin [Energy production and conversion]; Region: COG1146 62977003934 4Fe-4S binding domain; Region: Fer4; cl02805 62977003935 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 62977003936 Sensors of blue-light using FAD; Region: BLUF; cl04855 62977003937 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 62977003938 MutS domain I; Region: MutS_I; pfam01624 62977003939 MutS domain II; Region: MutS_II; pfam05188 62977003940 MutS family domain IV; Region: MutS_IV; pfam05190 62977003941 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 62977003942 Walker A/P-loop; other site 62977003943 ATP binding site [chemical binding]; other site 62977003944 Q-loop/lid; other site 62977003945 ABC transporter signature motif; other site 62977003946 Walker B; other site 62977003947 D-loop; other site 62977003948 H-loop/switch region; other site 62977003949 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 62977003950 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 62977003951 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 62977003952 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 62977003953 active site 62977003954 dimer interface [polypeptide binding]; other site 62977003955 non-prolyl cis peptide bond; other site 62977003956 insertion regions; other site 62977003957 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 62977003958 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 62977003959 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 62977003960 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 62977003961 dimer interface [polypeptide binding]; other site 62977003962 conserved gate region; other site 62977003963 putative PBP binding loops; other site 62977003964 ABC-ATPase subunit interface; other site 62977003965 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 62977003966 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 62977003967 dimer interface [polypeptide binding]; other site 62977003968 conserved gate region; other site 62977003969 putative PBP binding loops; other site 62977003970 ABC-ATPase subunit interface; other site 62977003971 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 62977003972 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 62977003973 Walker A/P-loop; other site 62977003974 ATP binding site [chemical binding]; other site 62977003975 Q-loop/lid; other site 62977003976 ABC transporter signature motif; other site 62977003977 Walker B; other site 62977003978 D-loop; other site 62977003979 H-loop/switch region; other site 62977003980 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 62977003981 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 62977003982 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 62977003983 Walker A/P-loop; other site 62977003984 ATP binding site [chemical binding]; other site 62977003985 Q-loop/lid; other site 62977003986 ABC transporter signature motif; other site 62977003987 Walker B; other site 62977003988 D-loop; other site 62977003989 H-loop/switch region; other site 62977003990 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 62977003991 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977003992 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977003993 active site 62977003994 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 62977003995 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977003996 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 62977003997 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977003998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977003999 Walker A/P-loop; other site 62977004000 ATP binding site [chemical binding]; other site 62977004001 Q-loop/lid; other site 62977004002 ABC transporter signature motif; other site 62977004003 Walker B; other site 62977004004 D-loop; other site 62977004005 H-loop/switch region; other site 62977004006 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 62977004007 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977004008 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 62977004009 Walker A/P-loop; other site 62977004010 ATP binding site [chemical binding]; other site 62977004011 Q-loop/lid; other site 62977004012 ABC transporter signature motif; other site 62977004013 Walker B; other site 62977004014 D-loop; other site 62977004015 H-loop/switch region; other site 62977004016 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 62977004017 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 62977004018 N-terminal plug; other site 62977004019 ligand-binding site [chemical binding]; other site 62977004020 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 62977004021 Secretory lipase; Region: LIP; pfam03583 62977004022 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 62977004023 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 62977004024 dimer interface [polypeptide binding]; other site 62977004025 active site 62977004026 non-prolyl cis peptide bond; other site 62977004027 insertion regions; other site 62977004028 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 62977004029 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 62977004030 Walker A motif; other site 62977004031 ATP binding site [chemical binding]; other site 62977004032 Walker B motif; other site 62977004033 arginine finger; other site 62977004034 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 62977004035 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 62977004036 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 62977004037 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 62977004038 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 62977004039 Walker A/P-loop; other site 62977004040 ATP binding site [chemical binding]; other site 62977004041 Q-loop/lid; other site 62977004042 ABC transporter signature motif; other site 62977004043 Walker B; other site 62977004044 D-loop; other site 62977004045 H-loop/switch region; other site 62977004046 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 62977004047 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 62977004048 dimer interface [polypeptide binding]; other site 62977004049 conserved gate region; other site 62977004050 ABC-ATPase subunit interface; other site 62977004051 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 62977004052 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 62977004053 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977004054 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977004055 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 62977004056 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 62977004057 active site 62977004058 dimer interface [polypeptide binding]; other site 62977004059 non-prolyl cis peptide bond; other site 62977004060 insertion regions; other site 62977004061 Gram-negative bacterial tonB protein; Region: TonB; cl10048 62977004062 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 62977004063 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 62977004064 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 62977004065 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 62977004066 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 62977004067 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl00284 62977004068 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 62977004069 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 62977004070 N-terminal plug; other site 62977004071 ligand-binding site [chemical binding]; other site 62977004072 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 62977004073 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 62977004074 active site 62977004075 dimer interface [polypeptide binding]; other site 62977004076 non-prolyl cis peptide bond; other site 62977004077 insertion regions; other site 62977004078 tricarballylate utilization protein B; Provisional; Region: PRK15033 62977004079 tricarballylate dehydrogenase; Validated; Region: PRK08274 62977004080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004081 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 62977004082 Helix-turn-helix domains; Region: HTH; cl00088 62977004083 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 62977004084 putative dimerization interface [polypeptide binding]; other site 62977004085 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 62977004086 citrate-proton symporter; Provisional; Region: PRK15075 62977004087 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 62977004088 putative substrate translocation pore; other site 62977004089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977004090 Helix-turn-helix domains; Region: HTH; cl00088 62977004091 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 62977004092 putative dimerization interface [polypeptide binding]; other site 62977004093 Helix-turn-helix domains; Region: HTH; cl00088 62977004094 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977004095 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977004096 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 62977004097 C-terminal domain interface [polypeptide binding]; other site 62977004098 GSH binding site (G-site) [chemical binding]; other site 62977004099 dimer interface [polypeptide binding]; other site 62977004100 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 62977004101 substrate binding pocket (H-site) [chemical binding]; other site 62977004102 N-terminal domain interface [polypeptide binding]; other site 62977004103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004104 NAD(P) binding site [chemical binding]; other site 62977004105 active site 62977004106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004107 active site 62977004108 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004109 active site 62977004110 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 62977004111 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 62977004112 S-adenosylmethionine binding site [chemical binding]; other site 62977004113 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 62977004114 active site 62977004115 Helix-turn-helix domains; Region: HTH; cl00088 62977004116 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004117 active site 62977004118 Flavin Reductases; Region: FlaRed; cl00801 62977004119 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 62977004120 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 62977004121 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 62977004122 NAD binding site [chemical binding]; other site 62977004123 homotetramer interface [polypeptide binding]; other site 62977004124 homodimer interface [polypeptide binding]; other site 62977004125 active site 62977004126 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004127 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 62977004128 active site 62977004129 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 62977004130 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 62977004131 putative active site [active] 62977004132 putative substrate binding site [chemical binding]; other site 62977004133 ATP binding site [chemical binding]; other site 62977004134 enoyl-CoA hydratase; Provisional; Region: PRK06688 62977004135 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 62977004136 substrate binding site [chemical binding]; other site 62977004137 oxyanion hole (OAH) forming residues; other site 62977004138 trimer interface [polypeptide binding]; other site 62977004139 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 62977004140 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 62977004141 dimer interface [polypeptide binding]; other site 62977004142 active site 62977004143 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 62977004144 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 62977004145 FMN binding site [chemical binding]; other site 62977004146 substrate binding site [chemical binding]; other site 62977004147 putative catalytic residue [active] 62977004148 enoyl-CoA hydratase; Provisional; Region: PRK06494 62977004149 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 62977004150 substrate binding site [chemical binding]; other site 62977004151 oxyanion hole (OAH) forming residues; other site 62977004152 trimer interface [polypeptide binding]; other site 62977004153 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977004154 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 62977004155 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977004156 Cytochrome P450; Region: p450; cl12078 62977004157 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 62977004158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004160 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 62977004161 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977004162 NAD(P) binding site [chemical binding]; other site 62977004163 catalytic residues [active] 62977004164 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 62977004165 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 62977004166 catalytic Zn binding site [ion binding]; other site 62977004167 NAD binding site [chemical binding]; other site 62977004168 structural Zn binding site [ion binding]; other site 62977004169 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 62977004170 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 62977004171 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004172 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977004173 Helix-turn-helix domains; Region: HTH; cl00088 62977004174 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 62977004175 Aminotransferase class-V; Region: Aminotran_5; pfam00266 62977004176 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977004177 catalytic residue [active] 62977004178 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 62977004179 serine O-acetyltransferase; Region: cysE; TIGR01172 62977004180 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 62977004181 trimer interface [polypeptide binding]; other site 62977004182 active site 62977004183 substrate binding site [chemical binding]; other site 62977004184 CoA binding site [chemical binding]; other site 62977004185 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 62977004186 active site residue [active] 62977004187 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 62977004188 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 62977004189 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 62977004190 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 62977004191 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 62977004192 Walker A/P-loop; other site 62977004193 ATP binding site [chemical binding]; other site 62977004194 Q-loop/lid; other site 62977004195 ABC transporter signature motif; other site 62977004196 Walker B; other site 62977004197 D-loop; other site 62977004198 H-loop/switch region; other site 62977004199 Gram-negative bacterial tonB protein; Region: TonB; cl10048 62977004200 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 62977004201 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 62977004202 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 62977004203 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 62977004204 ligand binding site [chemical binding]; other site 62977004205 flexible hinge region; other site 62977004206 Helix-turn-helix domains; Region: HTH; cl00088 62977004207 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 62977004208 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 62977004209 active site 62977004210 iron coordination sites [ion binding]; other site 62977004211 substrate binding pocket [chemical binding]; other site 62977004212 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 62977004213 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977004214 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977004215 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 62977004216 N-terminal plug; other site 62977004217 ligand-binding site [chemical binding]; other site 62977004218 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 62977004219 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 62977004220 active site 62977004221 non-prolyl cis peptide bond; other site 62977004222 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 62977004223 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 62977004224 active site 62977004225 catalytic tetrad [active] 62977004226 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 62977004227 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 62977004228 N-terminal plug; other site 62977004229 ligand-binding site [chemical binding]; other site 62977004230 Sulfatase; Region: Sulfatase; cl10460 62977004231 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 62977004232 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 62977004233 ligand binding site [chemical binding]; other site 62977004234 flexible hinge region; other site 62977004235 Helix-turn-helix domains; Region: HTH; cl00088 62977004236 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 62977004237 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 62977004238 active site 62977004239 iron coordination sites [ion binding]; other site 62977004240 substrate binding pocket [chemical binding]; other site 62977004241 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977004242 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 62977004243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977004244 Helix-turn-helix domains; Region: HTH; cl00088 62977004245 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 62977004246 dimerization interface [polypeptide binding]; other site 62977004247 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 62977004248 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977004249 tetrameric interface [polypeptide binding]; other site 62977004250 NAD binding site [chemical binding]; other site 62977004251 catalytic residues [active] 62977004252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004253 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 62977004254 acetyl-CoA synthetase; Provisional; Region: PRK04319 62977004255 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977004256 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004257 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004258 active site 62977004259 enoyl-CoA hydratase; Provisional; Region: PRK05862 62977004260 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 62977004261 substrate binding site [chemical binding]; other site 62977004262 oxyanion hole (OAH) forming residues; other site 62977004263 trimer interface [polypeptide binding]; other site 62977004264 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 62977004265 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 62977004266 substrate binding site [chemical binding]; other site 62977004267 oxyanion hole (OAH) forming residues; other site 62977004268 trimer interface [polypeptide binding]; other site 62977004269 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977004270 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004271 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004272 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 62977004273 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977004274 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 62977004275 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 62977004276 dimer interface [polypeptide binding]; other site 62977004277 active site 62977004278 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004279 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004280 active site 62977004281 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 62977004282 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977004283 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 62977004284 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 62977004285 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 62977004286 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 62977004287 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 62977004288 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; cl11426 62977004289 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977004290 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004292 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 62977004293 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 62977004294 Walker A motif; other site 62977004295 ATP binding site [chemical binding]; other site 62977004296 Walker B motif; other site 62977004297 arginine finger; other site 62977004298 Helix-turn-helix domains; Region: HTH; cl00088 62977004299 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 62977004300 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 62977004301 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 62977004302 Di-iron ligands [ion binding]; other site 62977004303 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 62977004304 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 62977004305 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004307 Uncharacterized conserved protein [Function unknown]; Region: COG3496 62977004308 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 62977004309 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 62977004310 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 62977004311 S-adenosylmethionine binding site [chemical binding]; other site 62977004312 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 62977004313 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 62977004314 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 62977004315 S-adenosylmethionine binding site [chemical binding]; other site 62977004316 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 62977004317 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 62977004318 dimer interface [polypeptide binding]; other site 62977004319 phosphorylation site [posttranslational modification] 62977004320 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 62977004321 ATP binding site [chemical binding]; other site 62977004322 Mg2+ binding site [ion binding]; other site 62977004323 G-X-G motif; other site 62977004324 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 62977004325 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 62977004326 active site 62977004327 phosphorylation site [posttranslational modification] 62977004328 intermolecular recognition site; other site 62977004329 dimerization interface [polypeptide binding]; other site 62977004330 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 62977004331 DNA binding site [nucleotide binding] 62977004332 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 62977004333 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 62977004334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977004335 Coenzyme A binding pocket [chemical binding]; other site 62977004336 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 62977004337 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 62977004338 non-specific DNA binding site [nucleotide binding]; other site 62977004339 salt bridge; other site 62977004340 sequence-specific DNA binding site [nucleotide binding]; other site 62977004341 YadA-like C-terminal region; Region: YadA; pfam03895 62977004342 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 62977004343 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977004344 ligand binding site [chemical binding]; other site 62977004345 Bacitracin resistance protein BacA; Region: BacA; cl00858 62977004346 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; cl12011 62977004347 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 62977004348 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 62977004349 Proline dehydrogenase; Region: Pro_dh; cl03282 62977004350 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 62977004351 Glutamate binding site [chemical binding]; other site 62977004352 NAD binding site [chemical binding]; other site 62977004353 catalytic residues [active] 62977004354 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 62977004355 Helix-turn-helix domains; Region: HTH; cl00088 62977004356 Sodium:solute symporter family; Region: SSF; cl00456 62977004357 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 62977004358 NAD+ binding site [chemical binding]; other site 62977004359 substrate binding site [chemical binding]; other site 62977004360 Zn binding site [ion binding]; other site 62977004361 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 62977004362 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 62977004363 putative substrate translocation pore; other site 62977004364 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977004365 Helix-turn-helix domains; Region: HTH; cl00088 62977004366 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 62977004367 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 62977004368 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 62977004369 active site 62977004370 FMN binding site [chemical binding]; other site 62977004371 2,4-decadienoyl-CoA binding site; other site 62977004372 catalytic residue [active] 62977004373 4Fe-4S cluster binding site [ion binding]; other site 62977004374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004375 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 62977004376 LysR family transcriptional regulator; Provisional; Region: PRK14997 62977004377 Helix-turn-helix domains; Region: HTH; cl00088 62977004378 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 62977004379 putative effector binding pocket; other site 62977004380 putative dimerization interface [polypeptide binding]; other site 62977004381 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 62977004382 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 62977004383 Helix-turn-helix domains; Region: HTH; cl00088 62977004384 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 62977004385 dimerization interface [polypeptide binding]; other site 62977004386 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 62977004387 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004388 FAD binding site [chemical binding]; other site 62977004389 substrate binding pocket [chemical binding]; other site 62977004390 catalytic base [active] 62977004391 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977004392 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 62977004393 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 62977004394 dimer interface [polypeptide binding]; other site 62977004395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977004396 catalytic residue [active] 62977004397 murein transglycosylase C; Provisional; Region: mltC; PRK11671 62977004398 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977004399 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977004400 catalytic residue [active] 62977004401 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 62977004402 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 62977004403 putative acyl-acceptor binding pocket; other site 62977004404 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 62977004405 active site 62977004406 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 62977004407 active site 62977004408 catalytic residues [active] 62977004409 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 62977004410 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977004411 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; cl12011 62977004412 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 62977004413 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 62977004414 putative deacylase active site [active] 62977004415 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; cl11399 62977004416 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; cl11399 62977004417 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 62977004418 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 62977004419 motif II; other site 62977004420 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 62977004421 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 62977004422 LrgB-like family; Region: LrgB; cl00596 62977004423 LrgA family; Region: LrgA; cl00608 62977004424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977004425 Helix-turn-helix domains; Region: HTH; cl00088 62977004426 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 62977004427 putative dimerization interface [polypeptide binding]; other site 62977004428 YeeE/YedE family (DUF395); Region: DUF395; cl01018 62977004429 YeeE/YedE family (DUF395); Region: DUF395; cl01018 62977004430 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 62977004431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977004432 Domain of unknown function DUF; Region: DUF202; cl09954 62977004433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004434 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 62977004435 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 62977004436 benzoate transport; Region: 2A0115; TIGR00895 62977004437 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 62977004438 putative substrate translocation pore; other site 62977004439 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 62977004440 CoA-transferase family III; Region: CoA_transf_3; pfam02515 62977004441 Helix-turn-helix domains; Region: HTH; cl00088 62977004442 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977004443 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977004444 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 62977004445 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 62977004446 putative substrate translocation pore; other site 62977004447 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 62977004448 CoA-transferase family III; Region: CoA_transf_3; pfam02515 62977004449 Helix-turn-helix domains; Region: HTH; cl00088 62977004450 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977004451 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977004452 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 62977004453 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 62977004454 dimer interface [polypeptide binding]; other site 62977004455 active site 62977004456 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 62977004457 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; cl12011 62977004458 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 62977004459 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 62977004460 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 62977004461 classical (c) SDRs; Region: SDR_c; cd05233 62977004462 NAD(P) binding site [chemical binding]; other site 62977004463 active site 62977004464 enoyl-CoA hydratase; Provisional; Region: PRK08138 62977004465 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 62977004466 substrate binding site [chemical binding]; other site 62977004467 oxyanion hole (OAH) forming residues; other site 62977004468 trimer interface [polypeptide binding]; other site 62977004469 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004470 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004471 active site 62977004472 benzoate transport; Region: 2A0115; TIGR00895 62977004473 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 62977004474 putative substrate translocation pore; other site 62977004475 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977004476 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977004477 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 62977004478 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 62977004479 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 62977004480 putative substrate translocation pore; other site 62977004481 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 62977004482 CoenzymeA binding site [chemical binding]; other site 62977004483 subunit interaction site [polypeptide binding]; other site 62977004484 PHB binding site; other site 62977004485 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 62977004486 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 62977004487 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004488 active site 62977004489 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 62977004490 enoyl-CoA hydratase; Provisional; Region: PRK08140 62977004491 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 62977004492 Helix-turn-helix domains; Region: HTH; cl00088 62977004493 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977004494 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977004495 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977004496 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 62977004497 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 62977004498 dimer interface [polypeptide binding]; other site 62977004499 active site 62977004500 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 62977004501 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 62977004502 tetramer interface [polypeptide binding]; other site 62977004503 active site 62977004504 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977004505 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 62977004506 benzoate transport; Region: 2A0115; TIGR00895 62977004507 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 62977004508 putative substrate translocation pore; other site 62977004509 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 62977004510 putative substrate translocation pore; other site 62977004511 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 62977004512 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta 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_beta; cd03464 62977004513 multimer interface [polypeptide binding]; other site 62977004514 heterodimer interface [polypeptide binding]; other site 62977004515 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 62977004516 active site 62977004517 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 62977004518 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 62977004519 heterodimer interface [polypeptide binding]; other site 62977004520 active site 62977004521 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 62977004522 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 62977004523 active site 62977004524 catalytic residue [active] 62977004525 dimer interface [polypeptide binding]; other site 62977004526 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 62977004527 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 62977004528 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 62977004529 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 62977004530 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 62977004531 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 62977004532 Trp docking motif [polypeptide binding]; other site 62977004533 putative active site [active] 62977004534 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 62977004535 Sel1 repeat; Region: Sel1; cl02723 62977004536 Sel1 repeat; Region: Sel1; cl02723 62977004537 Sel1 repeat; Region: Sel1; cl02723 62977004538 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 62977004539 Helix-turn-helix domains; Region: HTH; cl00088 62977004540 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977004541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004542 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 62977004543 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004544 Tannase and feruloyl esterase; Region: Tannase; pfam07519 62977004545 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 62977004546 CoenzymeA binding site [chemical binding]; other site 62977004547 subunit interaction site [polypeptide binding]; other site 62977004548 PHB binding site; other site 62977004549 outer membrane porin, OprD family; Region: OprD; cl15714 62977004550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004552 active site 62977004553 feruloyl-CoA synthase; Reviewed; Region: PRK08180 62977004554 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977004555 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977004556 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 62977004557 NAD(P) binding site [chemical binding]; other site 62977004558 catalytic residues [active] 62977004559 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 62977004560 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 62977004561 substrate binding site [chemical binding]; other site 62977004562 oxyanion hole (OAH) forming residues; other site 62977004563 trimer interface [polypeptide binding]; other site 62977004564 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 62977004565 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 62977004566 putative substrate translocation pore; other site 62977004567 Helix-turn-helix domains; Region: HTH; cl00088 62977004568 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977004569 Helix-turn-helix domains; Region: HTH; cl00088 62977004570 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977004571 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977004572 classical (c) SDRs; Region: SDR_c; cd05233 62977004573 short chain dehydrogenase; Provisional; Region: PRK05650 62977004574 NAD(P) binding site [chemical binding]; other site 62977004575 active site 62977004576 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 62977004577 Leucine carboxyl methyltransferase; Region: LCM; cl01306 62977004578 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 62977004579 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 62977004580 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977004581 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 62977004582 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 62977004583 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 62977004584 carboxyltransferase (CT) interaction site; other site 62977004585 biotinylation site [posttranslational modification]; other site 62977004586 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 62977004587 trimer interface [polypeptide binding]; other site 62977004588 active site 62977004589 dimer interface [polypeptide binding]; other site 62977004590 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 62977004591 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 62977004592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977004593 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 62977004594 Peptidase M15; Region: Peptidase_M15_3; cl01194 62977004595 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 62977004596 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 62977004597 NAD(P) binding site [chemical binding]; other site 62977004598 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 62977004599 Aspartase; Region: Aspartase; cd01357 62977004600 active sites [active] 62977004601 tetramer interface [polypeptide binding]; other site 62977004602 cell density-dependent motility repressor; Provisional; Region: PRK10082 62977004603 Helix-turn-helix domains; Region: HTH; cl00088 62977004604 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 62977004605 Transcriptional regulators [Transcription]; Region: MarR; COG1846 62977004606 Helix-turn-helix domains; Region: HTH; cl00088 62977004607 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 62977004608 salt bridge; other site 62977004609 non-specific DNA binding site [nucleotide binding]; other site 62977004610 sequence-specific DNA binding site [nucleotide binding]; other site 62977004611 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 62977004612 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 62977004613 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 62977004614 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 62977004615 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 62977004616 Malonate decarboxylase delta subunit (MdcD); Region: ACP; cl06082 62977004617 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; cl14780 62977004618 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; cl14780 62977004619 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; cl07913 62977004620 Acyl transferase domain; Region: Acyl_transf_1; cl08282 62977004621 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 62977004622 Malonate transporter MadL subunit; Region: MadL; cl04273 62977004623 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 62977004624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977004625 Helix-turn-helix domains; Region: HTH; cl00088 62977004626 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 62977004627 putative dimerization interface [polypeptide binding]; other site 62977004628 serine O-acetyltransferase; Region: cysE; TIGR01172 62977004629 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 62977004630 trimer interface [polypeptide binding]; other site 62977004631 active site 62977004632 substrate binding site [chemical binding]; other site 62977004633 CoA binding site [chemical binding]; other site 62977004634 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977004635 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 62977004636 N-terminal plug; other site 62977004637 ligand-binding site [chemical binding]; other site 62977004638 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 62977004639 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 62977004640 putative ligand binding site [chemical binding]; other site 62977004641 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 62977004642 TM-ABC transporter signature motif; other site 62977004643 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 62977004644 TM-ABC transporter signature motif; other site 62977004645 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 62977004646 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 62977004647 Walker A/P-loop; other site 62977004648 ATP binding site [chemical binding]; other site 62977004649 Q-loop/lid; other site 62977004650 ABC transporter signature motif; other site 62977004651 Walker B; other site 62977004652 D-loop; other site 62977004653 H-loop/switch region; other site 62977004654 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 62977004655 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 62977004656 Walker A/P-loop; other site 62977004657 ATP binding site [chemical binding]; other site 62977004658 Q-loop/lid; other site 62977004659 ABC transporter signature motif; other site 62977004660 Walker B; other site 62977004661 D-loop; other site 62977004662 H-loop/switch region; other site 62977004663 META domain; Region: META; cl01245 62977004664 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 62977004665 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 62977004666 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 62977004667 active site 62977004668 homotetramer interface [polypeptide binding]; other site 62977004669 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977004670 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 62977004671 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 62977004672 RNA polymerase sigma factor; Provisional; Region: PRK12528 62977004673 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977004674 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 62977004675 DNA binding residues [nucleotide binding] 62977004676 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 62977004677 FecR protein; Region: FecR; pfam04773 62977004678 Secretin and TonB N terminus short domain; Region: STN; cl06624 62977004679 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977004680 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 62977004681 N-terminal plug; other site 62977004682 ligand-binding site [chemical binding]; other site 62977004683 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 62977004684 polyphosphate kinase; Provisional; Region: PRK05443 62977004685 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 62977004686 putative domain interface [polypeptide binding]; other site 62977004687 putative active site [active] 62977004688 catalytic site [active] 62977004689 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 62977004690 putative domain interface [polypeptide binding]; other site 62977004691 putative active site [active] 62977004692 catalytic site [active] 62977004693 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 62977004694 FAD binding site [chemical binding]; other site 62977004695 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 62977004696 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 62977004697 DNA-binding site [nucleotide binding]; DNA binding site 62977004698 RNA-binding motif; other site 62977004699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 62977004700 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 62977004701 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 62977004702 putative transposase OrfB; Reviewed; Region: PHA02517 62977004703 Integrase core domain; Region: rve; cl01316 62977004704 Helix-turn-helix domains; Region: HTH; cl00088 62977004705 OpgC protein; Region: OpgC_C; cl00792 62977004706 Acyltransferase family; Region: Acyl_transf_3; pfam01757 62977004707 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 62977004708 HipA-like N-terminal domain; Region: HipA_N; pfam07805 62977004709 HipA-like C-terminal domain; Region: HipA_C; pfam07804 62977004710 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 62977004711 non-specific DNA binding site [nucleotide binding]; other site 62977004712 salt bridge; other site 62977004713 sequence-specific DNA binding site [nucleotide binding]; other site 62977004714 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 62977004715 Major Facilitator Superfamily; Region: MFS_1; pfam07690 62977004716 putative substrate translocation pore; other site 62977004717 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 62977004718 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 62977004719 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 62977004720 putative active site [active] 62977004721 putative metal binding site [ion binding]; other site 62977004722 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 62977004723 iron-sulfur cluster [ion binding]; other site 62977004724 [2Fe-2S] cluster binding site [ion binding]; other site 62977004725 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 62977004726 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977004727 hypothetical protein; Provisional; Region: PRK06847 62977004728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004730 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 62977004731 Helix-turn-helix domains; Region: HTH; cl00088 62977004732 Putative cyclase; Region: Cyclase; cl00814 62977004733 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977004734 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977004735 benzoate transport; Region: 2A0115; TIGR00895 62977004736 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 62977004737 putative substrate translocation pore; other site 62977004738 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 62977004739 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 62977004740 Helix-turn-helix domain; Region: HTH_18; pfam12833 62977004741 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 62977004742 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977004743 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004744 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 62977004745 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004746 active site 62977004747 enoyl-CoA hydratase; Provisional; Region: PRK06495 62977004748 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 62977004749 substrate binding site [chemical binding]; other site 62977004750 oxyanion hole (OAH) forming residues; other site 62977004751 trimer interface [polypeptide binding]; other site 62977004752 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004753 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 62977004754 active site 62977004755 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977004756 Helix-turn-helix domains; Region: HTH; cl00088 62977004757 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 62977004758 classical (c) SDRs; Region: SDR_c; cd05233 62977004759 NAD(P) binding site [chemical binding]; other site 62977004760 active site 62977004761 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 62977004762 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 62977004763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004764 Flavin Reductases; Region: FlaRed; cl00801 62977004765 short chain dehydrogenase; Validated; Region: PRK06484 62977004766 classical (c) SDRs; Region: SDR_c; cd05233 62977004767 NAD(P) binding site [chemical binding]; other site 62977004768 active site 62977004769 classical (c) SDRs; Region: SDR_c; cd05233 62977004770 NAD(P) binding site [chemical binding]; other site 62977004771 active site 62977004772 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 62977004773 enoyl-CoA hydratase; Provisional; Region: PRK08140 62977004774 substrate binding site [chemical binding]; other site 62977004775 oxyanion hole (OAH) forming residues; other site 62977004776 trimer interface [polypeptide binding]; other site 62977004777 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 62977004778 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 62977004779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977004780 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 62977004781 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 62977004782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004783 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004784 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004785 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 62977004786 Old yellow enzyme (OYE)-related FMN binding domain, group 4. 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_4_FMN; cd04735 62977004787 putative active site [active] 62977004788 putative FMN binding site [chemical binding]; other site 62977004789 putative substrate binding site [chemical binding]; other site 62977004790 putative catalytic residue [active] 62977004791 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 62977004792 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 62977004793 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004794 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004795 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 62977004796 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004797 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004798 Replication initiation factor; Region: Rep_trans; pfam02486 62977004799 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977004800 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 62977004801 Replication initiation factor; Region: Rep_trans; pfam02486 62977004802 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977004803 Helix-turn-helix domains; Region: HTH; cl00088 62977004804 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 62977004805 dimerization interface [polypeptide binding]; other site 62977004806 putative DNA binding site [nucleotide binding]; other site 62977004807 putative Zn2+ binding site [ion binding]; other site 62977004808 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977004809 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 62977004810 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 62977004811 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 62977004812 Mechanosensitive ion channel; Region: MS_channel; pfam00924 62977004813 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 62977004814 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 62977004815 putative substrate translocation pore; other site 62977004816 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 62977004817 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977004818 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 62977004819 Walker A/P-loop; other site 62977004820 ATP binding site [chemical binding]; other site 62977004821 Q-loop/lid; other site 62977004822 ABC transporter signature motif; other site 62977004823 Walker B; other site 62977004824 D-loop; other site 62977004825 H-loop/switch region; other site 62977004826 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 62977004827 putative active site [active] 62977004828 putative catalytic site [active] 62977004829 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977004830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977004831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977004832 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 62977004833 lipoyl attachment site [posttranslational modification]; other site 62977004834 NeuB family; Region: NeuB; cl00496 62977004835 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 62977004836 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 62977004837 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 62977004838 substrate binding site [chemical binding]; other site 62977004839 catalytic Zn binding site [ion binding]; other site 62977004840 NAD binding site [chemical binding]; other site 62977004841 structural Zn binding site [ion binding]; other site 62977004842 dimer interface [polypeptide binding]; other site 62977004843 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 62977004844 putative homotetramer interface [polypeptide binding]; other site 62977004845 putative homodimer interface [polypeptide binding]; other site 62977004846 putative metal binding site [ion binding]; other site 62977004847 putative homodimer-homodimer interface [polypeptide binding]; other site 62977004848 putative allosteric switch controlling residues; other site 62977004849 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 62977004850 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 62977004851 putative active site [active] 62977004852 catalytic site [active] 62977004853 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 62977004854 putative active site [active] 62977004855 catalytic site [active] 62977004856 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 62977004857 putative active site [active] 62977004858 short chain dehydrogenase; Provisional; Region: PRK08251 62977004859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004860 NAD(P) binding site [chemical binding]; other site 62977004861 active site 62977004862 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 62977004863 catalytic core [active] 62977004864 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 62977004865 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 62977004866 putative active site [active] 62977004867 putative substrate binding site [chemical binding]; other site 62977004868 ATP binding site [chemical binding]; other site 62977004869 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977004870 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977004871 active site 62977004872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977004873 Helix-turn-helix domains; Region: HTH; cl00088 62977004874 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 62977004875 substrate binding pocket [chemical binding]; other site 62977004876 dimerization interface [polypeptide binding]; other site 62977004877 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 62977004878 dimer interface [polypeptide binding]; other site 62977004879 FMN binding site [chemical binding]; other site 62977004880 fumarate hydratase; Reviewed; Region: fumC; PRK00485 62977004881 Class II fumarases; Region: Fumarase_classII; cd01362 62977004882 active site 62977004883 tetramer interface [polypeptide binding]; other site 62977004884 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 62977004885 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004886 NAD(P) binding site [chemical binding]; other site 62977004887 active site 62977004888 DsrE/DsrF-like family; Region: DrsE; cl00672 62977004889 DsrC like protein; Region: DsrC; cl01101 62977004890 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 62977004891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977004892 DNA-binding site [nucleotide binding]; DNA binding site 62977004893 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 62977004894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977004895 homodimer interface [polypeptide binding]; other site 62977004896 catalytic residue [active] 62977004897 ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a...; Region: ABC_ModC_molybdenum_transporter; cd03297 62977004898 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 62977004899 Walker A/P-loop; other site 62977004900 ATP binding site [chemical binding]; other site 62977004901 Q-loop/lid; other site 62977004902 ABC transporter signature motif; other site 62977004903 Walker B; other site 62977004904 D-loop; other site 62977004905 H-loop/switch region; other site 62977004906 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 62977004907 dimer interface [polypeptide binding]; other site 62977004908 conserved gate region; other site 62977004909 putative PBP binding loops; other site 62977004910 ABC-ATPase subunit interface; other site 62977004911 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 62977004912 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 62977004913 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 62977004914 dimer interface [polypeptide binding]; other site 62977004915 putative functional site; other site 62977004916 putative MPT binding site; other site 62977004917 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 62977004918 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 62977004919 trimer interface [polypeptide binding]; other site 62977004920 dimer interface [polypeptide binding]; other site 62977004921 putative active site [active] 62977004922 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 62977004923 MPT binding site; other site 62977004924 trimer interface [polypeptide binding]; other site 62977004925 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 62977004926 MoaE homodimer interface [polypeptide binding]; other site 62977004927 MoaD interaction [polypeptide binding]; other site 62977004928 active site residues [active] 62977004929 Ubiquitin-like proteins; Region: UBQ; cl00155 62977004930 charged pocket; other site 62977004931 hydrophobic patch; other site 62977004932 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 62977004933 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 62977004934 FeS/SAM binding site; other site 62977004935 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 62977004936 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 62977004937 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 62977004938 GTP binding site; other site 62977004939 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 62977004940 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 62977004941 [4Fe-4S] binding site [ion binding]; other site 62977004942 molybdopterin cofactor binding site; other site 62977004943 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 62977004944 molybdopterin cofactor binding site; other site 62977004945 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 62977004946 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 62977004947 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 62977004948 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 62977004949 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004950 nitrite reductase subunit NirD; Provisional; Region: PRK14989 62977004951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977004952 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 62977004953 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 62977004954 nitrate transmembrane transporter; Provisional; Region: PLN00028 62977004955 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 62977004956 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 62977004957 active site 62977004958 phosphorylation site [posttranslational modification] 62977004959 intermolecular recognition site; other site 62977004960 dimerization interface [polypeptide binding]; other site 62977004961 ANTAR domain; Region: ANTAR; cl04297 62977004962 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 62977004963 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977004964 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 62977004965 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 62977004966 putative molybdopterin cofactor binding site [chemical binding]; other site 62977004967 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 62977004968 putative molybdopterin cofactor binding site; other site 62977004969 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 62977004970 NC domain; Region: NC; pfam04970 62977004971 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 62977004972 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977004973 active site 62977004974 HIGH motif; other site 62977004975 nucleotide binding site [chemical binding]; other site 62977004976 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 62977004977 KMSKS motif; other site 62977004978 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 62977004979 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 62977004980 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 62977004981 substrate binding site [chemical binding]; other site 62977004982 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 62977004983 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 62977004984 putative active site [active] 62977004985 putative metal binding site [ion binding]; other site 62977004986 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 62977004987 dimer interface [polypeptide binding]; other site 62977004988 FMN binding site [chemical binding]; other site 62977004989 hypothetical protein; Provisional; Region: PRK08185 62977004990 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 62977004991 intersubunit interface [polypeptide binding]; other site 62977004992 active site 62977004993 zinc binding site [ion binding]; other site 62977004994 Na+ binding site [ion binding]; other site 62977004995 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 62977004996 Phosphoglycerate kinase; Region: PGK; pfam00162 62977004997 substrate binding site [chemical binding]; other site 62977004998 hinge regions; other site 62977004999 ADP binding site [chemical binding]; other site 62977005000 catalytic site [active] 62977005001 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 62977005002 Maf-like protein; Region: Maf; pfam02545 62977005003 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 62977005004 active site 62977005005 dimer interface [polypeptide binding]; other site 62977005006 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 62977005007 Citrate transporter; Region: CitMHS; pfam03600 62977005008 Cupin superfamily protein; Region: Cupin_4; pfam08007 62977005009 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 62977005010 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 62977005011 active site 62977005012 FMN binding site [chemical binding]; other site 62977005013 substrate binding site [chemical binding]; other site 62977005014 3Fe-4S cluster binding site [ion binding]; other site 62977005015 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 62977005016 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 62977005017 Walker A motif; other site 62977005018 ATP binding site [chemical binding]; other site 62977005019 Walker B motif; other site 62977005020 arginine finger; other site 62977005021 Helix-turn-helix domains; Region: HTH; cl00088 62977005022 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977005023 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 62977005024 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 62977005025 Walker A/P-loop; other site 62977005026 ATP binding site [chemical binding]; other site 62977005027 Q-loop/lid; other site 62977005028 ABC transporter signature motif; other site 62977005029 Walker B; other site 62977005030 D-loop; other site 62977005031 H-loop/switch region; other site 62977005032 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 62977005033 putative ligand binding site [chemical binding]; other site 62977005034 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 62977005035 TM-ABC transporter signature motif; other site 62977005036 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 62977005037 TM-ABC transporter signature motif; other site 62977005038 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 62977005039 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 62977005040 Walker A/P-loop; other site 62977005041 ATP binding site [chemical binding]; other site 62977005042 Q-loop/lid; other site 62977005043 ABC transporter signature motif; other site 62977005044 Walker B; other site 62977005045 D-loop; other site 62977005046 H-loop/switch region; other site 62977005047 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 62977005048 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 62977005049 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 62977005050 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005051 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 62977005052 putative active site [active] 62977005053 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 62977005054 FAD binding domain; Region: FAD_binding_4; pfam01565 62977005055 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 62977005056 Low molecular weight phosphatase family; Region: LMWPc; cd00115 62977005057 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 62977005058 active site 62977005059 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 62977005060 DNA-binding site [nucleotide binding]; DNA binding site 62977005061 RNA-binding motif; other site 62977005062 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 62977005063 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 62977005064 putative active site [active] 62977005065 metal binding site [ion binding]; metal-binding site 62977005066 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 62977005067 active site 62977005068 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 62977005069 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005070 putative metal binding site [ion binding]; other site 62977005071 Protein of unknown function DUF124; Region: DUF124; cl00884 62977005072 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 62977005073 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005074 putative metal binding site [ion binding]; other site 62977005075 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 62977005076 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 62977005077 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005078 putative metal binding site [ion binding]; other site 62977005079 Integral membrane protein TerC family; Region: TerC; cl10468 62977005080 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 62977005081 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005082 putative metal binding site [ion binding]; other site 62977005083 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005084 putative metal binding site [ion binding]; other site 62977005085 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 62977005086 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005087 putative metal binding site [ion binding]; other site 62977005088 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 62977005089 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 62977005090 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 62977005091 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977005092 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 62977005093 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 62977005094 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977005095 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 62977005096 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 62977005097 substrate binding site [chemical binding]; other site 62977005098 activation loop (A-loop); other site 62977005099 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 62977005100 metal ion-dependent adhesion site (MIDAS); other site 62977005101 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 62977005102 metal ion-dependent adhesion site (MIDAS); other site 62977005103 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 62977005104 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 62977005105 putative metal binding site [ion binding]; other site 62977005106 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 62977005107 metal ion-dependent adhesion site (MIDAS); other site 62977005108 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 62977005109 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 62977005110 Walker A motif; other site 62977005111 ATP binding site [chemical binding]; other site 62977005112 Walker B motif; other site 62977005113 arginine finger; other site 62977005114 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 62977005115 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 62977005116 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 62977005117 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 62977005118 TetR family transcriptional regulator; Provisional; Region: PRK14996 62977005119 Helix-turn-helix domains; Region: HTH; cl00088 62977005120 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 62977005121 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977005122 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 62977005123 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 62977005124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005125 NAD(P) binding site [chemical binding]; other site 62977005126 active site 62977005127 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 62977005128 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 62977005129 dimer interface [polypeptide binding]; other site 62977005130 active site 62977005131 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 62977005132 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 62977005133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977005134 Helix-turn-helix domains; Region: HTH; cl00088 62977005135 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 62977005136 dimerization interface [polypeptide binding]; other site 62977005137 transaldolase-like protein; Provisional; Region: PTZ00411 62977005138 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 62977005139 active site 62977005140 dimer interface [polypeptide binding]; other site 62977005141 catalytic residue [active] 62977005142 LysE type translocator; Region: LysE; cl00565 62977005143 Permease family; Region: Xan_ur_permease; cl00967 62977005144 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 62977005145 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 62977005146 MgtC family; Region: MgtC; cl12207 62977005147 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 62977005148 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 62977005149 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 62977005150 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977005151 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 62977005152 RDD family; Region: RDD; cl00746 62977005153 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 62977005154 active site 62977005155 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 62977005156 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 62977005157 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 62977005158 active site 62977005159 phosphorylation site [posttranslational modification] 62977005160 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 62977005161 dimerization domain swap beta strand [polypeptide binding]; other site 62977005162 regulatory protein interface [polypeptide binding]; other site 62977005163 active site 62977005164 regulatory phosphorylation site [posttranslational modification]; other site 62977005165 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 62977005166 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 62977005167 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 62977005168 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 62977005169 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 62977005170 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 62977005171 putative substrate binding site [chemical binding]; other site 62977005172 putative ATP binding site [chemical binding]; other site 62977005173 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 62977005174 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 62977005175 P-loop; other site 62977005176 active site 62977005177 phosphorylation site [posttranslational modification] 62977005178 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 62977005179 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 62977005180 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 62977005181 homotrimer interaction site [polypeptide binding]; other site 62977005182 zinc binding site [ion binding]; other site 62977005183 CDP-binding sites; other site 62977005184 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005185 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 62977005186 substrate binding site; other site 62977005187 dimer interface; other site 62977005188 Septum formation initiator; Region: DivIC; cl11433 62977005189 enolase; Provisional; Region: eno; PRK00077 62977005190 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 62977005191 dimer interface [polypeptide binding]; other site 62977005192 metal binding site [ion binding]; metal-binding site 62977005193 substrate binding pocket [chemical binding]; other site 62977005194 NeuB family; Region: NeuB; cl00496 62977005195 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 62977005196 CTP synthetase; Validated; Region: pyrG; PRK05380 62977005197 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 62977005198 Catalytic site [active] 62977005199 active site 62977005200 UTP binding site [chemical binding]; other site 62977005201 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 62977005202 active site 62977005203 putative oxyanion hole; other site 62977005204 catalytic triad [active] 62977005205 TolB amino-terminal domain; Region: TolB_N; cl00639 62977005206 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 62977005207 Ligand Binding Site [chemical binding]; other site 62977005208 Domain of unknown function (DUF333); Region: DUF333; pfam03891 62977005209 Potato inhibitor I family; Region: potato_inhibit; cl15459 62977005210 aminopeptidase N; Provisional; Region: pepN; PRK14015 62977005211 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 62977005212 active site 62977005213 Zn binding site [ion binding]; other site 62977005214 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 62977005215 substrate binding site [chemical binding]; other site 62977005216 multimerization interface [polypeptide binding]; other site 62977005217 ATP binding site [chemical binding]; other site 62977005218 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 62977005219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977005220 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 62977005221 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 62977005222 putative substrate binding pocket [chemical binding]; other site 62977005223 trimer interface [polypeptide binding]; other site 62977005224 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 62977005225 PIF1-like helicase; Region: PIF1; pfam05970 62977005226 Walker A motif; other site 62977005227 ATP binding site [chemical binding]; other site 62977005228 Walker B motif; other site 62977005229 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 62977005230 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 62977005231 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 62977005232 dimer interface [polypeptide binding]; other site 62977005233 active site 62977005234 metal binding site [ion binding]; metal-binding site 62977005235 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005236 