-- dump date 20140619_120233 -- class Genbank::misc_feature -- table misc_feature_note -- id note 290400000001 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 290400000002 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 290400000003 Substrate binding site; other site 290400000004 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 290400000005 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 290400000006 active site 290400000007 catalytic residues [active] 290400000008 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 290400000009 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 290400000010 active site 290400000011 substrate binding site [chemical binding]; other site 290400000012 metal binding site [ion binding]; metal-binding site 290400000013 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 290400000014 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 290400000015 putative acyl-acceptor binding pocket; other site 290400000016 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 290400000017 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400000018 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400000019 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400000020 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400000021 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 290400000022 ParB-like nuclease domain; Region: ParB; smart00470 290400000023 Protein of unknown function (DUF736); Region: DUF736; cl02303 290400000024 Protein of unknown function (DUF736); Region: DUF736; pfam05284 290400000025 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 290400000