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 62977005237 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 62977005238 Helix-turn-helix domains; Region: HTH; cl00088 62977005239 Bacterial transcriptional activator domain; Region: BTAD; smart01043 62977005240 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 62977005241 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977005242 NAD(P) binding site [chemical binding]; other site 62977005243 catalytic residues [active] 62977005244 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 62977005245 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 62977005246 catalytic triad [active] 62977005247 Cupin domain; Region: Cupin_2; cl09118 62977005248 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977005249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977005250 AzlC protein; Region: AzlC; cl00570 62977005251 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 62977005252 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 62977005253 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 62977005254 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 62977005255 Tetramer interface [polypeptide binding]; other site 62977005256 active site 62977005257 FMN-binding site [chemical binding]; other site 62977005258 HemK family putative methylases; Region: hemK_fam; TIGR00536 62977005259 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 62977005260 S-adenosylmethionine binding site [chemical binding]; other site 62977005261 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 62977005262 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977005263 DNA-binding site [nucleotide binding]; DNA binding site 62977005264 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 62977005265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977005266 homodimer interface [polypeptide binding]; other site 62977005267 catalytic residue [active] 62977005268 YceI-like domain; Region: YceI; cl01001 62977005269 transketolase; Reviewed; Region: PRK12753 62977005270 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 62977005271 TPP-binding site [chemical binding]; other site 62977005272 dimer interface [polypeptide binding]; other site 62977005273 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 62977005274 PYR/PP interface [polypeptide binding]; other site 62977005275 dimer interface [polypeptide binding]; other site 62977005276 TPP binding site [chemical binding]; other site 62977005277 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 62977005278 S-adenosylmethionine synthetase; Validated; Region: PRK05250 62977005279 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 62977005280 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 62977005281 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 62977005282 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 62977005283 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 62977005284 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 62977005285 active site 62977005286 putative DNA-binding cleft [nucleotide binding]; other site 62977005287 dimer interface [polypeptide binding]; other site 62977005288 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 62977005289 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 62977005290 putative substrate binding site [chemical binding]; other site 62977005291 putative ATP binding site [chemical binding]; other site 62977005292 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 62977005293 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 62977005294 biotin synthase; Provisional; Region: PRK15108 62977005295 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 62977005296 FeS/SAM binding site; other site 62977005297 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 62977005298 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 62977005299 dinuclear metal binding motif [ion binding]; other site 62977005300 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 62977005301 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 62977005302 N-terminal plug; other site 62977005303 ligand-binding site [chemical binding]; other site 62977005304 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977005305 putative acyl-acceptor binding pocket; other site 62977005306 Domain of unknown function DUF28; Region: DUF28; cl00361 62977005307 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 62977005308 Helix-turn-helix domains; Region: HTH; cl00088 62977005309 Porin subfamily; Region: Porin_2; pfam02530 62977005310 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 62977005311 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 62977005312 Walker A/P-loop; other site 62977005313 ATP binding site [chemical binding]; other site 62977005314 Q-loop/lid; other site 62977005315 ABC transporter signature motif; other site 62977005316 Walker B; other site 62977005317 D-loop; other site 62977005318 H-loop/switch region; other site 62977005319 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 62977005320 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 62977005321 dimer interface [polypeptide binding]; other site 62977005322 conserved gate region; other site 62977005323 putative PBP binding loops; other site 62977005324 ABC-ATPase subunit interface; other site 62977005325 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 62977005326 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 62977005327 dimer interface [polypeptide binding]; other site 62977005328 conserved gate region; other site 62977005329 putative PBP binding loops; other site 62977005330 ABC-ATPase subunit interface; other site 62977005331 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 62977005332 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 62977005333 substrate binding pocket [chemical binding]; other site 62977005334 membrane-bound complex binding site; other site 62977005335 hinge residues; other site 62977005336 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 62977005337 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977005338 C-terminal domain interface [polypeptide binding]; other site 62977005339 GSH binding site (G-site) [chemical binding]; other site 62977005340 dimer interface [polypeptide binding]; other site 62977005341 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977005342 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977005343 active site 62977005344 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977005345 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 62977005346 Flavin binding site [chemical binding]; other site 62977005347 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 62977005348 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 62977005349 active site 62977005350 non-prolyl cis peptide bond; other site 62977005351 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977005352 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 62977005353 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 62977005354 Walker A/P-loop; other site 62977005355 ATP binding site [chemical binding]; other site 62977005356 Q-loop/lid; other site 62977005357 ABC transporter signature motif; other site 62977005358 Walker B; other site 62977005359 D-loop; other site 62977005360 H-loop/switch region; other site 62977005361 NIL domain; Region: NIL; cl09633 62977005362 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 62977005363 dimer interface [polypeptide binding]; other site 62977005364 conserved gate region; other site 62977005365 ABC-ATPase subunit interface; other site 62977005366 GTP-binding protein YchF; Reviewed; Region: PRK09601 62977005367 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 62977005368 G1 box; other site 62977005369 GTP/Mg2+ binding site [chemical binding]; other site 62977005370 Switch I region; other site 62977005371 G2 box; other site 62977005372 Switch II region; other site 62977005373 G3 box; other site 62977005374 G4 box; other site 62977005375 G5 box; other site 62977005376 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 62977005377 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 62977005378 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 62977005379 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 62977005380 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 62977005381 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 62977005382 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005383 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977005384 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 62977005385 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 62977005386 metal binding triad; other site 62977005387 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 62977005388 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977005389 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 62977005390 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 62977005391 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 62977005392 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 62977005393 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977005394 homodimer interface [polypeptide binding]; other site 62977005395 catalytic residue [active] 62977005396 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 62977005397 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977005398 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 62977005399 N-terminal plug; other site 62977005400 ligand-binding site [chemical binding]; other site 62977005401 LysE type translocator; Region: LysE; cl00565 62977005402 Cupin domain; Region: Cupin_2; cl09118 62977005403 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977005404 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977005405 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 62977005406 catalytic residues [active] 62977005407 dimer interface [polypeptide binding]; other site 62977005408 SelR domain; Region: SelR; cl00369 62977005409 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 62977005410 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 62977005411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977005412 homodimer interface [polypeptide binding]; other site 62977005413 catalytic residue [active] 62977005414 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 62977005415 active site 62977005416 homodimer interface [polypeptide binding]; other site 62977005417 homotetramer interface [polypeptide binding]; other site 62977005418 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 62977005419 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 62977005420 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 62977005421 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 62977005422 generic binding surface II; other site 62977005423 generic binding surface I; other site 62977005424 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 62977005425 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 62977005426 serine O-acetyltransferase; Region: cysE; TIGR01172 62977005427 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 62977005428 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 62977005429 trimer interface [polypeptide binding]; other site 62977005430 active site 62977005431 substrate binding site [chemical binding]; other site 62977005432 CoA binding site [chemical binding]; other site 62977005433 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 62977005434 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005435 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 62977005436 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 62977005437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977005438 metal binding site [ion binding]; metal-binding site 62977005439 active site 62977005440 I-site; other site 62977005441 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 62977005442 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 62977005443 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 62977005444 acyl-CoA esterase; Provisional; Region: PRK10673 62977005445 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005446 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 62977005447 Major Facilitator Superfamily; Region: MFS_1; pfam07690 62977005448 putative substrate translocation pore; other site 62977005449 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 62977005450 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 62977005451 dimer interface [polypeptide binding]; other site 62977005452 active site 62977005453 CoA binding pocket [chemical binding]; other site 62977005454 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 62977005455 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 62977005456 ATP binding site [chemical binding]; other site 62977005457 putative Mg++ binding site [ion binding]; other site 62977005458 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 62977005459 nucleotide binding region [chemical binding]; other site 62977005460 ATP-binding site [chemical binding]; other site 62977005461 Helicase associated domain (HA2); Region: HA2; cl04503 62977005462 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 62977005463 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 62977005464 peroxiredoxin; Region: AhpC; TIGR03137 62977005465 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 62977005466 dimer interface [polypeptide binding]; other site 62977005467 decamer (pentamer of dimers) interface [polypeptide binding]; other site 62977005468 catalytic triad [active] 62977005469 peroxidatic and resolving cysteines [active] 62977005470 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 62977005471 classical (c) SDRs; Region: SDR_c; cd05233 62977005472 NAD(P) binding site [chemical binding]; other site 62977005473 active site 62977005474 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 62977005475 heme binding pocket [chemical binding]; other site 62977005476 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 62977005477 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977005478 Thermostable hemolysin; Region: T_hemolysin; pfam12261 62977005479 Cupin domain; Region: Cupin_2; cl09118 62977005480 Sensors of blue-light using FAD; Region: BLUF; cl04855 62977005481 aromatic amino acid exporter; Provisional; Region: PRK11689 62977005482 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977005483 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 62977005484 N-terminal plug; other site 62977005485 ligand-binding site [chemical binding]; other site 62977005486 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 62977005487 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 62977005488 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 62977005489 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 62977005490 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 62977005491 IucA / IucC family; Region: IucA_IucC; pfam04183 62977005492 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 62977005493 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 62977005494 IucA / IucC family; Region: IucA_IucC; pfam04183 62977005495 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 62977005496 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 62977005497 Major Facilitator Superfamily; Region: MFS_1; pfam07690 62977005498 putative substrate translocation pore; other site 62977005499 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 62977005500 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 62977005501 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 62977005502 IucA / IucC family; Region: IucA_IucC; pfam04183 62977005503 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 62977005504 Sensors of blue-light using FAD; Region: BLUF; cl04855 62977005505 Sensors of blue-light using FAD; Region: BLUF; cl04855 62977005506 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 62977005507 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 62977005508 Arc-like DNA binding domain; Region: Arc; pfam03869 62977005509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 62977005510 LysE type translocator; Region: LysE; cl00565 62977005511 NlpC/P60 family; Region: NLPC_P60; cl11438 62977005512 Phage-related protein, tail component [Function unknown]; Region: COG4733 62977005513 NlpC/P60 family; Region: NLPC_P60; cl11438 62977005514 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 62977005515 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 62977005516 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 62977005517 CotH protein; Region: CotH; pfam08757 62977005518 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 62977005519 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 62977005520 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 62977005521 Caldesmon; Region: Caldesmon; pfam02029 62977005522 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 62977005523 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 62977005524 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 62977005525 AntA/AntB antirepressor; Region: AntA; cl01430 62977005526 ORF11CD3 domain; Region: ORF11CD3; pfam10549 62977005527 Arc-like DNA binding domain; Region: Arc; pfam03869 62977005528 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 62977005529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 62977005530 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 62977005531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 62977005532 Terminase-like family; Region: Terminase_6; pfam03237 62977005533 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 62977005534 Uncharacterized conserved protein (DUF2280); Region: DUF2280; cl02353 62977005535 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 62977005536 DNA binding site [nucleotide binding] 62977005537 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 62977005538 replicative DNA helicase; Region: DnaB; TIGR00665 62977005539 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 62977005540 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977005541 Walker A motif; other site 62977005542 ATP binding site [chemical binding]; other site 62977005543 Walker B motif; other site 62977005544 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 62977005545 Helix-turn-helix domains; Region: HTH; cl00088 62977005546 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 62977005547 Phage integrase family; Region: Phage_integrase; pfam00589 62977005548 DNA binding site [nucleotide binding] 62977005549 Int/Topo IB signature motif; other site 62977005550 active site 62977005551 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 62977005552 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 62977005553 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 62977005554 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 62977005555 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 62977005556 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 62977005557 Walker A motif; other site 62977005558 ATP binding site [chemical binding]; other site 62977005559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977005560 Walker B motif; other site 62977005561 arginine finger; other site 62977005562 Protein of unknown function (DUF466); Region: DUF466; cl01082 62977005563 Carbon starvation protein CstA; Region: CstA; cl00856 62977005564 elongation factor P; Validated; Region: PRK00529 62977005565 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 62977005566 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 62977005567 RNA binding site [nucleotide binding]; other site 62977005568 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 62977005569 RNA binding site [nucleotide binding]; other site 62977005570 KamA family protein; Region: TIGR00238; cl15377 62977005571 Radical SAM superfamily; Region: Radical_SAM; pfam04055 62977005572 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 62977005573 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 62977005574 Membrane transport protein; Region: Mem_trans; cl09117 62977005575 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 62977005576 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 62977005577 dimer interface [polypeptide binding]; other site 62977005578 active site 62977005579 metal binding site [ion binding]; metal-binding site 62977005580 glutathione binding site [chemical binding]; other site 62977005581 muropeptide transporter; Validated; Region: ampG; PRK11010 62977005582 AmpG-related permease; Region: 2A0125; TIGR00901 62977005583 muropeptide transporter; Validated; Region: ampG; PRK11010 62977005584 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 62977005585 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 62977005586 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977005587 Protein of unknown function (DUF328); Region: DUF328; cl01143 62977005588 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 62977005589 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005590 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 62977005591 metal binding site [ion binding]; metal-binding site 62977005592 dimer interface [polypeptide binding]; other site 62977005593 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 62977005594 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005595 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 62977005596 hinge; other site 62977005597 active site 62977005598 Chorismate mutase type II; Region: CM_2; cl00693 62977005599 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 62977005600 Prephenate dehydratase; Region: PDT; pfam00800 62977005601 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 62977005602 putative L-Phe binding site [chemical binding]; other site 62977005603 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977005604 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 62977005605 proposed catalytic triad [active] 62977005606 conserved cys residue [active] 62977005607 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977005608 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977005609 active site 62977005610 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977005611 hypothetical protein; Validated; Region: PRK09071 62977005612 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 62977005613 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 62977005614 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 62977005615 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 62977005616 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 62977005617 Transglycosylase; Region: Transgly; cl07896 62977005618 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977005619 hypothetical protein; Provisional; Region: PRK08999 62977005620 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 62977005621 active site 62977005622 8-oxo-dGMP binding site [chemical binding]; other site 62977005623 nudix motif; other site 62977005624 metal binding site [ion binding]; metal-binding site 62977005625 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 62977005626 thiamine phosphate binding site [chemical binding]; other site 62977005627 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 62977005628 dimer interface [polypeptide binding]; other site 62977005629 phosphorylation site [posttranslational modification] 62977005630 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 62977005631 ATP binding site [chemical binding]; other site 62977005632 Mg2+ binding site [ion binding]; other site 62977005633 G-X-G motif; other site 62977005634 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 62977005635 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 62977005636 active site 62977005637 phosphorylation site [posttranslational modification] 62977005638 intermolecular recognition site; other site 62977005639 dimerization interface [polypeptide binding]; other site 62977005640 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 62977005641 DNA binding site [nucleotide binding] 62977005642 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 62977005643 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 62977005644 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 62977005645 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 62977005646 Walker A motif; other site 62977005647 ATP binding site [chemical binding]; other site 62977005648 Walker B motif; other site 62977005649 GAF domain; Region: GAF; cl00853 62977005650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977005651 metal binding site [ion binding]; metal-binding site 62977005652 active site 62977005653 I-site; other site 62977005654 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 62977005655 homodimer interaction site [polypeptide binding]; other site 62977005656 cofactor binding site; other site 62977005657 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 62977005658 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 62977005659 FAD binding pocket [chemical binding]; other site 62977005660 FAD binding motif [chemical binding]; other site 62977005661 phosphate binding motif [ion binding]; other site 62977005662 beta-alpha-beta structure motif; other site 62977005663 NAD binding pocket [chemical binding]; other site 62977005664 Transcriptional regulators [Transcription]; Region: GntR; COG1802 62977005665 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977005666 DNA-binding site [nucleotide binding]; DNA binding site 62977005667 FCD domain; Region: FCD; cl11656 62977005668 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 62977005669 trimer interface [polypeptide binding]; other site 62977005670 eyelet of channel; other site 62977005671 Sodium:solute symporter family; Region: SSF; cl00456 62977005672 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 62977005673 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 62977005674 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 62977005675 putative active site [active] 62977005676 metal binding site [ion binding]; metal-binding site 62977005677 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 62977005678 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 62977005679 catalytic residue [active] 62977005680 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 62977005681 catalytic residues [active] 62977005682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005683 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 62977005684 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 62977005685 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 62977005686 dimer interface [polypeptide binding]; other site 62977005687 glycine-pyridoxal phosphate binding site [chemical binding]; other site 62977005688 active site 62977005689 folate binding site [chemical binding]; other site 62977005690 Secretory lipase; Region: LIP; pfam03583 62977005691 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 62977005692 exodeoxyribonuclease X; Provisional; Region: PRK07983 62977005693 active site 62977005694 substrate binding site [chemical binding]; other site 62977005695 catalytic site [active] 62977005696 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 62977005697 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 62977005698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977005699 Walker A/P-loop; other site 62977005700 ATP binding site [chemical binding]; other site 62977005701 Q-loop/lid; other site 62977005702 ABC transporter signature motif; other site 62977005703 Walker B; other site 62977005704 D-loop; other site 62977005705 H-loop/switch region; other site 62977005706 ABC-2 type transporter; Region: ABC2_membrane; cl11417 62977005707 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 62977005708 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 62977005709 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 62977005710 lytic murein transglycosylase; Region: MltB_2; TIGR02283 62977005711 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977005712 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977005713 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 62977005714 Protein of unknown function (DUF962); Region: DUF962; cl01879 62977005715 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 62977005716 elongation factor Ts; Provisional; Region: tsf; PRK09377 62977005717 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 62977005718 Elongation factor TS; Region: EF_TS; pfam00889 62977005719 Elongation factor TS; Region: EF_TS; pfam00889 62977005720 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 62977005721 rRNA interaction site [nucleotide binding]; other site 62977005722 S8 interaction site; other site 62977005723 putative laminin-1 binding site; other site 62977005724 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 62977005725 active site 62977005726 Surface antigen; Region: Surface_Ag_2; cl01155 62977005727 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005728 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 62977005729 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005730 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 62977005731 lipoyl synthase; Provisional; Region: PRK05481 62977005732 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 62977005733 FeS/SAM binding site; other site 62977005734 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 62977005735 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977005736 active site 62977005737 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 62977005738 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 62977005739 MASE2 domain; Region: MASE2; pfam05230 62977005740 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977005741 metal binding site [ion binding]; metal-binding site 62977005742 active site 62977005743 I-site; other site 62977005744 proline/glycine betaine transporter; Provisional; Region: PRK10642 62977005745 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 62977005746 putative substrate translocation pore; other site 62977005747 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 62977005748 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 62977005749 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 62977005750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005751 oligomerization interface [polypeptide binding]; other site 62977005752 active site 62977005753 NAD+ binding site [chemical binding]; other site 62977005754 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 62977005755 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 62977005756 FAD binding site [chemical binding]; other site 62977005757 RNA methyltransferase, RsmE family; Region: TIGR00046 62977005758 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 62977005759 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 62977005760 Malic enzyme, N-terminal domain; Region: malic; pfam00390 62977005761 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 62977005762 putative NAD(P) binding site [chemical binding]; other site 62977005763 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 62977005764 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 62977005765 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 62977005766 active site 62977005767 NTP binding site [chemical binding]; other site 62977005768 metal binding triad [ion binding]; metal-binding site 62977005769 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 62977005770 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 62977005771 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 62977005772 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 62977005773 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 62977005774 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; cl11451 62977005775 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977005776 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 62977005777 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 62977005778 dimer interface [polypeptide binding]; other site 62977005779 FMN binding site [chemical binding]; other site 62977005780 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 62977005781 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 62977005782 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 62977005783 P loop; other site 62977005784 GTP binding site [chemical binding]; other site 62977005785 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 62977005786 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 62977005787 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 62977005788 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 62977005789 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 62977005790 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 62977005791 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 62977005792 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 62977005793 FOG: CBS domain [General function prediction only]; Region: COG0517 62977005794 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 62977005795 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 62977005796 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 62977005797 Walker A motif; other site 62977005798 ATP binding site [chemical binding]; other site 62977005799 Walker B motif; other site 62977005800 arginine finger; other site 62977005801 YcgL domain; Region: YcgL; cl01189 62977005802 ribonuclease D; Region: rnd; TIGR01388 62977005803 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 62977005804 putative active site [active] 62977005805 catalytic site [active] 62977005806 putative substrate binding site [chemical binding]; other site 62977005807 HRDC domain; Region: HRDC; cl02578 62977005808 recombination protein RecR; Reviewed; Region: recR; PRK00076 62977005809 RecR protein; Region: RecR; pfam02132 62977005810 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 62977005811 putative active site [active] 62977005812 putative metal-binding site [ion binding]; other site 62977005813 tetramer interface [polypeptide binding]; other site 62977005814 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 62977005815 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 62977005816 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 62977005817 homodimer interface [polypeptide binding]; other site 62977005818 substrate-cofactor binding pocket; other site 62977005819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977005820 catalytic residue [active] 62977005821 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 62977005822 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 62977005823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977005824 NAD(P) binding pocket [chemical binding]; other site 62977005825 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 62977005826 HIT family signature motif; other site 62977005827 catalytic residue [active] 62977005828 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 62977005829 eyelet of channel; other site 62977005830 trimer interface [polypeptide binding]; other site 62977005831 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 62977005832 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 62977005833 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 62977005834 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 62977005835 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 62977005836 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 62977005837 N-terminal plug; other site 62977005838 ligand-binding site [chemical binding]; other site 62977005839 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 62977005840 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 62977005841 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 62977005842 NeuB family; Region: NeuB; cl00496 62977005843 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 62977005844 Integral membrane protein TerC family; Region: TerC; cl10468 62977005845 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 62977005846 Transporter associated domain; Region: CorC_HlyC; cl08393 62977005847 Helix-turn-helix domains; Region: HTH; cl00088 62977005848 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 62977005849 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 62977005850 active site 62977005851 Predicted ATPase [General function prediction only]; Region: COG1485 62977005852 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977005853 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977005854 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977005855 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 62977005856 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 62977005857 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 62977005858 active site 62977005859 dimer interface [polypeptide binding]; other site 62977005860 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 62977005861 non-specific DNA binding site [nucleotide binding]; other site 62977005862 salt bridge; other site 62977005863 sequence-specific DNA binding site [nucleotide binding]; other site 62977005864 Cupin domain; Region: Cupin_2; cl09118 62977005865 AzlC protein; Region: AzlC; cl00570 62977005866 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 62977005867 IHF dimer interface [polypeptide binding]; other site 62977005868 IHF - DNA interface [nucleotide binding]; other site 62977005869 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 62977005870 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 62977005871 RNA binding site [nucleotide binding]; other site 62977005872 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 62977005873 RNA binding site [nucleotide binding]; other site 62977005874 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 62977005875 RNA binding site [nucleotide binding]; other site 62977005876 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 62977005877 RNA binding site [nucleotide binding]; other site 62977005878 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 of...; Region: S1_RPS1_repeat_ec5; cd05690 62977005879 RNA binding site [nucleotide binding]; other site 62977005880 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 62977005881 RNA binding site [nucleotide binding]; other site 62977005882 cytidylate kinase; Provisional; Region: cmk; PRK00023 62977005883 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 62977005884 CMP-binding site; other site 62977005885 The sites determining sugar specificity; other site 62977005886 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 62977005887 putative hydrophobic ligand binding site [chemical binding]; other site 62977005888 protein interface [polypeptide binding]; other site 62977005889 gate; other site 62977005890 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 62977005891 nucleoside/Zn binding site; other site 62977005892 dimer interface [polypeptide binding]; other site 62977005893 catalytic motif [active] 62977005894 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 62977005895 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 62977005896 substrate binding site [chemical binding]; other site 62977005897 oxyanion hole (OAH) forming residues; other site 62977005898 trimer interface [polypeptide binding]; other site 62977005899 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 62977005900 ligand binding site [chemical binding]; other site 62977005901 active site 62977005902 UGI interface [polypeptide binding]; other site 62977005903 catalytic site [active] 62977005904 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 62977005905 General secretion pathway protein K; Region: GspK; pfam03934 62977005906 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 62977005907 Pseudopilin GspJ; Region: GspJ; pfam11612 62977005908 Bacterial type II secretion system protein I/J; Region: GSPII_IJ; pfam02501 62977005909 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 62977005910 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 62977005911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977005912 Helix-turn-helix domains; Region: HTH; cl00088 62977005913 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 62977005914 active site 62977005915 PilZ domain; Region: PilZ; cl01260 62977005916 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 62977005917 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977005918 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 62977005919 Ligand binding site; other site 62977005920 oligomer interface; other site 62977005921 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 62977005922 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 62977005923 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 62977005924 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 62977005925 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 62977005926 Walker A/P-loop; other site 62977005927 ATP binding site [chemical binding]; other site 62977005928 Q-loop/lid; other site 62977005929 ABC transporter signature motif; other site 62977005930 Walker B; other site 62977005931 D-loop; other site 62977005932 H-loop/switch region; other site 62977005933 ParB-like partition proteins; Region: parB_part; TIGR00180 62977005934 ParB-like nuclease domain; Region: ParBc; cl02129 62977005935 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 62977005936 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 62977005937 P-loop; other site 62977005938 Magnesium ion binding site [ion binding]; other site 62977005939 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 62977005940 Magnesium ion binding site [ion binding]; other site 62977005941 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 62977005942 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; cl12011 62977005943 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 62977005944 Substrate binding site; other site 62977005945 metal-binding site 62977005946 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; cl15691 62977005947 Phosphotransferase enzyme family; Region: APH; pfam01636 62977005948 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 62977005949 OstA-like protein; Region: OstA; cl00844 62977005950 Organic solvent tolerance protein; Region: OstA_C; pfam04453 62977005951 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 62977005952 SurA N-terminal domain; Region: SurA_N; pfam09312 62977005953 PPIC-type PPIASE domain; Region: Rotamase; cl08278 62977005954 PPIC-type PPIASE domain; Region: Rotamase; cl08278 62977005955 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 62977005956 Sm1 motif; other site 62977005957 intra - hexamer interaction site; other site 62977005958 inter - hexamer interaction site [polypeptide binding]; other site 62977005959 nucleotide binding pocket [chemical binding]; other site 62977005960 Sm2 motif; other site 62977005961 IPP transferase; Region: IPPT; cl00403 62977005962 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 62977005963 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 62977005964 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 62977005965 ATP binding site [chemical binding]; other site 62977005966 Mg2+ binding site [ion binding]; other site 62977005967 G-X-G motif; other site 62977005968 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 62977005969 ATP binding site [chemical binding]; other site 62977005970 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 62977005971 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 62977005972 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 62977005973 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PSRA_1; cd02558 62977005974 probable active site [active] 62977005975 RelB antitoxin; Region: RelB; cl01171 62977005976 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 62977005977 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977005978 Coenzyme A binding pocket [chemical binding]; other site 62977005979 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 62977005980 RNA binding surface [nucleotide binding]; other site 62977005981 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 62977005982 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 62977005983 active site 62977005984 uracil binding [chemical binding]; other site 62977005985 Protein of unknown function (DUF441); Region: DUF441; cl01041 62977005986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977005987 Helix-turn-helix domains; Region: HTH; cl00088 62977005988 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 62977005989 putative dimerization interface [polypeptide binding]; other site 62977005990 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 62977005991 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 62977005992 putative substrate translocation pore; other site 62977005993 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 62977005994 active site 62977005995 tetramer interface [polypeptide binding]; other site 62977005996 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 62977005997 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977005998 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 62977005999 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 62977006000 Nucleoside recognition; Region: Gate; cl00486 62977006001 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 62977006002 Ion transport protein; Region: Ion_trans; pfam00520 62977006003 Ion channel; Region: Ion_trans_2; cl11596 62977006004 replication factor A; Reviewed; Region: PRK08402 62977006005 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 62977006006 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 62977006007 substrate binding site [chemical binding]; other site 62977006008 dimer interface [polypeptide binding]; other site 62977006009 ATP binding site [chemical binding]; other site 62977006010 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 62977006011 non-specific DNA binding site [nucleotide binding]; other site 62977006012 salt bridge; other site 62977006013 sequence-specific DNA binding site [nucleotide binding]; other site 62977006014 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 62977006015 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 62977006016 substrate binding site [chemical binding]; other site 62977006017 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 62977006018 substrate binding site [chemical binding]; other site 62977006019 ligand binding site [chemical binding]; other site 62977006020 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 62977006021 putative homotetramer interface [polypeptide binding]; other site 62977006022 putative homodimer interface [polypeptide binding]; other site 62977006023 putative allosteric switch controlling residues; other site 62977006024 putative metal binding site [ion binding]; other site 62977006025 putative homodimer-homodimer interface [polypeptide binding]; other site 62977006026 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 62977006027 metal-binding site [ion binding] 62977006028 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 62977006029 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 62977006030 metal-binding site [ion binding] 62977006031 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 62977006032 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977006033 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 62977006034 metal-binding site [ion binding] 62977006035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 62977006036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 62977006037 Family of unknown function (DUF490); Region: DUF490; pfam04357 62977006038 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 62977006039 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977006040 Surface antigen; Region: Bac_surface_Ag; cl03097 62977006041 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 62977006042 putative substrate translocation pore; other site 62977006043 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 62977006044 diiron binding motif [ion binding]; other site 62977006045 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 62977006046 Protein of unknown function (DUF1595); Region: PSD5; pfam07637 62977006047 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; cl00233 62977006048 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 62977006049 homooctamer interface [polypeptide binding]; other site 62977006050 active site 62977006051 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; cl15691 62977006052 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 62977006053 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 62977006054 ATP binding site [chemical binding]; other site 62977006055 substrate interface [chemical binding]; other site 62977006056 chaperone protein DnaK; Region: prok_dnaK; TIGR02350 62977006057 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 62977006058 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 62977006059 Uncharacterized conserved protein [Function unknown]; Region: COG2898 62977006060 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 62977006061 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 62977006062 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 62977006063 NAD binding site [chemical binding]; other site 62977006064 homotetramer interface [polypeptide binding]; other site 62977006065 homodimer interface [polypeptide binding]; other site 62977006066 active site 62977006067 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 62977006068 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 62977006069 S-adenosylmethionine binding site [chemical binding]; other site 62977006070 peptide chain release factor 1; Validated; Region: prfA; PRK00591 62977006071 RF-1 domain; Region: RF-1; cl02875 62977006072 RF-1 domain; Region: RF-1; cl02875 62977006073 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 62977006074 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 62977006075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977006076 metal binding site [ion binding]; metal-binding site 62977006077 active site 62977006078 I-site; other site 62977006079 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 62977006080 Domain of unknown function (DUF299); Region: DUF299; cl00780 62977006081 phosphoenolpyruvate synthase; Validated; Region: PRK06464 62977006082 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 62977006083 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 62977006084 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 62977006085 RDD family; Region: RDD; cl00746 62977006086 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 62977006087 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 62977006088 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 62977006089 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 62977006090 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 62977006091 D-pathway; other site 62977006092 Putative ubiquinol binding site [chemical binding]; other site 62977006093 Low-spin heme (heme b) binding site [chemical binding]; other site 62977006094 Putative water exit pathway; other site 62977006095 Binuclear center (heme o3/CuB) [ion binding]; other site 62977006096 K-pathway; other site 62977006097 Putative proton exit pathway; other site 62977006098 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 62977006099 Subunit I/III interface [polypeptide binding]; other site 62977006100 Subunit III/IV interface [polypeptide binding]; other site 62977006101 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 62977006102 UbiA prenyltransferase family; Region: UbiA; cl00337 62977006103 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 62977006104 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 62977006105 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 62977006106 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 62977006107 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 62977006108 replicative DNA helicase; Region: DnaB; TIGR00665 62977006109 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 62977006110 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 62977006111 Walker A motif; other site 62977006112 ATP binding site [chemical binding]; other site 62977006113 Walker B motif; other site 62977006114 DNA binding loops [nucleotide binding] 62977006115 alanine racemase; Reviewed; Region: alr; PRK00053 62977006116 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 62977006117 active site 62977006118 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 62977006119 substrate binding site [chemical binding]; other site 62977006120 catalytic residues [active] 62977006121 dimer interface [polypeptide binding]; other site 62977006122 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 62977006123 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 62977006124 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 62977006125 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 62977006126 Bacterial domain of unknown function (DUF403); Region: DUF403; cl00980 62977006127 Uncharacterized conserved protein [Function unknown]; Region: COG2308 62977006128 Domain of unknown function (DUF404); Region: DUF404; pfam04169 62977006129 Domain of unknown function (DUF407); Region: DUF407; pfam04174 62977006130 Predicted transcriptional regulator [Transcription]; Region: COG2378 62977006131 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 62977006132 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 62977006133 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 62977006134 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; cl12011 62977006135 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 62977006136 Helix-turn-helix domains; Region: HTH; cl00088 62977006137 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 62977006138 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 62977006139 purine monophosphate binding site [chemical binding]; other site 62977006140 dimer interface [polypeptide binding]; other site 62977006141 putative catalytic residues [active] 62977006142 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 62977006143 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 62977006144 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 62977006145 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 62977006146 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977006147 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 62977006148 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 62977006149 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 62977006150 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 62977006151 Walker A/P-loop; other site 62977006152 ATP binding site [chemical binding]; other site 62977006153 Q-loop/lid; other site 62977006154 ABC transporter signature motif; other site 62977006155 Walker B; other site 62977006156 D-loop; other site 62977006157 H-loop/switch region; other site 62977006158 NIL domain; Region: NIL; cl09633 62977006159 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 62977006160 dimer interface [polypeptide binding]; other site 62977006161 conserved gate region; other site 62977006162 ABC-ATPase subunit interface; other site 62977006163 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 62977006164 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977006165 UbiA prenyltransferase family; Region: UbiA; cl00337 62977006166 UTRA domain; Region: UTRA; cl01230 62977006167 glutamine synthetase; Provisional; Region: glnA; PRK09469 62977006168 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 62977006169 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 62977006170 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 62977006171 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 62977006172 glutamine binding [chemical binding]; other site 62977006173 catalytic triad [active] 62977006174 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 62977006175 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 62977006176 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 62977006177 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 62977006178 active site 62977006179 ribulose/triose binding site [chemical binding]; other site 62977006180 phosphate binding site [ion binding]; other site 62977006181 substrate (anthranilate) binding pocket [chemical binding]; other site 62977006182 product (indole) binding pocket [chemical binding]; other site 62977006183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 62977006184 Smr domain; Region: Smr; cl02619 62977006185 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 62977006186 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 62977006187 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 62977006188 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 62977006189 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 62977006190 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 62977006191 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 62977006192 catalytic loop [active] 62977006193 iron binding site [ion binding]; other site 62977006194 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 62977006195 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 62977006196 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 62977006197 homodecamer interface [polypeptide binding]; other site 62977006198 GTP cyclohydrolase I; Provisional; Region: PLN03044 62977006199 active site 62977006200 putative catalytic site residues [active] 62977006201 zinc binding site [ion binding]; other site 62977006202 GTP-CH-I/GFRP interaction surface; other site 62977006203 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 62977006204 putative transporter; Provisional; Region: PRK12382 62977006205 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 62977006206 putative substrate translocation pore; other site 62977006207 Protein of unknown function (DUF817); Region: DUF817; cl01520 62977006208 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 62977006209 substrate binding site [chemical binding]; other site 62977006210 active site 62977006211 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 62977006212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 62977006213 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 62977006214 Pirin-related protein [General function prediction only]; Region: COG1741 62977006215 Cupin domain; Region: Cupin_2; cl09118 62977006216 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 62977006217 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 62977006218 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 62977006219 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09676 62977006220 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09677 62977006221 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 62977006222 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-F; cd09718 62977006223 Response regulator receiver domain; Region: Response_reg; pfam00072 62977006224 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 62977006225 active site 62977006226 phosphorylation site [posttranslational modification] 62977006227 intermolecular recognition site; other site 62977006228 dimerization interface [polypeptide binding]; other site 62977006229 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 62977006230 DNA binding residues [nucleotide binding] 62977006231 dimerization interface [polypeptide binding]; other site 62977006232 Sodium:solute symporter family; Region: SSF; cl00456 62977006233 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 62977006234 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 62977006235 dimer interface [polypeptide binding]; other site 62977006236 phosphorylation site [posttranslational modification] 62977006237 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 62977006238 ATP binding site [chemical binding]; other site 62977006239 Mg2+ binding site [ion binding]; other site 62977006240 G-X-G motif; other site 62977006241 Response regulator receiver domain; Region: Response_reg; pfam00072 62977006242 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 62977006243 active site 62977006244 phosphorylation site [posttranslational modification] 62977006245 intermolecular recognition site; other site 62977006246 dimerization interface [polypeptide binding]; other site 62977006247 Sodium:solute symporter family; Region: SSF; cl00456 62977006248 PqqA family; Region: PqqA; cl15372 62977006249 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977006250 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 62977006251 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 62977006252 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 62977006253 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 62977006254 FeS/SAM binding site; other site 62977006255 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 62977006256 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 62977006257 active site 62977006258 dimer interface [polypeptide binding]; other site 62977006259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006260 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 62977006261 NAD(P) binding site [chemical binding]; other site 62977006262 active site 62977006263 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 62977006264 GntP family permease; Region: GntP_permease; cl15264 62977006265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977006266 Helix-turn-helix domains; Region: HTH; cl00088 62977006267 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 62977006268 putative dimerization interface [polypeptide binding]; other site 62977006269 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977006270 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977006271 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 62977006272 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 62977006273 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 62977006274 dimer interface [polypeptide binding]; other site 62977006275 active site 62977006276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 62977006277 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 62977006278 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977006279 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 62977006280 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 62977006281 carboxyltransferase (CT) interaction site; other site 62977006282 biotinylation site [posttranslational modification]; other site 62977006283 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 62977006284 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 62977006285 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 62977006286 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 62977006287 LamB/YcsF family; Region: LamB_YcsF; cl00664 62977006288 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 62977006289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977006290 Helix-turn-helix domains; Region: HTH; cl00088 62977006291 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 62977006292 dimerization interface [polypeptide binding]; other site 62977006293 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977006294 DNA-binding site [nucleotide binding]; DNA binding site 62977006295 Transcriptional regulators [Transcription]; Region: FadR; COG2186 62977006296 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977006297 DNA-binding site [nucleotide binding]; DNA binding site 62977006298 FCD domain; Region: FCD; cl11656 62977006299 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 62977006300 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 62977006301 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 62977006302 active site 62977006303 FMN binding site [chemical binding]; other site 62977006304 substrate binding site [chemical binding]; other site 62977006305 3Fe-4S cluster binding site [ion binding]; other site 62977006306 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 62977006307 domain_subunit interface; other site 62977006308 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 62977006309 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 62977006310 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 62977006311 putative active site [active] 62977006312 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 62977006313 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 62977006314 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 62977006315 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 62977006316 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 62977006317 non-specific DNA binding site [nucleotide binding]; other site 62977006318 salt bridge; other site 62977006319 sequence-specific DNA binding site [nucleotide binding]; other site 62977006320 Cupin domain; Region: Cupin_2; cl09118 62977006321 putative arabinose transporter; Provisional; Region: PRK03545 62977006322 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 62977006323 putative substrate translocation pore; other site 62977006324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977006325 Helix-turn-helix domains; Region: HTH; cl00088 62977006326 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 62977006327 dimerization interface [polypeptide binding]; other site 62977006328 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 62977006329 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 62977006330 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 62977006331 putative substrate translocation pore; other site 62977006332 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 62977006333 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 62977006334 active site 62977006335 non-prolyl cis peptide bond; other site 62977006336 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 62977006337 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977006338 Flavin binding site [chemical binding]; other site 62977006339 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 62977006340 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977006341 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 62977006342 tetramerization interface [polypeptide binding]; other site 62977006343 NAD(P) binding site [chemical binding]; other site 62977006344 catalytic residues [active] 62977006345 Sodium:solute symporter family; Region: SSF; cl00456 62977006346 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977006347 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 62977006348 NAD(P) binding site [chemical binding]; other site 62977006349 catalytic residues [active] 62977006350 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 62977006351 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 62977006352 Flavin Reductases; Region: FlaRed; cl00801 62977006353 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006354 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 62977006355 Transcriptional regulators [Transcription]; Region: GntR; COG1802 62977006356 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977006357 DNA-binding site [nucleotide binding]; DNA binding site 62977006358 FCD domain; Region: FCD; cl11656 62977006359 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 62977006360 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 62977006361 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 62977006362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006363 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 62977006364 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 62977006365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006366 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 62977006367 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14194 62977006368 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 62977006369 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 62977006370 homodimer interface [polypeptide binding]; other site 62977006371 NADP binding site [chemical binding]; other site 62977006372 substrate binding site [chemical binding]; other site 62977006373 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 62977006374 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 62977006375 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 62977006376 putative active site [active] 62977006377 putative substrate binding site [chemical binding]; other site 62977006378 putative cosubstrate binding site; other site 62977006379 catalytic site [active] 62977006380 Nitronate monooxygenase; Region: NMO; pfam03060 62977006381 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 62977006382 FMN binding site [chemical binding]; other site 62977006383 substrate binding site [chemical binding]; other site 62977006384 putative catalytic residue [active] 62977006385 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 62977006386 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 62977006387 FMN binding site [chemical binding]; other site 62977006388 active site 62977006389 catalytic residues [active] 62977006390 substrate binding site [chemical binding]; other site 62977006391 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 62977006392 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977006393 gamma-glutamyl kinase; Provisional; Region: PRK05429 62977006394 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 62977006395 nucleotide binding site [chemical binding]; other site 62977006396 homotetrameric interface [polypeptide binding]; other site 62977006397 putative phosphate binding site [ion binding]; other site 62977006398 putative allosteric binding site; other site 62977006399 PUA domain; Region: PUA; cl00607 62977006400 GTPase CgtA; Reviewed; Region: obgE; PRK12298 62977006401 GTP1/OBG; Region: GTP1_OBG; pfam01018 62977006402 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 62977006403 G1 box; other site 62977006404 GTP/Mg2+ binding site [chemical binding]; other site 62977006405 Switch I region; other site 62977006406 G2 box; other site 62977006407 G3 box; other site 62977006408 Switch II region; other site 62977006409 G4 box; other site 62977006410 G5 box; other site 62977006411 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 62977006412 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 62977006413 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 62977006414 Predicted permeases [General function prediction only]; Region: RarD; COG2962 62977006415 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 62977006416 excinuclease ABC subunit B; Provisional; Region: PRK05298 62977006417 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 62977006418 ATP binding site [chemical binding]; other site 62977006419 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 62977006420 nucleotide binding region [chemical binding]; other site 62977006421 ATP-binding site [chemical binding]; other site 62977006422 Ultra-violet resistance protein B; Region: UvrB; pfam12344 62977006423 UvrB/uvrC motif; Region: UVR; pfam02151 62977006424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006425 NAD(P) binding site [chemical binding]; other site 62977006426 active site 62977006427 hypothetical protein; Region: PHA00684 62977006428 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977006429 metal binding site [ion binding]; metal-binding site 62977006430 active site 62977006431 I-site; other site 62977006432 aspartate aminotransferase; Provisional; Region: PRK05764 62977006433 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 62977006434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977006435 homodimer interface [polypeptide binding]; other site 62977006436 catalytic residue [active] 62977006437 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 62977006438 active site 62977006439 dinuclear metal binding site [ion binding]; other site 62977006440 dimerization interface [polypeptide binding]; other site 62977006441 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 62977006442 active site 62977006443 hydrophilic channel; other site 62977006444 dimerization interface [polypeptide binding]; other site 62977006445 catalytic residues [active] 62977006446 active site lid [active] 62977006447 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 62977006448 Recombination protein O N terminal; Region: RecO_N; pfam11967 62977006449 Recombination protein O C terminal; Region: RecO_C; pfam02565 62977006450 GTPase Era; Reviewed; Region: era; PRK00089 62977006451 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 62977006452 G1 box; other site 62977006453 GTP/Mg2+ binding site [chemical binding]; other site 62977006454 Switch I region; other site 62977006455 G2 box; other site 62977006456 Switch II region; other site 62977006457 G3 box; other site 62977006458 G4 box; other site 62977006459 G5 box; other site 62977006460 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 62977006461 ribonuclease III; Reviewed; Region: rnc; PRK00102 62977006462 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 62977006463 dimerization interface [polypeptide binding]; other site 62977006464 active site 62977006465 metal binding site [ion binding]; metal-binding site 62977006466 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 62977006467 dsRNA binding site [nucleotide binding]; other site 62977006468 signal peptidase I; Provisional; Region: PRK10861 62977006469 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 62977006470 Catalytic site [active] 62977006471 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 62977006472 GTP-binding protein LepA; Provisional; Region: PRK05433 62977006473 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 62977006474 G1 box; other site 62977006475 putative GEF interaction site [polypeptide binding]; other site 62977006476 GTP/Mg2+ binding site [chemical binding]; other site 62977006477 Switch I region; other site 62977006478 G2 box; other site 62977006479 G3 box; other site 62977006480 Switch II region; other site 62977006481 G4 box; other site 62977006482 G5 box; other site 62977006483 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 62977006484 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 62977006485 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 62977006486 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 62977006487 active site 62977006488 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 62977006489 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 62977006490 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 62977006491 protein binding site [polypeptide binding]; other site 62977006492 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 62977006493 protein binding site [polypeptide binding]; other site 62977006494 L-aspartate oxidase; Provisional; Region: PRK09077 62977006495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006496 domain; Region: Succ_DH_flav_C; pfam02910 62977006497 thymidylate kinase; Validated; Region: tmk; PRK00698 62977006498 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 62977006499 TMP-binding site; other site 62977006500 ATP-binding site [chemical binding]; other site 62977006501 YceG-like family; Region: YceG; pfam02618 62977006502 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 62977006503 dimerization interface [polypeptide binding]; other site 62977006504 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 62977006505 Aminotransferase class IV; Region: Aminotran_4; pfam01063 62977006506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977006507 catalytic residue [active] 62977006508 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 62977006509 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 62977006510 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977006511 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006512 sulfate ABC transporter, permease protein CysT; Region: permease_CysT; TIGR02139 62977006513 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 62977006514 dimer interface [polypeptide binding]; other site 62977006515 conserved gate region; other site 62977006516 putative PBP binding loops; other site 62977006517 ABC-ATPase subunit interface; other site 62977006518 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 62977006519 dimer interface [polypeptide binding]; other site 62977006520 conserved gate region; other site 62977006521 putative PBP binding loops; other site 62977006522 ABC-ATPase subunit interface; other site 62977006523 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 62977006524 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 62977006525 Walker A/P-loop; other site 62977006526 ATP binding site [chemical binding]; other site 62977006527 Q-loop/lid; other site 62977006528 ABC transporter signature motif; other site 62977006529 Walker B; other site 62977006530 D-loop; other site 62977006531 H-loop/switch region; other site 62977006532 TOBE domain; Region: TOBE_2; cl01440 62977006533 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 62977006534 Helix-turn-helix domains; Region: HTH; cl00088 62977006535 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 62977006536 substrate binding site [chemical binding]; other site 62977006537 dimerization interface [polypeptide binding]; other site 62977006538 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 62977006539 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 62977006540 active site 62977006541 substrate binding site [chemical binding]; other site 62977006542 trimer interface [polypeptide binding]; other site 62977006543 CoA binding site [chemical binding]; other site 62977006544 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 62977006545 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 62977006546 FeS/SAM binding site; other site 62977006547 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 62977006548 Ligand Binding Site [chemical binding]; other site 62977006549 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 62977006550 catalytic triad [active] 62977006551 YceI-like domain; Region: YceI; cl01001 62977006552 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain; Region: NMNAT_Nudix; cd02168 62977006553 pantetheine-phosphate adenylyltransferase, bacterial; Region: coaD_prev_kdtB; TIGR01510 62977006554 active site 62977006555 (T/H)XGH motif; other site 62977006556 enoyl-CoA hydratase; Provisional; Region: PRK06688 62977006557 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 62977006558 substrate binding site [chemical binding]; other site 62977006559 oxyanion hole (OAH) forming residues; other site 62977006560 trimer interface [polypeptide binding]; other site 62977006561 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 62977006562 dimer interface [polypeptide binding]; other site 62977006563 FMN binding site [chemical binding]; other site 62977006564 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 62977006565 dimer interface [polypeptide binding]; other site 62977006566 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 62977006567 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 62977006568 Major Facilitator Superfamily; Region: MFS_1; pfam07690 62977006569 putative substrate translocation pore; other site 62977006570 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 62977006571 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 62977006572 dimerization interface [polypeptide binding]; other site 62977006573 ATP binding site [chemical binding]; other site 62977006574 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 62977006575 dimerization interface [polypeptide binding]; other site 62977006576 ATP binding site [chemical binding]; other site 62977006577 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 62977006578 putative active site [active] 62977006579 catalytic triad [active] 62977006580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977006581 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 62977006582 RuvA N terminal domain; Region: RuvA_N; pfam01330 62977006583 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 62977006584 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 62977006585 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977006586 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 62977006587 Walker A motif; other site 62977006588 ATP binding site [chemical binding]; other site 62977006589 Walker B motif; other site 62977006590 arginine finger; other site 62977006591 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 62977006592 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 62977006593 active site 62977006594 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 62977006595 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 62977006596 translocation protein TolB; Provisional; Region: tolB; PRK04922 62977006597 TolB amino-terminal domain; Region: TolB_N; cl00639 62977006598 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 62977006599 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 62977006600 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 62977006601 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977006602 ligand binding site [chemical binding]; other site 62977006603 fructose-1,6-bisphosphatase family protein; Region: PLN02628 62977006604 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 62977006605 AMP binding site [chemical binding]; other site 62977006606 metal binding site [ion binding]; metal-binding site 62977006607 active site 62977006608 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 62977006609 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 62977006610 RNA polymerase factor sigma-70; Validated; Region: PRK09047 62977006611 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977006612 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 62977006613 DNA binding residues [nucleotide binding] 62977006614 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 62977006615 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 62977006616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977006617 Domain of unknown function DUF20; Region: UPF0118; cl00465 62977006618 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 62977006619 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 62977006620 dimerization interface [polypeptide binding]; other site 62977006621 putative ATP binding site [chemical binding]; other site 62977006622 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 62977006623 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 62977006624 active site 62977006625 substrate binding site [chemical binding]; other site 62977006626 cosubstrate binding site; other site 62977006627 catalytic site [active] 62977006628 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006629 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 62977006630 tandem repeat interface [polypeptide binding]; other site 62977006631 oligomer interface [polypeptide binding]; other site 62977006632 active site residues [active] 62977006633 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 62977006634 putative acyl-acceptor binding pocket; other site 62977006635 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 62977006636 Competence protein; Region: Competence; cl00471 62977006637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977006638 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 62977006639 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 62977006640 Walker A/P-loop; other site 62977006641 ATP binding site [chemical binding]; other site 62977006642 Q-loop/lid; other site 62977006643 ABC transporter signature motif; other site 62977006644 Walker B; other site 62977006645 D-loop; other site 62977006646 H-loop/switch region; other site 62977006647 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 62977006648 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 62977006649 FtsX-like permease family; Region: FtsX; pfam02687 62977006650 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 62977006651 EamA-like transporter family; Region: EamA; cl01037 62977006652 EamA-like transporter family; Region: EamA; cl01037 62977006653 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 62977006654 Aminotransferase class-V; Region: Aminotran_5; pfam00266 62977006655 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 62977006656 homodimer interface [polypeptide binding]; other site 62977006657 substrate-cofactor binding pocket; other site 62977006658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977006659 catalytic residue [active] 62977006660 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 62977006661 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 62977006662 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 62977006663 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 62977006664 ABC-2 type transporter; Region: ABC2_membrane; cl11417 62977006665 DNA gyrase subunit A; Validated; Region: PRK05560 62977006666 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 62977006667 CAP-like domain; other site 62977006668 active site 62977006669 primary dimer interface [polypeptide binding]; other site 62977006670 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006671 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006672 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006673 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006674 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006675 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 62977006676 DinB superfamily; Region: DinB_2; cl00986 62977006677 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 62977006678 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 62977006679 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 62977006680 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 62977006681 Ligand binding site [chemical binding]; other site 62977006682 Electron transfer flavoprotein domain; Region: ETF; pfam01012 62977006683 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 62977006684 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 62977006685 DNA binding site [nucleotide binding] 62977006686 Int/Topo IB signature motif; other site 62977006687 active site 62977006688 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006689 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977006690 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 62977006691 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 62977006692 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 62977006693 diaminopimelate decarboxylase; Region: lysA; TIGR01048 62977006694 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 62977006695 active site 62977006696 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 62977006697 substrate binding site [chemical binding]; other site 62977006698 catalytic residues [active] 62977006699 dimer interface [polypeptide binding]; other site 62977006700 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977006701 Amino acid permease; Region: AA_permease; cl00524 62977006702 DNA repair protein RadA; Provisional; Region: PRK11823 62977006703 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 62977006704 Walker A motif/ATP binding site; other site 62977006705 ATP binding site [chemical binding]; other site 62977006706 Walker B motif; other site 62977006707 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 62977006708 Tim44-like domain; Region: Tim44; cl09208 62977006709 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 62977006710 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 62977006711 motif 1; other site 62977006712 dimer interface [polypeptide binding]; other site 62977006713 active site 62977006714 motif 2; other site 62977006715 motif 3; other site 62977006716 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 62977006717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006718 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 62977006719 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 62977006720 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 62977006721 iron-sulfur cluster [ion binding]; other site 62977006722 [2Fe-2S] cluster binding site [ion binding]; other site 62977006723 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 62977006724 putative alpha subunit interface [polypeptide binding]; other site 62977006725 putative active site [active] 62977006726 putative substrate binding site [chemical binding]; other site 62977006727 Fe binding site [ion binding]; other site 62977006728 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 62977006729 inter-subunit interface; other site 62977006730 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 62977006731 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 62977006732 catalytic loop [active] 62977006733 iron binding site [ion binding]; other site 62977006734 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 62977006735 FAD binding pocket [chemical binding]; other site 62977006736 FAD binding motif [chemical binding]; other site 62977006737 phosphate binding motif [ion binding]; other site 62977006738 beta-alpha-beta structure motif; other site 62977006739 NAD binding pocket [chemical binding]; other site 62977006740 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977006741 Helix-turn-helix domain; Region: HTH_18; pfam12833 62977006742 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977006743 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 62977006744 Flavin Reductases; Region: FlaRed; cl00801 62977006745 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 62977006746 classical (c) SDRs; Region: SDR_c; cd05233 62977006747 NAD(P) binding site [chemical binding]; other site 62977006748 active site 62977006749 Dienelactone hydrolase family; Region: DLH; pfam01738 62977006750 Helix-turn-helix domain; Region: HTH_18; pfam12833 62977006751 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 62977006752 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 62977006753 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 62977006754 NAD(P) binding site [chemical binding]; other site 62977006755 Uncharacterized conserved protein [Function unknown]; Region: COG4104 62977006756 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 62977006757 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 62977006758 ligand binding site [chemical binding]; other site 62977006759 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 62977006760 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 62977006761 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 62977006762 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 62977006763 Protein of unknown function (DUF1305); Region: DUF1305; cl01404 62977006764 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 62977006765 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 62977006766 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 62977006767 Protein of unknown function (DUF796); Region: DUF796; cl01226 62977006768 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 62977006769 Protein of unknown function (DUF877); Region: DUF877; pfam05943 62977006770 Protein of unknown function (DUF770); Region: DUF770; cl01402 62977006771 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 62977006772 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 62977006773 Walker A motif; other site 62977006774 ATP binding site [chemical binding]; other site 62977006775 Walker B motif; other site 62977006776 arginine finger; other site 62977006777 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 62977006778 Walker A motif; other site 62977006779 ATP binding site [chemical binding]; other site 62977006780 Walker B motif; other site 62977006781 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 62977006782 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 62977006783 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 62977006784 Bacterial protein of unknown function (DUF876); Region: DUF876; cl01406 62977006785 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 62977006786 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 62977006787 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 62977006788 PrpF protein; Region: PrpF; pfam04303 62977006789 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 62977006790 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 62977006791 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 62977006792 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 62977006793 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 62977006794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006795 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 62977006796 Isochorismatase family; Region: Isochorismatase; pfam00857 62977006797 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; cl00220 62977006798 catalytic triad [active] 62977006799 conserved cis-peptide bond; other site 62977006800 Cupin domain; Region: Cupin_2; cl09118 62977006801 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 62977006802 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 62977006803 FMN binding site [chemical binding]; other site 62977006804 active site 62977006805 substrate binding site [chemical binding]; other site 62977006806 catalytic residue [active] 62977006807 LysR family transcriptional regulator; Provisional; Region: PRK14997 62977006808 Helix-turn-helix domains; Region: HTH; cl00088 62977006809 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 62977006810 putative effector binding pocket; other site 62977006811 dimerization interface [polypeptide binding]; other site 62977006812 Y-family of DNA polymerases; Region: PolY; cl12025 62977006813 active site 62977006814 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 62977006815 Catalytic site [active] 62977006816 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 62977006817 CoenzymeA binding site [chemical binding]; other site 62977006818 subunit interaction site [polypeptide binding]; other site 62977006819 PHB binding site; other site 62977006820 Protein of unknown function (DUF330); Region: DUF330; cl01135 62977006821 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 62977006822 mce related protein; Region: MCE; cl15431 62977006823 mce related protein; Region: MCE; cl15431 62977006824 mce related protein; Region: MCE; cl15431 62977006825 Paraquat-inducible protein A; Region: PqiA; pfam04403 62977006826 Paraquat-inducible protein A; Region: PqiA; pfam04403 62977006827 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 62977006828 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 62977006829 putative NAD(P) binding site [chemical binding]; other site 62977006830 putative dimer interface [polypeptide binding]; other site 62977006831 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 62977006832 potential catalytic triad [active] 62977006833 conserved cys residue [active] 62977006834 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977006835 Helix-turn-helix domains; Region: HTH; cl00088 62977006836 transcriptional activator TtdR; Provisional; Region: PRK09801 62977006837 Helix-turn-helix domains; Region: HTH; cl00088 62977006838 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 62977006839 putative effector binding pocket; other site 62977006840 dimerization interface [polypeptide binding]; other site 62977006841 LysE type translocator; Region: LysE; cl00565 62977006842 Sel1 repeat; Region: Sel1; cl02723 62977006843 Sel1 repeat; Region: Sel1; cl02723 62977006844 Sel1 repeat; Region: Sel1; cl02723 62977006845 Sel1 repeat; Region: Sel1; cl02723 62977006846 Sel1 repeat; Region: Sel1; cl02723 62977006847 EamA-like transporter family; Region: EamA; cl01037 62977006848 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 62977006849 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977006850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006851 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977006852 hypothetical protein; Provisional; Region: PRK11032 62977006853 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 62977006854 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 62977006855 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 62977006856 substrate binding site [chemical binding]; other site 62977006857 ligand binding site [chemical binding]; other site 62977006858 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 62977006859 substrate binding site [chemical binding]; other site 62977006860 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 62977006861 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 62977006862 oxalacetate binding site [chemical binding]; other site 62977006863 citrylCoA binding site [chemical binding]; other site 62977006864 coenzyme A binding site [chemical binding]; other site 62977006865 catalytic triad [active] 62977006866 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 62977006867 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 62977006868 tetramer interface [polypeptide binding]; other site 62977006869 active site 62977006870 Mg2+/Mn2+ binding site [ion binding]; other site 62977006871 Transcriptional regulators [Transcription]; Region: GntR; COG1802 62977006872 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977006873 DNA-binding site [nucleotide binding]; DNA binding site 62977006874 FCD domain; Region: FCD; cl11656 62977006875 MatE; Region: MatE; cl10513 62977006876 putative efflux protein, MATE family; Region: matE; TIGR00797 62977006877 MatE; Region: MatE; cl10513 62977006878 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 62977006879 FAD binding pocket [chemical binding]; other site 62977006880 FAD binding motif [chemical binding]; other site 62977006881 phosphate binding motif [ion binding]; other site 62977006882 NAD binding pocket [chemical binding]; other site 62977006883 muropeptide transporter; Validated; Region: ampG; PRK11010 62977006884 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 62977006885 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 62977006886 N-terminal plug; other site 62977006887 ligand-binding site [chemical binding]; other site 62977006888 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 62977006889 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 62977006890 Siderophore biosynthesis protein domain; Region: AlcB; cl11000 62977006891 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 62977006892 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 62977006893 dimer interface [polypeptide binding]; other site 62977006894 active site 62977006895 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 62977006896 catalytic residues [active] 62977006897 substrate binding site [chemical binding]; other site 62977006898 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 62977006899 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 62977006900 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977006901 Condensation domain; Region: Condensation; pfam00668 62977006902 peptide synthase; Provisional; Region: PRK12316 62977006903 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977006904 Condensation domain; Region: Condensation; pfam00668 62977006905 Nonribosomal peptide synthase; Region: NRPS; pfam08415 62977006906 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977006907 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 62977006908 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977006909 Condensation domain; Region: Condensation; pfam00668 62977006910 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 62977006911 Nonribosomal peptide synthase; Region: NRPS; pfam08415 62977006912 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 62977006913 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 62977006914 Phosphopantetheine attachment site; Region: PP-binding; cl09936 62977006915 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 62977006916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006917 NAD(P) binding site [chemical binding]; other site 62977006918 active site 62977006919 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; cl00220 62977006920 Isochorismatase family; Region: Isochorismatase; pfam00857 62977006921 catalytic triad [active] 62977006922 conserved cis-peptide bond; other site 62977006923 isochorismate synthase DhbC; Validated; Region: PRK06923 62977006924 chorismate binding enzyme; Region: Chorismate_bind; cl10555 62977006925 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977006926 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977006927 putative transposase OrfB; Reviewed; Region: PHA02517 62977006928 Integrase core domain; Region: rve; cl01316 62977006929 putative transposase OrfB; Reviewed; Region: PHA02517 62977006930 haemagglutination activity domain; Region: Haemagg_act; cl05436 62977006931 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 62977006932 Possible hemagglutinin (DUF638); Region: DUF638; pfam04829 62977006933 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 62977006934 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 62977006935 Surface antigen; Region: Bac_surface_Ag; cl03097 62977006936 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977006937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977006938 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 62977006939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977006940 Helix-turn-helix domains; Region: HTH; cl00088 62977006941 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 62977006942 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977006943 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977006944 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 62977006945 Domain of unknown function (DUF932); Region: DUF932; cl12129 62977006946 Protein of unknown function (DUF805); Region: DUF805; cl01224 62977006947 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 62977006948 domain; Region: GreA_GreB_N; pfam03449 62977006949 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 62977006950 Helix-turn-helix domains; Region: HTH; cl00088 62977006951 Transcriptional regulator [Transcription]; Region: IclR; COG1414 62977006952 Bacterial transcriptional regulator; Region: IclR; pfam01614 62977006953 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 62977006954 Citrate transporter; Region: CitMHS; pfam03600 62977006955 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 62977006956 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 62977006957 active site 62977006958 catalytic residues [active] 62977006959 metal binding site [ion binding]; metal-binding site 62977006960 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 62977006961 CoA-transferase family III; Region: CoA_transf_3; pfam02515 62977006962 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 62977006963 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 62977006964 putative substrate translocation pore; other site 62977006965 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 62977006966 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 62977006967 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 62977006968 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 62977006969 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977006970 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977006971 catalytic residue [active] 62977006972 SCP-2 sterol transfer family; Region: SCP2; cl01225 62977006973 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 62977006974 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 62977006975 Ligand Binding Site [chemical binding]; other site 62977006976 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977006977 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977006978 catalytic residue [active] 62977006979 Peptidase family M48; Region: Peptidase_M48; cl12018 62977006980 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 62977006981 MgtE intracellular N domain; Region: MgtE_N; cl15244 62977006982 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 62977006983 Divalent cation transporter; Region: MgtE; cl00786 62977006984 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 62977006985 Protein export membrane protein; Region: SecD_SecF; cl14618 62977006986 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 62977006987 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 62977006988 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 62977006989 ring oligomerisation interface [polypeptide binding]; other site 62977006990 ATP/Mg binding site [chemical binding]; other site 62977006991 stacking interactions; other site 62977006992 hinge regions; other site 62977006993 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 62977006994 oligomerisation interface [polypeptide binding]; other site 62977006995 mobile loop; other site 62977006996 roof hairpin; other site 62977006997 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 62977006998 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 62977006999 putative active site [active] 62977007000 putative metal binding site [ion binding]; other site 62977007001 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 62977007002 active site 62977007003 metal binding site [ion binding]; metal-binding site 62977007004 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 62977007005 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 62977007006 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_GTP; cd00819 62977007007 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 62977007008 active site 62977007009 substrate-binding site [chemical binding]; other site 62977007010 metal-binding site [ion binding] 62977007011 GTP binding site [chemical binding]; other site 62977007012 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 62977007013 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 62977007014 S-adenosylmethionine binding site [chemical binding]; other site 62977007015 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 62977007016 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 62977007017 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 62977007018 homodimer interface [polypeptide binding]; other site 62977007019 NADP binding site [chemical binding]; other site 62977007020 substrate binding site [chemical binding]; other site 62977007021 Glycerate kinase family; Region: Gly_kinase; cl00841 62977007022 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 62977007023 dihydropteroate synthase; Region: DHPS; TIGR01496 62977007024 substrate binding pocket [chemical binding]; other site 62977007025 dimer interface [polypeptide binding]; other site 62977007026 inhibitor binding site; inhibition site 62977007027 FtsH Extracellular; Region: FtsH_ext; pfam06480 62977007028 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 62977007029 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 62977007030 Walker A motif; other site 62977007031 ATP binding site [chemical binding]; other site 62977007032 Walker B motif; other site 62977007033 arginine finger; other site 62977007034 Peptidase family M41; Region: Peptidase_M41; pfam01434 62977007035 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; cl12011 62977007036 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 62977007037 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 62977007038 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 62977007039 putative heme binding site [chemical binding]; other site 62977007040 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 62977007041 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 62977007042 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 62977007043 catalytic site [active] 62977007044 subunit interface [polypeptide binding]; other site 62977007045 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 62977007046 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 62977007047 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977007048 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 62977007049 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977007050 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 62977007051 IMP binding site; other site 62977007052 dimer interface [polypeptide binding]; other site 62977007053 interdomain contacts; other site 62977007054 partial ornithine binding site; other site 62977007055 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 62977007056 domain; Region: GreA_GreB_N; pfam03449 62977007057 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 62977007058 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 62977007059 Ligand Binding Site [chemical binding]; other site 62977007060 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 62977007061 DNA binding site [nucleotide binding] 62977007062 active site 62977007063 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 62977007064 Ligand Binding Site [chemical binding]; other site 62977007065 type 1 secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 62977007066 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 62977007067 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 62977007068 Protein of unknown function (DUF808); Region: DUF808; cl01002 62977007069 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 62977007070 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 62977007071 active site 62977007072 HIGH motif; other site 62977007073 dimer interface [polypeptide binding]; other site 62977007074 KMSKS motif; other site 62977007075 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 62977007076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007077 CoA-ligase; Region: Ligase_CoA; pfam00549 62977007078 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 62977007079 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977007080 CoA-ligase; Region: Ligase_CoA; pfam00549 62977007081 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 62977007082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007083 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007084 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 62977007085 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 62977007086 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 62977007087 E3 interaction surface; other site 62977007088 lipoyl attachment site [posttranslational modification]; other site 62977007089 e3 binding domain; Region: E3_binding; pfam02817 62977007090 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 62977007091 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 62977007092 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 62977007093 TPP-binding site [chemical binding]; other site 62977007094 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 62977007095 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 62977007096 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 62977007097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007098 domain; Region: Succ_DH_flav_C; pfam02910 62977007099 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 62977007100 SdhC subunit interface [polypeptide binding]; other site 62977007101 proximal heme binding site [chemical binding]; other site 62977007102 cardiolipin binding site; other site 62977007103 Iron-sulfur protein interface; other site 62977007104 proximal quinone binding site [chemical binding]; other site 62977007105 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 62977007106 Iron-sulfur protein interface; other site 62977007107 proximal quinone binding site [chemical binding]; other site 62977007108 SdhD (CybS) interface [polypeptide binding]; other site 62977007109 proximal heme binding site [chemical binding]; other site 62977007110 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 62977007111 dimer interface [polypeptide binding]; other site 62977007112 Citrate synthase; Region: Citrate_synt; pfam00285 62977007113 active site 62977007114 citrylCoA binding site [chemical binding]; other site 62977007115 NADH binding [chemical binding]; other site 62977007116 cationic pore residues; other site 62977007117 oxalacetate/citrate binding site [chemical binding]; other site 62977007118 coenzyme A binding site [chemical binding]; other site 62977007119 catalytic triad [active] 62977007120 NAD synthetase; Provisional; Region: PRK13981 62977007121 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 62977007122 multimer interface [polypeptide binding]; other site 62977007123 active site 62977007124 catalytic triad [active] 62977007125 protein interface 1 [polypeptide binding]; other site 62977007126 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 62977007127 homodimer interface [polypeptide binding]; other site 62977007128 NAD binding pocket [chemical binding]; other site 62977007129 ATP binding pocket [chemical binding]; other site 62977007130 Mg binding site [ion binding]; other site 62977007131 active-site loop [active] 62977007132 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Region: NuoI; COG1143 62977007133 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 62977007134 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 62977007135 active site 62977007136 (T/H)XGH motif; other site 62977007137 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 62977007138 SmpB-tmRNA interface; other site 62977007139 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977007140 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 62977007141 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 62977007142 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 62977007143 RNA binding surface [nucleotide binding]; other site 62977007144 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 62977007145 active site 62977007146 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 62977007147 DNA primase, catalytic core; Region: dnaG; TIGR01391 62977007148 CHC2 zinc finger; Region: zf-CHC2; cl15369 62977007149 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 62977007150 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 62977007151 active site 62977007152 metal binding site [ion binding]; metal-binding site 62977007153 interdomain interaction site; other site 62977007154 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 62977007155 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 62977007156 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 62977007157 tRNA; other site 62977007158 putative tRNA binding site [nucleotide binding]; other site 62977007159 putative NADP binding site [chemical binding]; other site 62977007160 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 62977007161 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 62977007162 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 62977007163 binding surface 62977007164 TPR motif; other site 62977007165 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 62977007166 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 62977007167 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 62977007168 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 62977007169 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK04923 62977007170 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977007171 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 62977007172 5S rRNA interface [nucleotide binding]; other site 62977007173 CTC domain interface [polypeptide binding]; other site 62977007174 L16 interface [polypeptide binding]; other site 62977007175 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 62977007176 putative active site [active] 62977007177 catalytic residue [active] 62977007178 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 62977007179 tetramerization interface [polypeptide binding]; other site 62977007180 active site 62977007181 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 62977007182 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 62977007183 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 62977007184 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 62977007185 active site residue [active] 62977007186 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 62977007187 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 62977007188 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 62977007189 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 62977007190 DNA binding residues [nucleotide binding] 62977007191 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 62977007192 putative dimer interface [polypeptide binding]; other site 62977007193 putative metal binding residues [ion binding]; other site 62977007194 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 62977007195 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; cl12011 62977007196 Uncharacterised protein family (UPF0149); Region: UPF0149; cl01173 62977007197 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 62977007198 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 62977007199 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 62977007200 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 62977007201 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 62977007202 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 62977007203 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 62977007204 DNA binding residues [nucleotide binding] 62977007205 Protein of unknown function (DUF493); Region: DUF493; cl01102 62977007206 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 62977007207 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 62977007208 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 62977007209 putative active site [active] 62977007210 metal binding site [ion binding]; metal-binding site 62977007211 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 62977007212 Amino acid permease; Region: AA_permease; cl00524 62977007213 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977007214 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 62977007215 dimerization interface [polypeptide binding]; other site 62977007216 putative DNA binding site [nucleotide binding]; other site 62977007217 putative Zn2+ binding site [ion binding]; other site 62977007218 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 62977007219 siroheme synthase; Provisional; Region: cysG; PRK10637 62977007220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007221 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 62977007222 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 62977007223 seryl-tRNA synthetase; Provisional; Region: PRK05431 62977007224 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 62977007225 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 62977007226 dimer interface [polypeptide binding]; other site 62977007227 active site 62977007228 motif 1; other site 62977007229 motif 2; other site 62977007230 motif 3; other site 62977007231 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 62977007232 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 62977007233 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 62977007234 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 62977007235 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 62977007236 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 62977007237 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 62977007238 substrate binding pocket [chemical binding]; other site 62977007239 chain length determination region; other site 62977007240 substrate-Mg2+ binding site; other site 62977007241 catalytic residues [active] 62977007242 aspartate-rich region 1; other site 62977007243 active site lid residues [active] 62977007244 aspartate-rich region 2; other site 62977007245 Site-specific recombinase; Region: SpecificRecomb; cl15411 62977007246 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 62977007247 active site 62977007248 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 62977007249 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 62977007250 Protein export membrane protein; Region: SecD_SecF; cl14618 62977007251 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 62977007252 Domain of unknown function (DUF74); Region: DUF74; cl00426 62977007253 Domain of unknown function (DUF74); Region: DUF74; cl00426 62977007254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007255 short chain dehydrogenase; Provisional; Region: PRK06181 62977007256 NAD(P) binding site [chemical binding]; other site 62977007257 active site 62977007258 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 62977007259 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 62977007260 HIGH motif; other site 62977007261 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 62977007262 active site 62977007263 KMSKS motif; other site 62977007264 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 62977007265 tRNA binding surface [nucleotide binding]; other site 62977007266 anticodon binding site; other site 62977007267 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 62977007268 chaperone protein DnaJ; Provisional; Region: PRK14294 62977007269 Membrane transport protein; Region: Mem_trans; cl09117 62977007270 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 62977007271 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 62977007272 active site 62977007273 sensor protein QseC; Provisional; Region: PRK10337 62977007274 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 62977007275 dimer interface [polypeptide binding]; other site 62977007276 phosphorylation site [posttranslational modification] 62977007277 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 62977007278 ATP binding site [chemical binding]; other site 62977007279 Mg2+ binding site [ion binding]; other site 62977007280 G-X-G motif; other site 62977007281 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 62977007282 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 62977007283 active site 62977007284 phosphorylation site [posttranslational modification] 62977007285 intermolecular recognition site; other site 62977007286 dimerization interface [polypeptide binding]; other site 62977007287 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 62977007288 DNA binding site [nucleotide binding] 62977007289 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 62977007290 AmpG-related permease; Region: 2A0125; TIGR00901 62977007291 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 62977007292 putative acyl-acceptor binding pocket; other site 62977007293 hypothetical protein; Provisional; Region: PRK10279 62977007294 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 62977007295 nucleophile elbow; other site 62977007296 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 62977007297 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 62977007298 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 62977007299 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 62977007300 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 62977007301 substrate binding pocket [chemical binding]; other site 62977007302 chain length determination region; other site 62977007303 substrate-Mg2+ binding site; other site 62977007304 catalytic residues [active] 62977007305 aspartate-rich region 1; other site 62977007306 active site lid residues [active] 62977007307 aspartate-rich region 2; other site 62977007308 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 62977007309 Amino acid permease; Region: AA_permease; cl00524 62977007310 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 62977007311 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 62977007312 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 62977007313 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 62977007314 active site 62977007315 phosphorylation site [posttranslational modification] 62977007316 intermolecular recognition site; other site 62977007317 dimerization interface [polypeptide binding]; other site 62977007318 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 62977007319 DNA binding site [nucleotide binding] 62977007320 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 62977007321 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 62977007322 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 62977007323 Ligand Binding Site [chemical binding]; other site 62977007324 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 62977007325 dimer interface [polypeptide binding]; other site 62977007326 phosphorylation site [posttranslational modification] 62977007327 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 62977007328 ATP binding site [chemical binding]; other site 62977007329 Mg2+ binding site [ion binding]; other site 62977007330 G-X-G motif; other site 62977007331 K+-transporting ATPase, c chain; Region: KdpC; cl00944 62977007332 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 62977007333 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 62977007334 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 62977007335 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 62977007336 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 62977007337 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 62977007338 putative DNA binding site [nucleotide binding]; other site 62977007339 putative Zn2+ binding site [ion binding]; other site 62977007340 Helix-turn-helix domains; Region: HTH; cl00088 62977007341 LysE type translocator; Region: LysE; cl00565 62977007342 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 62977007343 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 62977007344 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 62977007345 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 62977007346 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 62977007347 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 62977007348 Trp docking motif [polypeptide binding]; other site 62977007349 putative active site [active] 62977007350 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 62977007351 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 62977007352 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 62977007353 CoA-transferase family III; Region: CoA_transf_3; pfam02515 62977007354 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977007355 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977007356 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977007357 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 62977007358 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977007359 active site 62977007360 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 62977007361 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 62977007362 dimer interface [polypeptide binding]; other site 62977007363 active site 62977007364 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 62977007365 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 62977007366 substrate binding site [chemical binding]; other site 62977007367 oxyanion hole (OAH) forming residues; other site 62977007368 trimer interface [polypeptide binding]; other site 62977007369 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; cl12011 62977007370 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 62977007371 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 62977007372 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 62977007373 active site 62977007374 nucleophile elbow; other site 62977007375 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 62977007376 dimer interface [polypeptide binding]; other site 62977007377 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 62977007378 ligand binding site [chemical binding]; other site 62977007379 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977007380 Coenzyme A binding pocket [chemical binding]; other site 62977007381 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 62977007382 S-adenosylmethionine binding site [chemical binding]; other site 62977007383 Haemolysin-III related; Region: HlyIII; cl03831 62977007384 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 62977007385 metabolite-proton symporter; Region: 2A0106; TIGR00883 62977007386 putative substrate translocation pore; other site 62977007387 hypothetical protein; Provisional; Region: PRK06771 62977007388 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 62977007389 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 62977007390 putative active site [active] 62977007391 putative metal binding site [ion binding]; other site 62977007392 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 62977007393 putative active site [active] 62977007394 catalytic site [active] 62977007395 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 62977007396 putative active site [active] 62977007397 catalytic site [active] 62977007398 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 62977007399 putative acyl-acceptor binding pocket; other site 62977007400 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 62977007401 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 62977007402 G1 box; other site 62977007403 GTP/Mg2+ binding site [chemical binding]; other site 62977007404 Switch I region; other site 62977007405 G2 box; other site 62977007406 G3 box; other site 62977007407 Switch II region; other site 62977007408 G4 box; other site 62977007409 G5 box; other site 62977007410 LrgB-like family; Region: LrgB; cl00596 62977007411 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 62977007412 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 62977007413 active site 62977007414 metal binding site [ion binding]; metal-binding site 62977007415 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; cl12011 62977007416 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 62977007417 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 62977007418 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 62977007419 23S rRNA interface [nucleotide binding]; other site 62977007420 L3 interface [polypeptide binding]; other site 62977007421 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 62977007422 stringent starvation protein A; Provisional; Region: sspA; PRK09481 62977007423 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 62977007424 C-terminal domain interface [polypeptide binding]; other site 62977007425 putative GSH binding site (G-site) [chemical binding]; other site 62977007426 dimer interface [polypeptide binding]; other site 62977007427 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 62977007428 dimer interface [polypeptide binding]; other site 62977007429 N-terminal domain interface [polypeptide binding]; other site 62977007430 Stringent starvation protein B; Region: SspB; cl01120 62977007431 VacJ like lipoprotein; Region: VacJ; cl01073 62977007432 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 62977007433 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 62977007434 anti sigma factor interaction site; other site 62977007435 regulatory phosphorylation site [posttranslational modification]; other site 62977007436 Predicted amidohydrolase [General function prediction only]; Region: COG0388 62977007437 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 62977007438 putative active site [active] 62977007439 catalytic triad [active] 62977007440 dimer interface [polypeptide binding]; other site 62977007441 Transcriptional regulators [Transcription]; Region: MarR; COG1846 62977007442 Helix-turn-helix domains; Region: HTH; cl00088 62977007443 OsmC-like protein; Region: OsmC; cl00767 62977007444 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 62977007445 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 62977007446 Walker A motif; other site 62977007447 ATP binding site [chemical binding]; other site 62977007448 Walker B motif; other site 62977007449 Protein of unknown function (DUF432); Region: DUF432; cl01027 62977007450 Mechanosensitive ion channel; Region: MS_channel; pfam00924 62977007451 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 62977007452 DNA polymerase I; Provisional; Region: PRK05755 62977007453 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 62977007454 active site 62977007455 metal binding site 1 [ion binding]; metal-binding site 62977007456 putative 5' ssDNA interaction site; other site 62977007457 metal binding site 3; metal-binding site 62977007458 metal binding site 2 [ion binding]; metal-binding site 62977007459 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 62977007460 putative DNA binding site [nucleotide binding]; other site 62977007461 putative metal binding site [ion binding]; other site 62977007462 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 62977007463 active site 62977007464 catalytic site [active] 62977007465 substrate binding site [chemical binding]; other site 62977007466 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 62977007467 active site 62977007468 DNA binding site [nucleotide binding] 62977007469 catalytic site [active] 62977007470 YGGT family; Region: YGGT; cl00508 62977007471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007472 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 62977007473 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 62977007474 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 62977007475 Ligand Binding Site [chemical binding]; other site 62977007476 TilS substrate binding domain; Region: TilS; pfam09179 62977007477 B3/4 domain; Region: B3_4; cl11458 62977007478 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; cl14780 62977007479 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 62977007480 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 62977007481 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 62977007482 catalytic residues [active] 62977007483 transcription termination factor Rho; Provisional; Region: rho; PRK09376 62977007484 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 62977007485 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 62977007486 RNA binding site [nucleotide binding]; other site 62977007487 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 62977007488 multimer interface [polypeptide binding]; other site 62977007489 Walker A motif; other site 62977007490 ATP binding site [chemical binding]; other site 62977007491 Walker B motif; other site 62977007492 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 62977007493 IHF dimer interface [polypeptide binding]; other site 62977007494 IHF - DNA interface [nucleotide binding]; other site 62977007495 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 62977007496 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 62977007497 putative tRNA-binding site [nucleotide binding]; other site 62977007498 B3/4 domain; Region: B3_4; cl11458 62977007499 tRNA synthetase B5 domain; Region: B5; cl08394 62977007500 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 62977007501 dimer interface [polypeptide binding]; other site 62977007502 motif 1; other site 62977007503 motif 3; other site 62977007504 motif 2; other site 62977007505 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 62977007506 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 62977007507 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 62977007508 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 62977007509 dimer interface [polypeptide binding]; other site 62977007510 motif 1; other site 62977007511 active site 62977007512 motif 2; other site 62977007513 motif 3; other site 62977007514 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 62977007515 23S rRNA binding site [nucleotide binding]; other site 62977007516 L21 binding site [polypeptide binding]; other site 62977007517 L13 binding site [polypeptide binding]; other site 62977007518 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 62977007519 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 62977007520 putative substrate translocation pore; other site 62977007521 H+ Antiporter protein; Region: 2A0121; TIGR00900 62977007522 Gram-negative bacterial tonB protein; Region: TonB; cl10048 62977007523 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 62977007524 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 62977007525 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 62977007526 C-terminal domain interface [polypeptide binding]; other site 62977007527 GSH binding site (G-site) [chemical binding]; other site 62977007528 dimer interface [polypeptide binding]; other site 62977007529 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 62977007530 N-terminal domain interface [polypeptide binding]; other site 62977007531 putative dimer interface [polypeptide binding]; other site 62977007532 active site 62977007533 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 62977007534 putative dimer interface [polypeptide binding]; other site 62977007535 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 62977007536 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 62977007537 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 62977007538 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 62977007539 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 62977007540 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 62977007541 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 62977007542 active site 62977007543 dimer interface [polypeptide binding]; other site 62977007544 motif 1; other site 62977007545 motif 2; other site 62977007546 motif 3; other site 62977007547 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 62977007548 anticodon binding site; other site 62977007549 acyl-CoA synthetase; Validated; Region: PRK08162 62977007550 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977007551 Protein of unknown function (DUF615); Region: DUF615; cl01147 62977007552 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 62977007553 dimerization domain swap beta strand [polypeptide binding]; other site 62977007554 regulatory protein interface [polypeptide binding]; other site 62977007555 active site 62977007556 regulatory phosphorylation site [posttranslational modification]; other site 62977007557 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977007558 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 62977007559 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 62977007560 Pantoate-beta-alanine ligase; Region: PanC; cd00560 62977007561 active site 62977007562 ATP-binding site [chemical binding]; other site 62977007563 pantoate-binding site; other site 62977007564 HXXH motif; other site 62977007565 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 62977007566 active site 62977007567 oligomerization interface [polypeptide binding]; other site 62977007568 metal binding site [ion binding]; metal-binding site 62977007569 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 62977007570 catalytic center binding site [active] 62977007571 ATP binding site [chemical binding]; other site 62977007572 poly(A) polymerase; Region: pcnB; TIGR01942 62977007573 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 62977007574 active site 62977007575 NTP binding site [chemical binding]; other site 62977007576 metal binding triad [ion binding]; metal-binding site 62977007577 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 62977007578 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 62977007579 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 62977007580 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 62977007581 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 62977007582 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 62977007583 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 62977007584 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 62977007585 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007586 NAD(P) binding site [chemical binding]; other site 62977007587 active site 62977007588 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 62977007589 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 62977007590 synthetase active site [active] 62977007591 NTP binding site [chemical binding]; other site 62977007592 metal binding site [ion binding]; metal-binding site 62977007593 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 62977007594 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 62977007595 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 62977007596 TRAM domain; Region: TRAM; cl01282 62977007597 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 62977007598 S-adenosylmethionine binding site [chemical binding]; other site 62977007599 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 62977007600 active site 62977007601 catalytic site [active] 62977007602 substrate binding site [chemical binding]; other site 62977007603 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 62977007604 cysteine synthase B; Region: cysM; TIGR01138 62977007605 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 62977007606 dimer interface [polypeptide binding]; other site 62977007607 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977007608 catalytic residue [active] 62977007609 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 62977007610 dimer interface [polypeptide binding]; other site 62977007611 phosphorylation site [posttranslational modification] 62977007612 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 62977007613 ATP binding site [chemical binding]; other site 62977007614 Mg2+ binding site [ion binding]; other site 62977007615 G-X-G motif; other site 62977007616 Response regulator receiver domain; Region: Response_reg; pfam00072 62977007617 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 62977007618 active site 62977007619 phosphorylation site [posttranslational modification] 62977007620 intermolecular recognition site; other site 62977007621 dimerization interface [polypeptide binding]; other site 62977007622 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 62977007623 enoyl-CoA hydratase; Provisional; Region: PRK07509 62977007624 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 62977007625 substrate binding site [chemical binding]; other site 62977007626 oxyanion hole (OAH) forming residues; other site 62977007627 trimer interface [polypeptide binding]; other site 62977007628 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 62977007629 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007630 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 62977007631 Domain of unknown function DUF143; Region: DUF143; cl00519 62977007632 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 62977007633 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 62977007634 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 62977007635 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 62977007636 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 62977007637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007638 Predicted permeases [General function prediction only]; Region: RarD; COG2962 62977007639 EamA-like transporter family; Region: EamA; cl01037 62977007640 EamA-like transporter family; Region: EamA; cl01037 62977007641 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 62977007642 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 62977007643 DNA binding residues [nucleotide binding] 62977007644 dimer interface [polypeptide binding]; other site 62977007645 [2Fe-2S] cluster binding site [ion binding]; other site 62977007646 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 62977007647 homotrimer interaction site [polypeptide binding]; other site 62977007648 putative active site [active] 62977007649 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 62977007650 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 62977007651 putative substrate translocation pore; other site 62977007652 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 62977007653 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 62977007654 FMN binding site [chemical binding]; other site 62977007655 active site 62977007656 catalytic residues [active] 62977007657 substrate binding site [chemical binding]; other site 62977007658 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 62977007659 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 62977007660 putative ATP binding site [chemical binding]; other site 62977007661 putative substrate interface [chemical binding]; other site 62977007662 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 62977007663 homotrimer interaction site [polypeptide binding]; other site 62977007664 putative active site [active] 62977007665 aconitate hydratase; Validated; Region: PRK09277 62977007666 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 62977007667 substrate binding site [chemical binding]; other site 62977007668 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 62977007669 ligand binding site [chemical binding]; other site 62977007670 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 62977007671 substrate binding site [chemical binding]; other site 62977007672 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 62977007673 active site 62977007674 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 62977007675 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 62977007676 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 62977007677 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 62977007678 G1 box; other site 62977007679 putative GEF interaction site [polypeptide binding]; other site 62977007680 GTP/Mg2+ binding site [chemical binding]; other site 62977007681 Switch I region; other site 62977007682 G2 box; other site 62977007683 G3 box; other site 62977007684 Switch II region; other site 62977007685 G4 box; other site 62977007686 G5 box; other site 62977007687 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 62977007688 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 62977007689 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 62977007690 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 62977007691 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977007692 metal binding site [ion binding]; metal-binding site 62977007693 active site 62977007694 I-site; other site 62977007695 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 62977007696 ketol-acid reductoisomerase; Provisional; Region: PRK05479 62977007697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007698 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 62977007699 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 62977007700 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 62977007701 putative valine binding site [chemical binding]; other site 62977007702 dimer interface [polypeptide binding]; other site 62977007703 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 62977007704 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 62977007705 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 62977007706 PYR/PP interface [polypeptide binding]; other site 62977007707 dimer interface [polypeptide binding]; other site 62977007708 TPP binding site [chemical binding]; other site 62977007709 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 62977007710 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 62977007711 TPP-binding site [chemical binding]; other site 62977007712 dimer interface [polypeptide binding]; other site 62977007713 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 62977007714 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 62977007715 HIGH motif; other site 62977007716 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977007717 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 62977007718 active site 62977007719 KMSKS motif; other site 62977007720 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 62977007721 tRNA binding surface [nucleotide binding]; other site 62977007722 Lipopolysaccharide-assembly; Region: LptE; cl01125 62977007723 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 62977007724 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 62977007725 macrolide transporter subunit MacA; Provisional; Region: PRK11578 62977007726 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 62977007727 lipoyl-biotinyl attachment site [posttranslational modification]; other site 62977007728 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 62977007729 macrolide transporter subunit MacA; Provisional; Region: PRK11578 62977007730 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 62977007731 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 62977007732 Walker A/P-loop; other site 62977007733 ATP binding site [chemical binding]; other site 62977007734 Q-loop/lid; other site 62977007735 ABC transporter signature motif; other site 62977007736 Walker B; other site 62977007737 D-loop; other site 62977007738 H-loop/switch region; other site 62977007739 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 62977007740 FtsX-like permease family; Region: FtsX; pfam02687 62977007741 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 62977007742 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 62977007743 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 62977007744 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 62977007745 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 62977007746 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 62977007747 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 62977007748 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 62977007749 NAD binding site [chemical binding]; other site 62977007750 homotetramer interface [polypeptide binding]; other site 62977007751 homodimer interface [polypeptide binding]; other site 62977007752 substrate binding site [chemical binding]; other site 62977007753 active site 62977007754 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 62977007755 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 62977007756 putative active site [active] 62977007757 putative substrate binding site [chemical binding]; other site 62977007758 catalytic site [active] 62977007759 dimer interface [polypeptide binding]; other site 62977007760 GTPase RsgA; Reviewed; Region: PRK00098 62977007761 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 62977007762 GTPase/OB domain interface [polypeptide binding]; other site 62977007763 GTPase/Zn-binding domain interface [polypeptide binding]; other site 62977007764 GTP/Mg2+ binding site [chemical binding]; other site 62977007765 G4 box; other site 62977007766 G5 box; other site 62977007767 G1 box; other site 62977007768 Switch I region; other site 62977007769 G2 box; other site 62977007770 G3 box; other site 62977007771 Switch II region; other site 62977007772 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 62977007773 active site residue [active] 62977007774 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 62977007775 GSH binding site [chemical binding]; other site 62977007776 catalytic residues [active] 62977007777 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 62977007778 SecA binding site; other site 62977007779 Preprotein binding site; other site 62977007780 Cytochrome b562; Region: Cytochrom_B562; cl01546 62977007781 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 62977007782 Flavoprotein; Region: Flavoprotein; cl08021 62977007783 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 62977007784 hypothetical protein; Reviewed; Region: PRK00024 62977007785 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 62977007786 MPN+ (JAMM) motif; other site 62977007787 Zinc-binding site [ion binding]; other site 62977007788 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 62977007789 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 62977007790 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 62977007791 active site 62977007792 catalytic tetrad [active] 62977007793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977007794 Helix-turn-helix domains; Region: HTH; cl00088 62977007795 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 62977007796 putative effector binding pocket; other site 62977007797 dimerization interface [polypeptide binding]; other site 62977007798 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 62977007799 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 62977007800 putative C-terminal domain interface [polypeptide binding]; other site 62977007801 putative GSH binding site (G-site) [chemical binding]; other site 62977007802 putative dimer interface [polypeptide binding]; other site 62977007803 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 62977007804 putative N-terminal domain interface [polypeptide binding]; other site 62977007805 putative dimer interface [polypeptide binding]; other site 62977007806 putative substrate binding pocket (H-site) [chemical binding]; other site 62977007807 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 62977007808 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 62977007809 Intracellular septation protein A; Region: IspA; cl01098 62977007810 YCII-related domain; Region: YCII; cl00999 62977007811 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; cl12011 62977007812 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 62977007813 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 62977007814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007815 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 62977007816 active site residue [active] 62977007817 Protein of unknown function (DUF520); Region: DUF520; cl00723 62977007818 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 62977007819 CoenzymeA binding site [chemical binding]; other site 62977007820 subunit interaction site [polypeptide binding]; other site 62977007821 PHB binding site; other site 62977007822 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 62977007823 thioredoxin 2; Provisional; Region: PRK10996 62977007824 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 62977007825 catalytic residues [active] 62977007826 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977007827 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977007828 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 62977007829 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 62977007830 Bacterial Ig-like domain (group 1); Region: Big_1; cl10510 62977007831 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 62977007832 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977007833 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 62977007834 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 62977007835 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 62977007836 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 62977007837 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 62977007838 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; cl12011 62977007839 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 62977007840 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 62977007841 malate dehydrogenase; Provisional; Region: PRK05442 62977007842 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 62977007843 NAD(P) binding site [chemical binding]; other site 62977007844 dimer interface [polypeptide binding]; other site 62977007845 malate binding site [chemical binding]; other site 62977007846 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 62977007847 B1 nucleotide binding pocket [chemical binding]; other site 62977007848 B2 nucleotide binding pocket [chemical binding]; other site 62977007849 CAS motifs; other site 62977007850 active site 62977007851 lytic murein transglycosylase; Provisional; Region: PRK11619 62977007852 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977007853 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977007854 catalytic residue [active] 62977007855 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 62977007856 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 62977007857 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 62977007858 FeS/SAM binding site; other site 62977007859 TRAM domain; Region: TRAM; cl01282 62977007860 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 62977007861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977007862 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 62977007863 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 62977007864 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 62977007865 N-terminal plug; other site 62977007866 ligand-binding site [chemical binding]; other site 62977007867 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 62977007868 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977007869 LysE type translocator; Region: LysE; cl00565 62977007870 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977007871 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 62977007872 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 62977007873 Helix-turn-helix domains; Region: HTH; cl00088 62977007874 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 62977007875 putative dimerization interface [polypeptide binding]; other site 62977007876 putative substrate binding pocket [chemical binding]; other site 62977007877 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 62977007878 putative substrate translocation pore; other site 62977007879 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 62977007880 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 62977007881 GAF domain; Region: GAF; cl00853 62977007882 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 62977007883 dimer interface [polypeptide binding]; other site 62977007884 phosphorylation site [posttranslational modification] 62977007885 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 62977007886 ATP binding site [chemical binding]; other site 62977007887 Mg2+ binding site [ion binding]; other site 62977007888 G-X-G motif; other site 62977007889 ribonuclease R; Region: RNase_R; TIGR02063 62977007890 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 62977007891 RNB domain; Region: RNB; pfam00773 62977007892 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 play an important...; Region: S1_RNase_R; cd04471 62977007893 RNA binding site [nucleotide binding]; other site 62977007894 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 62977007895 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 62977007896 active site 62977007897 Zn binding site [ion binding]; other site 62977007898 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 62977007899 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 62977007900 Rhomboid family; Region: Rhomboid; cl11446 62977007901 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 62977007902 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 62977007903 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977007904 active site 62977007905 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 62977007906 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 62977007907 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 62977007908 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 62977007909 alphaNTD homodimer interface [polypeptide binding]; other site 62977007910 alphaNTD - beta interaction site [polypeptide binding]; other site 62977007911 alphaNTD - beta' interaction site [polypeptide binding]; other site 62977007912 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 62977007913 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 62977007914 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 62977007915 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 62977007916 RNA binding surface [nucleotide binding]; other site 62977007917 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 62977007918 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 62977007919 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 62977007920 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 62977007921 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 62977007922 SecY translocase; Region: SecY; pfam00344 62977007923 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 62977007924 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 62977007925 23S rRNA binding site [nucleotide binding]; other site 62977007926 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 62977007927 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 62977007928 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 62977007929 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 62977007930 5S rRNA interface [nucleotide binding]; other site 62977007931 23S rRNA interface [nucleotide binding]; other site 62977007932 L5 interface [polypeptide binding]; other site 62977007933 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 62977007934 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 62977007935 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 62977007936 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 62977007937 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 62977007938 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 62977007939 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 62977007940 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 62977007941 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 62977007942 KOW motif; Region: KOW; cl00354 62977007943 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 62977007944 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 62977007945 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 62977007946 putative translocon interaction site; other site 62977007947 23S rRNA interface [nucleotide binding]; other site 62977007948 signal recognition particle (SRP54) interaction site; other site 62977007949 L23 interface [polypeptide binding]; other site 62977007950 trigger factor interaction site; other site 62977007951 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 62977007952 23S rRNA interface [nucleotide binding]; other site 62977007953 5S rRNA interface [nucleotide binding]; other site 62977007954 putative antibiotic binding site [chemical binding]; other site 62977007955 L25 interface [polypeptide binding]; other site 62977007956 L27 interface [polypeptide binding]; other site 62977007957 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 62977007958 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 62977007959 G-X-X-G motif; other site 62977007960 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 62977007961 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 62977007962 putative translocon binding site; other site 62977007963 protein-rRNA interface [nucleotide binding]; other site 62977007964 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 62977007965 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 62977007966 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 62977007967 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 62977007968 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 62977007969 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 62977007970 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 62977007971 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 62977007972 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 62977007973 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 62977007974 catalytic triad [active] 62977007975 cystathionine beta-lyase; Provisional; Region: PRK07050 62977007976 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 62977007977 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977007978 catalytic residue [active] 62977007979 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 62977007980 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977007981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977007982 Helix-turn-helix domains; Region: HTH; cl00088 62977007983 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 62977007984 dimerization interface [polypeptide binding]; other site 62977007985 substrate binding pocket [chemical binding]; other site 62977007986 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 62977007987 heme-binding site [chemical binding]; other site 62977007988 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 62977007989 FAD binding pocket [chemical binding]; other site 62977007990 conserved FAD binding motif [chemical binding]; other site 62977007991 phosphate binding motif [ion binding]; other site 62977007992 Helix-turn-helix domains; Region: HTH; cl00088 62977007993 Rrf2 family protein; Region: rrf2_super; TIGR00738 62977007994 Predicted GTPase [General function prediction only]; Region: COG0218 62977007995 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 62977007996 G1 box; other site 62977007997 GTP/Mg2+ binding site [chemical binding]; other site 62977007998 Switch I region; other site 62977007999 G2 box; other site 62977008000 G3 box; other site 62977008001 Switch II region; other site 62977008002 G4 box; other site 62977008003 G5 box; other site 62977008004 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977008005 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977008006 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 62977008007 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 62977008008 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 62977008009 active site 62977008010 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 62977008011 catalytic triad [active] 62977008012 dimer interface [polypeptide binding]; other site 62977008013 Glycerol-3-phosphate O-acyltransferase [Lipid metabolism]; Region: PlsB; COG2937 62977008014 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 62977008015 putative acyl-acceptor binding pocket; other site 62977008016 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; cl15306 62977008017 membrane-bound complex binding site; other site 62977008018 hinge residues; other site 62977008019 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 62977008020 putative NAD(P) binding site [chemical binding]; other site 62977008021 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 62977008022 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 62977008023 ssDNA binding site; other site 62977008024 generic binding surface II; other site 62977008025 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 62977008026 ATP binding site [chemical binding]; other site 62977008027 putative Mg++ binding site [ion binding]; other site 62977008028 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 62977008029 nucleotide binding region [chemical binding]; other site 62977008030 ATP-binding site [chemical binding]; other site 62977008031 comF family protein; Region: comF; TIGR00201 62977008032 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977008033 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_31; cd04690 62977008034 nudix motif; other site 62977008035 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 62977008036 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 62977008037 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 62977008038 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 62977008039 anti sigma factor interaction site; other site 62977008040 regulatory phosphorylation site [posttranslational modification]; other site 62977008041 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 62977008042 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 62977008043 mce related protein; Region: MCE; cl15431 62977008044 Domain of unknown function DUF140; Region: DUF140; cl00510 62977008045 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 62977008046 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 62977008047 Walker A/P-loop; other site 62977008048 ATP binding site [chemical binding]; other site 62977008049 Q-loop/lid; other site 62977008050 ABC transporter signature motif; other site 62977008051 Walker B; other site 62977008052 D-loop; other site 62977008053 H-loop/switch region; other site 62977008054 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 62977008055 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 62977008056 ATP binding site [chemical binding]; other site 62977008057 Mg++ binding site [ion binding]; other site 62977008058 motif III; other site 62977008059 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 62977008060 nucleotide binding region [chemical binding]; other site 62977008061 ATP-binding site [chemical binding]; other site 62977008062 Invertebrate innate immunity transcript family; Region: Innate_immun; pfam12782 62977008063 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 62977008064 active site 62977008065 dimerization interface [polypeptide binding]; other site 62977008066 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 62977008067 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 62977008068 TPP-binding site; other site 62977008069 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 62977008070 PYR/PP interface [polypeptide binding]; other site 62977008071 dimer interface [polypeptide binding]; other site 62977008072 TPP binding site [chemical binding]; other site 62977008073 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 62977008074 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 62977008075 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 62977008076 dimerization interface [polypeptide binding]; other site 62977008077 active site 62977008078 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 62977008079 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977008080 ferrochelatase; Reviewed; Region: hemH; PRK00035 62977008081 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 62977008082 C-terminal domain interface [polypeptide binding]; other site 62977008083 active site 62977008084 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 62977008085 active site 62977008086 N-terminal domain interface [polypeptide binding]; other site 62977008087 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 62977008088 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 62977008089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008090 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 62977008091 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 62977008092 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 62977008093 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 62977008094 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977008095 active site 62977008096 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 62977008097 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 62977008098 PspC domain; Region: PspC; cl00864 62977008099 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 62977008100 HPP family; Region: HPP; pfam04982 62977008101 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 62977008102 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 62977008103 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 62977008104 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977008105 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 62977008106 dimer interface [polypeptide binding]; other site 62977008107 motif 1; other site 62977008108 active site 62977008109 motif 2; other site 62977008110 motif 3; other site 62977008111 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 62977008112 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 62977008113 YCII-related domain; Region: YCII; cl00999 62977008114 EamA-like transporter family; Region: EamA; cl01037 62977008115 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 62977008116 EamA-like transporter family; Region: EamA; cl01037 62977008117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977008118 Helix-turn-helix domains; Region: HTH; cl00088 62977008119 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 62977008120 dimerization interface [polypeptide binding]; other site 62977008121 Late embryogenesis abundant protein; Region: LEA_4; pfam02987 62977008122 glycerate dehydrogenase; Provisional; Region: PRK06487 62977008123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008124 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 62977008125 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 62977008126 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 62977008127 active site 62977008128 catalytic tetrad [active] 62977008129 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 62977008130 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 62977008131 S-adenosylmethionine binding site [chemical binding]; other site 62977008132 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 62977008133 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 62977008134 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 62977008135 P-loop; other site 62977008136 Magnesium ion binding site [ion binding]; other site 62977008137 Domain of unknown function DUF20; Region: UPF0118; cl00465 62977008138 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 62977008139 NAD binding site [chemical binding]; other site 62977008140 substrate binding site [chemical binding]; other site 62977008141 putative active site [active] 62977008142 hypothetical membrane protein, TIGR01666; Region: YCCS 62977008143 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 62977008144 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 62977008145 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 62977008146 putative substrate translocation pore; other site 62977008147 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977008148 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 62977008149 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 62977008150 active site 62977008151 Zn binding site [ion binding]; other site 62977008152 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 62977008153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008154 NAD(P) binding site [chemical binding]; other site 62977008155 active site 62977008156 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 62977008157 FAD binding domain; Region: FAD_binding_4; pfam01565 62977008158 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 62977008159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008160 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 62977008161 L-serine binding site [chemical binding]; other site 62977008162 ACT domain interface; other site 62977008163 threonine and homoserine efflux system; Provisional; Region: PRK10532 62977008164 EamA-like transporter family; Region: EamA; cl01037 62977008165 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 62977008166 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 62977008167 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 62977008168 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 62977008169 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 62977008170 RNA binding site [nucleotide binding]; other site 62977008171 active site 62977008172 lipase chaperone; Provisional; Region: PRK01294 62977008173 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 62977008174 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 62977008175 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 62977008176 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 62977008177 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 62977008178 RimM N-terminal domain; Region: RimM; pfam01782 62977008179 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; cl09959 62977008180 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 62977008181 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 62977008182 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 62977008183 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 62977008184 Neisseria PilC protein; Region: Neisseria_PilC; pfam05567 62977008185 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 62977008186 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 62977008187 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 62977008188 Type II transport protein GspH; Region: GspH; pfam12019 62977008189 LytB protein; Region: LYTB; cl00507 62977008190 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 62977008191 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 62977008192 catalytic site [active] 62977008193 G-X2-G-X-G-K; other site 62977008194 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 62977008195 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 62977008196 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 62977008197 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 62977008198 synthetase active site [active] 62977008199 NTP binding site [chemical binding]; other site 62977008200 metal binding site [ion binding]; metal-binding site 62977008201 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 62977008202 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 62977008203 homotrimer interaction site [polypeptide binding]; other site 62977008204 putative active site [active] 62977008205 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 62977008206 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 62977008207 heme binding site [chemical binding]; other site 62977008208 Ferritin-like domain; Region: Ferritin; pfam00210 62977008209 ferroxidase pore; other site 62977008210 ferroxidase diiron center [ion binding]; other site 62977008211 Spore Coat Protein U domain; Region: SCPU; cl02253 62977008212 Spore Coat Protein U domain; Region: SCPU; cl02253 62977008213 Spore Coat Protein U domain; Region: SCPU; cl02253 62977008214 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 62977008215 Fimbrial Usher protein; Region: Usher; cl14650 62977008216 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; cl15716 62977008217 Spore Coat Protein U domain; Region: SCPU; cl02253 62977008218 O-Antigen ligase; Region: Wzy_C; cl04850 62977008219 Pilin (bacterial filament); Region: Pilin; pfam00114 62977008220 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 62977008221 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 62977008222 NAD binding site [chemical binding]; other site 62977008223 substrate binding site [chemical binding]; other site 62977008224 catalytic Zn binding site [ion binding]; other site 62977008225 tetramer interface [polypeptide binding]; other site 62977008226 structural Zn binding site [ion binding]; other site 62977008227 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 62977008228 active site 62977008229 catalytic triad [active] 62977008230 dimer interface [polypeptide binding]; other site 62977008231 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 62977008232 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 62977008233 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 62977008234 catalytic residue [active] 62977008235 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 62977008236 biotin carboxylase-like protein; Validated; Region: PRK06524 62977008237 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 62977008238 active site 62977008239 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 62977008240 Domain of unknown function (DUF477); Region: DUF477; cl01535 62977008241 Domain of unknown function (DUF477); Region: DUF477; cl01535 62977008242 LemA family; Region: LemA; cl00742 62977008243 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 62977008244 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 62977008245 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 62977008246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008248 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 62977008249 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 62977008250 active site 62977008251 dimer interface [polypeptide binding]; other site 62977008252 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 62977008253 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 62977008254 active site 62977008255 FMN binding site [chemical binding]; other site 62977008256 substrate binding site [chemical binding]; other site 62977008257 3Fe-4S cluster binding site [ion binding]; other site 62977008258 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 62977008259 domain interface; other site 62977008260 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 62977008261 active site 62977008262 dimer interface [polypeptide binding]; other site 62977008263 metal binding site [ion binding]; metal-binding site 62977008264 shikimate kinase; Reviewed; Region: aroK; PRK00131 62977008265 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 62977008266 ADP binding site [chemical binding]; other site 62977008267 magnesium binding site [ion binding]; other site 62977008268 putative shikimate binding site; other site 62977008269 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 62977008270 Secretin and TonB N terminus short domain; Region: STN; cl06624 62977008271 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 62977008272 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 62977008273 Pilus assembly protein, PilP; Region: PilP; cl01235 62977008274 Pilus assembly protein, PilO; Region: PilO; cl01234 62977008275 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 62977008276 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 62977008277 Competence protein A; Region: Competence_A; pfam11104 62977008278 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 62977008279 Transglycosylase; Region: Transgly; cl07896 62977008280 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977008281 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 62977008282 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 62977008283 S-adenosylmethionine binding site [chemical binding]; other site 62977008284 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 62977008285 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 62977008286 Mg++ binding site [ion binding]; other site 62977008287 putative catalytic motif [active] 62977008288 putative substrate binding site [chemical binding]; other site 62977008289 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 62977008290 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 62977008291 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977008292 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977008293 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 62977008294 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977008295 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977008296 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 62977008297 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 62977008298 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977008299 Septum formation initiator; Region: DivIC; cl11433 62977008300 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; cl12011 62977008301 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 62977008302 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 62977008303 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 62977008304 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 62977008305 active site 62977008306 HIGH motif; other site 62977008307 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 62977008308 active site 62977008309 KMSKS motif; other site 62977008310 Cation efflux family; Region: Cation_efflux; cl00316 62977008311 heavy metal efflux pump (cobalt-zinc-cadmium); Region: 2A0601; TIGR00914 62977008312 pyruvate carboxylase; Reviewed; Region: PRK12999 62977008313 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 62977008314 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 62977008315 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 62977008316 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977008317 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977008318 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977008319 ABC transporter; Region: ABC_tran_2; pfam12848 62977008320 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 62977008321 pyruvate dehydrogenase; Provisional; Region: PRK09124 62977008322 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 62977008323 PYR/PP interface [polypeptide binding]; other site 62977008324 tetramer interface [polypeptide binding]; other site 62977008325 dimer interface [polypeptide binding]; other site 62977008326 TPP binding site [chemical binding]; other site 62977008327 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 62977008328 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 62977008329 TPP-binding site [chemical binding]; other site 62977008330 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 62977008331 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 62977008332 homodimer interface [polypeptide binding]; other site 62977008333 substrate-cofactor binding pocket; other site 62977008334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977008335 catalytic residue [active] 62977008336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 62977008337 classical (c) SDRs; Region: SDR_c; cd05233 62977008338 NAD(P) binding site [chemical binding]; other site 62977008339 active site 62977008340 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 62977008341 Permease family; Region: Xan_ur_permease; cl00967 62977008342 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_cladeC; cd03378 62977008343 active site clefts [active] 62977008344 zinc binding site [ion binding]; other site 62977008345 dimer interface [polypeptide binding]; other site 62977008346 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 62977008347 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 62977008348 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 62977008349 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 62977008350 RNA binding site [nucleotide binding]; other site 62977008351 osmolarity response regulator; Provisional; Region: ompR; PRK09468 62977008352 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 62977008353 active site 62977008354 phosphorylation site [posttranslational modification] 62977008355 intermolecular recognition site; other site 62977008356 dimerization interface [polypeptide binding]; other site 62977008357 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 62977008358 DNA binding site [nucleotide binding] 62977008359 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 62977008360 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 62977008361 dimer interface [polypeptide binding]; other site 62977008362 phosphorylation site [posttranslational modification] 62977008363 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 62977008364 ATP binding site [chemical binding]; other site 62977008365 Mg2+ binding site [ion binding]; other site 62977008366 G-X-G motif; other site 62977008367 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977008368 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 62977008369 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 62977008370 putative acetyltransferase; Provisional; Region: PRK03624 62977008371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977008372 Coenzyme A binding pocket [chemical binding]; other site 62977008373 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 62977008374 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 62977008375 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 62977008376 S-adenosylmethionine binding site [chemical binding]; other site 62977008377 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977008378 Coenzyme A binding pocket [chemical binding]; other site 62977008379 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 62977008380 putative active site pocket [active] 62977008381 4-fold oligomerization interface [polypeptide binding]; other site 62977008382 metal binding residues [ion binding]; metal-binding site 62977008383 3-fold/trimer interface [polypeptide binding]; other site 62977008384 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 62977008385 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 62977008386 putative active site [active] 62977008387 oxyanion strand; other site 62977008388 catalytic triad [active] 62977008389 Protein of unknown function (DUF805); Region: DUF805; cl01224 62977008390 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 62977008391 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 62977008392 catalytic residues [active] 62977008393 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977008394 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 62977008395 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 62977008396 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 62977008397 putative trimer interface [polypeptide binding]; other site 62977008398 putative CoA binding site [chemical binding]; other site 62977008399 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 62977008400 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 62977008401 putative CoA binding site [chemical binding]; other site 62977008402 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 62977008403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977008404 Walker A/P-loop; other site 62977008405 ATP binding site [chemical binding]; other site 62977008406 Q-loop/lid; other site 62977008407 ABC transporter signature motif; other site 62977008408 Walker B; other site 62977008409 D-loop; other site 62977008410 H-loop/switch region; other site 62977008411 Predicted membrane protein [Function unknown]; Region: COG3671 62977008412 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 62977008413 DNA-binding site [nucleotide binding]; DNA binding site 62977008414 RNA-binding motif; other site 62977008415 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 62977008416 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 62977008417 Phosphotransferase enzyme family; Region: APH; pfam01636 62977008418 putative active site [active] 62977008419 putative substrate binding site [chemical binding]; other site 62977008420 ATP binding site [chemical binding]; other site 62977008421 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 62977008422 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 62977008423 substrate binding site [chemical binding]; other site 62977008424 glutamase interaction surface [polypeptide binding]; other site 62977008425 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 62977008426 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 62977008427 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 62977008428 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 62977008429 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 62977008430 active site 62977008431 substrate binding site [chemical binding]; other site 62977008432 Mg2+ binding site [ion binding]; other site 62977008433 Amino acid permease; Region: AA_permease; cl00524 62977008434 integrase; Provisional; Region: PRK09692 62977008435 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 62977008436 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 62977008437 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 62977008438 Protein export membrane protein; Region: SecD_SecF; cl14618 62977008439 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 62977008440 Protein export membrane protein; Region: SecD_SecF; cl14618 62977008441 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 62977008442 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 62977008443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 62977008444 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 62977008445 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 62977008446 Domain of unknown function (DUF955); Region: DUF955; cl01076 62977008447 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 62977008448 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 62977008449 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 62977008450 ATP binding site [chemical binding]; other site 62977008451 putative Mg++ binding site [ion binding]; other site 62977008452 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 62977008453 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 62977008454 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 62977008455 HsdM N-terminal domain; Region: HsdM_N; pfam12161 62977008456 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 62977008457 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 62977008458 Protein of unknown function DUF262; Region: DUF262; cl14890 62977008459 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 62977008460 GIY-YIG motif/motif A; other site 62977008461 putative active site [active] 62977008462 putative metal binding site [ion binding]; other site 62977008463 Protein of unknown function (DUF805); Region: DUF805; cl01224 62977008464 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 62977008465 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 62977008466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008467 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 62977008468 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 62977008469 S-adenosylmethionine binding site [chemical binding]; other site 62977008470 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 62977008471 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008472 Pirin-related protein [General function prediction only]; Region: COG1741 62977008473 Cupin domain; Region: Cupin_2; cl09118 62977008474 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 62977008475 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977008476 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 62977008477 tetramerization interface [polypeptide binding]; other site 62977008478 NAD(P) binding site [chemical binding]; other site 62977008479 catalytic residues [active] 62977008480 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 62977008481 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 62977008482 inhibitor-cofactor binding pocket; inhibition site 62977008483 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977008484 catalytic residue [active] 62977008485 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 62977008486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977008487 DNA-binding site [nucleotide binding]; DNA binding site 62977008488 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 62977008489 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977008490 homodimer interface [polypeptide binding]; other site 62977008491 catalytic residue [active] 62977008492 Amino acid permease; Region: AA_permease; cl00524 62977008493 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 62977008494 dimer interface [polypeptide binding]; other site 62977008495 ssDNA binding site [nucleotide binding]; other site 62977008496 tetramer (dimer of dimers) interface [polypeptide binding]; other site 62977008497 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 62977008498 Integral membrane protein TerC family; Region: TerC; cl10468 62977008499 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 62977008500 GlpM protein; Region: GlpM; cl01212 62977008501 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 62977008502 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 62977008503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 62977008504 Q-loop/lid; other site 62977008505 ABC transporter signature motif; other site 62977008506 Walker B; other site 62977008507 D-loop; other site 62977008508 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 62977008509 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977008510 metal binding site [ion binding]; metal-binding site 62977008511 active site 62977008512 I-site; other site 62977008513 BCCT family transporter; Region: BCCT; cl00569 62977008514 Sodium:solute symporter family; Region: SSF; cl00456 62977008515 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 62977008516 Protein of unknown function, DUF485; Region: DUF485; cl01231 62977008517 Sodium:solute symporter family; Region: SSF; cl00456 62977008518 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 62977008519 PAS fold; Region: PAS_7; pfam12860 62977008520 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 62977008521 dimer interface [polypeptide binding]; other site 62977008522 phosphorylation site [posttranslational modification] 62977008523 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 62977008524 ATP binding site [chemical binding]; other site 62977008525 Mg2+ binding site [ion binding]; other site 62977008526 G-X-G motif; other site 62977008527 Response regulator receiver domain; Region: Response_reg; pfam00072 62977008528 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 62977008529 active site 62977008530 phosphorylation site [posttranslational modification] 62977008531 intermolecular recognition site; other site 62977008532 dimerization interface [polypeptide binding]; other site 62977008533 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 62977008534 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 62977008535 active site 62977008536 phosphorylation site [posttranslational modification] 62977008537 intermolecular recognition site; other site 62977008538 dimerization interface [polypeptide binding]; other site 62977008539 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 62977008540 DNA binding residues [nucleotide binding] 62977008541 dimerization interface [polypeptide binding]; other site 62977008542 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 62977008543 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 62977008544 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 62977008545 active site 62977008546 dimer interface [polypeptide binding]; other site 62977008547 non-prolyl cis peptide bond; other site 62977008548 insertion regions; other site 62977008549 Helix-turn-helix domains; Region: HTH; cl00088 62977008550 Isochorismatase family; Region: Isochorismatase; pfam00857 62977008551 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 62977008552 catalytic triad [active] 62977008553 conserved cis-peptide bond; other site 62977008554 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 62977008555 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 62977008556 active site 62977008557 acetyl-CoA synthetase; Provisional; Region: PRK00174 62977008558 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 62977008559 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 62977008560 Protein of unknown function (DUF805); Region: DUF805; cl01224 62977008561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 62977008562 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 62977008563 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 62977008564 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 62977008565 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 62977008566 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 62977008567 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 62977008568 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 62977008569 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 62977008570 substrate binding pocket [chemical binding]; other site 62977008571 membrane-bound complex binding site; other site 62977008572 hinge residues; other site 62977008573 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 62977008574 intersubunit interface [polypeptide binding]; other site 62977008575 active site 62977008576 Zn2+ binding site [ion binding]; other site 62977008577 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 62977008578 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 62977008579 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 62977008580 substrate binding pocket [chemical binding]; other site 62977008581 membrane-bound complex binding site; other site 62977008582 hinge residues; other site 62977008583 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 62977008584 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 62977008585 dimer interface [polypeptide binding]; other site 62977008586 conserved gate region; other site 62977008587 putative PBP binding loops; other site 62977008588 ABC-ATPase subunit interface; other site 62977008589 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 62977008590 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 62977008591 Walker A/P-loop; other site 62977008592 ATP binding site [chemical binding]; other site 62977008593 Q-loop/lid; other site 62977008594 ABC transporter signature motif; other site 62977008595 Walker B; other site 62977008596 D-loop; other site 62977008597 H-loop/switch region; other site 62977008598 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 62977008599 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 62977008600 metal binding site [ion binding]; metal-binding site 62977008601 putative dimer interface [polypeptide binding]; other site 62977008602 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977008603 Helix-turn-helix domains; Region: HTH; cl00088 62977008604 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 62977008605 putative substrate binding pocket [chemical binding]; other site 62977008606 dimerization interface [polypeptide binding]; other site 62977008607 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 62977008608 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 62977008609 homotrimer interaction site [polypeptide binding]; other site 62977008610 putative active site [active] 62977008611 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 62977008612 FMN binding site [chemical binding]; other site 62977008613 active site 62977008614 substrate binding site [chemical binding]; other site 62977008615 catalytic residue [active] 62977008616 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 62977008617 dimerization interface [polypeptide binding]; other site 62977008618 putative DNA binding site [nucleotide binding]; other site 62977008619 putative Zn2+ binding site [ion binding]; other site 62977008620 peptide chain release factor 2; Provisional; Region: PRK08787 62977008621 RF-1 domain; Region: RF-1; cl02875 62977008622 RF-1 domain; Region: RF-1; cl02875 62977008623 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 62977008624 DHH family; Region: DHH; pfam01368 62977008625 DHHA1 domain; Region: DHHA1; pfam02272 62977008626 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 62977008627 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 62977008628 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 62977008629 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 62977008630 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 62977008631 active site 62977008632 substrate binding site [chemical binding]; other site 62977008633 metal binding site [ion binding]; metal-binding site 62977008634 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 62977008635 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 62977008636 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 62977008637 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 62977008638 active site 62977008639 Domain of unknown function DUF20; Region: UPF0118; cl00465 62977008640 Predicted membrane protein [Function unknown]; Region: COG2119 62977008641 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 62977008642 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 62977008643 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 62977008644 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 62977008645 E3 interaction surface; other site 62977008646 lipoyl attachment site [posttranslational modification]; other site 62977008647 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 62977008648 E3 interaction surface; other site 62977008649 lipoyl attachment site [posttranslational modification]; other site 62977008650 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 62977008651 E3 interaction surface; other site 62977008652 lipoyl attachment site [posttranslational modification]; other site 62977008653 e3 binding domain; Region: E3_binding; pfam02817 62977008654 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 62977008655 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 62977008656 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 62977008657 dimer interface [polypeptide binding]; other site 62977008658 TPP-binding site [chemical binding]; other site 62977008659 Peptidase family M23; Region: Peptidase_M23; pfam01551 62977008660 Protein of unknown function (DUF721); Region: DUF721; cl02324 62977008661 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 62977008662 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 62977008663 cell division protein FtsZ; Validated; Region: PRK09330 62977008664 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 62977008665 nucleotide binding site [chemical binding]; other site 62977008666 SulA interaction site; other site 62977008667 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 62977008668 Cell division protein FtsA; Region: FtsA; cl11496 62977008669 Cell division protein FtsA; Region: FtsA; cl11496 62977008670 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 62977008671 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 62977008672 Cell division protein FtsQ; Region: FtsQ; pfam03799 62977008673 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 62977008674 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 62977008675 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977008676 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 62977008677 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 62977008678 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977008679 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977008680 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 62977008681 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 62977008682 active site 62977008683 homodimer interface [polypeptide binding]; other site 62977008684 glutathione synthetase; Provisional; Region: PRK05246 62977008685 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 62977008686 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977008687 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 62977008688 Flavin Reductases; Region: FlaRed; cl00801 62977008689 methionine synthase; Provisional; Region: PRK01207 62977008690 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 62977008691 substrate binding site [chemical binding]; other site 62977008692 THF binding site; other site 62977008693 zinc-binding site [ion binding]; other site 62977008694 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 62977008695 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977008696 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 62977008697 putative active site [active] 62977008698 putative DNA binding site [nucleotide binding]; other site 62977008699 putative phosphate binding site [ion binding]; other site 62977008700 putative catalytic site [active] 62977008701 metal binding site A [ion binding]; metal-binding site 62977008702 putative AP binding site [nucleotide binding]; other site 62977008703 putative metal binding site B [ion binding]; other site 62977008704 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 62977008705 ArsC family; Region: ArsC; pfam03960 62977008706 putative catalytic residues [active] 62977008707 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 62977008708 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977008709 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 62977008710 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977008711 metal binding site [ion binding]; metal-binding site 62977008712 active site 62977008713 I-site; other site 62977008714 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 62977008715 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 62977008716 LysE type translocator; Region: LysE; cl00565 62977008717 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 62977008718 DsbD alpha interface [polypeptide binding]; other site 62977008719 catalytic residues [active] 62977008720 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 62977008721 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 62977008722 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cl00250 62977008723 30S subunit binding site; other site 62977008724 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 62977008725 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 62977008726 active site 62977008727 catalytic site [active] 62977008728 tetramer interface [polypeptide binding]; other site 62977008729 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 62977008730 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 62977008731 active site 62977008732 homotetramer interface [polypeptide binding]; other site 62977008733 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 62977008734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008735 FAD binding domain; Region: FAD_binding_3; pfam01494 62977008736 allantoicase; Region: allantoicase; TIGR02961 62977008737 Allantoicase repeat; Region: Allantoicase; pfam03561 62977008738 Allantoicase repeat; Region: Allantoicase; pfam03561 62977008739 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 62977008740 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 62977008741 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 62977008742 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 62977008743 ATP binding site [chemical binding]; other site 62977008744 Mg2+ binding site [ion binding]; other site 62977008745 G-X-G motif; other site 62977008746 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 62977008747 anchoring element; other site 62977008748 dimer interface [polypeptide binding]; other site 62977008749 ATP binding site [chemical binding]; other site 62977008750 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 62977008751 active site 62977008752 metal binding site [ion binding]; metal-binding site 62977008753 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 62977008754 Uncharacterised protein family (UPF0227); Region: UPF0227; cl14886 62977008755 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 62977008756 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977008757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 62977008758 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 62977008759 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 62977008760 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 62977008761 Protein of unknown function (DUF445); Region: DUF445; pfam04286 62977008762 methionine aminotransferase; Validated; Region: PRK09082 62977008763 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 62977008764 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977008765 homodimer interface [polypeptide binding]; other site 62977008766 catalytic residue [active] 62977008767 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 62977008768 MatE; Region: MatE; cl10513 62977008769 MatE; Region: MatE; cl10513 62977008770 hypothetical protein; Provisional; Region: PRK06194 62977008771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008772 NAD(P) binding site [chemical binding]; other site 62977008773 active site 62977008774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977008775 Helix-turn-helix domains; Region: HTH; cl00088 62977008776 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 62977008777 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 62977008778 active site 62977008779 phosphorylation site [posttranslational modification] 62977008780 intermolecular recognition site; other site 62977008781 dimerization interface [polypeptide binding]; other site 62977008782 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 62977008783 DNA binding site [nucleotide binding] 62977008784 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 62977008785 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 62977008786 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 62977008787 dimer interface [polypeptide binding]; other site 62977008788 phosphorylation site [posttranslational modification] 62977008789 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 62977008790 ATP binding site [chemical binding]; other site 62977008791 Mg2+ binding site [ion binding]; other site 62977008792 G-X-G motif; other site 62977008793 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 62977008794 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 62977008795 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 62977008796 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 62977008797 active site residue [active] 62977008798 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 62977008799 active site residue [active] 62977008800 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 62977008801 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 62977008802 active site 62977008803 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 62977008804 putative active site [active] 62977008805 dimerization interface [polypeptide binding]; other site 62977008806 putative tRNAtyr binding site [nucleotide binding]; other site 62977008807 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 62977008808 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 62977008809 phosphoserine phosphatase SerB; Region: serB; TIGR00338 62977008810 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 62977008811 motif II; other site 62977008812 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 62977008813 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 62977008814 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; cl00522 62977008815 dimerization interface [polypeptide binding]; other site 62977008816 active site 62977008817 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 62977008818 homopentamer interface [polypeptide binding]; other site 62977008819 active site 62977008820 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 62977008821 thiamine monophosphate kinase; Provisional; Region: PRK05731 62977008822 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 62977008823 ATP binding site [chemical binding]; other site 62977008824 dimerization interface [polypeptide binding]; other site 62977008825 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 62977008826 tetramer interfaces [polypeptide binding]; other site 62977008827 binuclear metal-binding site [ion binding]; other site 62977008828 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 62977008829 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 62977008830 Substrate binding site; other site 62977008831 Mg++ binding site; other site 62977008832 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 62977008833 active site 62977008834 substrate binding site [chemical binding]; other site 62977008835 CoA binding site [chemical binding]; other site 62977008836 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 62977008837 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 62977008838 glutaminase active site [active] 62977008839 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 62977008840 dimer interface [polypeptide binding]; other site 62977008841 active site 62977008842 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 62977008843 dimer interface [polypeptide binding]; other site 62977008844 active site 62977008845 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 62977008846 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 62977008847 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 62977008848 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 62977008849 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 62977008850 Coenzyme A binding pocket [chemical binding]; other site 62977008851 Protein of unknown function (DUF523); Region: DUF523; cl00733 62977008852 Membrane transport protein; Region: Mem_trans; cl09117 62977008853 bile acid transporter; Region: bass; TIGR00841 62977008854 Isochorismatase family; Region: Isochorismatase; pfam00857 62977008855 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 62977008856 catalytic triad [active] 62977008857 metal binding site [ion binding]; metal-binding site 62977008858 conserved cis-peptide bond; other site 62977008859 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 62977008860 dihydrodipicolinate synthase; Region: dapA; TIGR00674 62977008861 dimer interface [polypeptide binding]; other site 62977008862 active site 62977008863 catalytic residue [active] 62977008864 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 62977008865 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 62977008866 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 62977008867 ATP binding site [chemical binding]; other site 62977008868 active site 62977008869 substrate binding site [chemical binding]; other site 62977008870 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 62977008871 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 62977008872 substrate binding pocket [chemical binding]; other site 62977008873 membrane-bound complex binding site; other site 62977008874 hinge residues; other site 62977008875 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 62977008876 dimer interface [polypeptide binding]; other site 62977008877 conserved gate region; other site 62977008878 ABC-ATPase subunit interface; other site 62977008879 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 62977008880 dimer interface [polypeptide binding]; other site 62977008881 conserved gate region; other site 62977008882 putative PBP binding loops; other site 62977008883 ABC-ATPase subunit interface; other site 62977008884 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 62977008885 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 62977008886 Walker A/P-loop; other site 62977008887 ATP binding site [chemical binding]; other site 62977008888 Q-loop/lid; other site 62977008889 ABC transporter signature motif; other site 62977008890 Walker B; other site 62977008891 D-loop; other site 62977008892 H-loop/switch region; other site 62977008893 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 62977008894 PAS fold; Region: PAS_4; pfam08448 62977008895 PAS domain S-box; Region: sensory_box; TIGR00229 62977008896 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 62977008897 putative active site [active] 62977008898 heme pocket [chemical binding]; other site 62977008899 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 62977008900 metal binding site [ion binding]; metal-binding site 62977008901 active site 62977008902 I-site; other site 62977008903 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 62977008904 recombination factor protein RarA; Reviewed; Region: PRK13342 62977008905 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 62977008906 Walker A motif; other site 62977008907 ATP binding site [chemical binding]; other site 62977008908 Walker B motif; other site 62977008909 arginine finger; other site 62977008910 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 62977008911 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 62977008912 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 62977008913 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 62977008914 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 62977008915 DNA binding residues [nucleotide binding] 62977008916 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 62977008917 dimer interface [polypeptide binding]; other site 62977008918 putative metal binding site [ion binding]; other site 62977008919 Cation efflux family; Region: Cation_efflux; cl00316 62977008920 Flagellin N-methylase; Region: FliB; cl00497 62977008921 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 62977008922 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977008923 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 62977008924 nucleotide binding site/active site [active] 62977008925 HIT family signature motif; other site 62977008926 catalytic residue [active] 62977008927 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 62977008928 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 62977008929 minor groove reading motif; other site 62977008930 helix-hairpin-helix signature motif; other site 62977008931 substrate binding pocket [chemical binding]; other site 62977008932 active site 62977008933 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 62977008934 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 62977008935 DNA binding and oxoG recognition site [nucleotide binding] 62977008936 Peptidase family M23; Region: Peptidase_M23; pfam01551 62977008937 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 62977008938 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 62977008939 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 62977008940 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 62977008941 putative NAD(P) binding site [chemical binding]; other site 62977008942 putative substrate binding site [chemical binding]; other site 62977008943 catalytic Zn binding site [ion binding]; other site 62977008944 structural Zn binding site [ion binding]; other site 62977008945 dimer interface [polypeptide binding]; other site 62977008946 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 62977008947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 62977008948 DNA-binding site [nucleotide binding]; DNA binding site 62977008949 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 62977008950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 62977008951 homodimer interface [polypeptide binding]; other site 62977008952 catalytic residue [active] 62977008953 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977008954 Helix-turn-helix domains; Region: HTH; cl00088 62977008955 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 62977008956 dimerization interface [polypeptide binding]; other site 62977008957 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 62977008958 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 62977008959 active site 62977008960 catalytic tetrad [active] 62977008961 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 62977008962 putative substrate translocation pore; other site 62977008963 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 62977008964 putative lipid binding site [chemical binding]; other site 62977008965 dihydrodipicolinate reductase; Provisional; Region: PRK00048 62977008966 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008967 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 62977008968 chaperone protein DnaJ; Provisional; Region: PRK10767 62977008969 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 62977008970 HSP70 interaction site [polypeptide binding]; other site 62977008971 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 62977008972 substrate binding site [polypeptide binding]; other site 62977008973 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 62977008974 Zn binding sites [ion binding]; other site 62977008975 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 62977008976 dimer interface [polypeptide binding]; other site 62977008977 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 62977008978 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 62977008979 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 62977008980 Helix-turn-helix domains; Region: HTH; cl00088 62977008981 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 62977008982 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 62977008983 Permease family; Region: Xan_ur_permease; cl00967 62977008984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977008985 Helix-turn-helix domains; Region: HTH; cl00088 62977008986 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 62977008987 dimerization interface [polypeptide binding]; other site 62977008988 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 62977008989 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 62977008990 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 62977008991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 62977008992 Dehydratase family; Region: ILVD_EDD; cl00340 62977008993 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 62977008994 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 62977008995 putative active site [active] 62977008996 substrate binding site [chemical binding]; other site 62977008997 putative cosubstrate binding site; other site 62977008998 catalytic site [active] 62977008999 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 62977009000 substrate binding site [chemical binding]; other site 62977009001 16S rRNA methyltransferase B; Provisional; Region: PRK10901 62977009002 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 62977009003 putative RNA binding site [nucleotide binding]; other site 62977009004 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; cl12011 62977009005 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 62977009006 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 62977009007 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 62977009008 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 62977009009 NAD(P) binding site [chemical binding]; other site 62977009010 catalytic residues [active] 62977009011 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; cl09206 62977009012 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 62977009013 proposed catalytic triad [active] 62977009014 conserved cys residue [active] 62977009015 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 62977009016 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 62977009017 substrate binding site [chemical binding]; other site 62977009018 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 62977009019 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 62977009020 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 62977009021 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 62977009022 Transcriptional regulator [Transcription]; Region: LysR; COG0583 62977009023 Helix-turn-helix domains; Region: HTH; cl00088 62977009024 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 62977009025 putative effector binding pocket; other site 62977009026 dimerization interface [polypeptide binding]; other site 62977009027 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 62977009028 dimer interface [polypeptide binding]; other site 62977009029 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 62977009030 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 62977009031 lytic murein transglycosylase; Region: MltB_2; TIGR02283 62977009032 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 62977009033 N-acetyl-D-glucosamine binding site [chemical binding]; other site 62977009034 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 62977009035 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 62977009036 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 62977009037 AIR carboxylase; Region: AIRC; cl00310 62977009038 Protein of unknown function, DUF486; Region: DUF486; cl01236 62977009039 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 62977009040 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 62977009041 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 62977009042 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 62977009043 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 62977009044 active site 62977009045 Integral membrane protein TerC family; Region: TerC; cl10468 62977009046 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 62977009047 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 62977009048 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 62977009049 active site 62977009050 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 62977009051 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 62977009052 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 62977009053 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 62977009054 dimerization domain [polypeptide binding]; other site 62977009055 dimer interface [polypeptide binding]; other site 62977009056 catalytic residues [active] 62977009057 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 62977009058 GH3 auxin-responsive promoter; Region: GH3; cl04006 62977009059 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 62977009060 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 62977009061 putative substrate translocation pore; other site 62977009062 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 62977009063 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 62977009064 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 62977009065 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 62977009066 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 62977009067 G1 box; other site 62977009068 GTP/Mg2+ binding site [chemical binding]; other site 62977009069 Switch I region; other site 62977009070 G2 box; other site 62977009071 Switch II region; other site 62977009072 G3 box; other site 62977009073 G4 box; other site 62977009074 G5 box; other site 62977009075 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 62977009076 membrane protein insertase; Provisional; Region: PRK01318 62977009077 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 62977009078 Domain of unknown function DUF37; Region: DUF37; cl00506 62977009079 Ribonuclease P; Region: Ribonuclease_P; cl00457 62977009080 Ribosomal protein L34; Region: Ribosomal_L34; cl00370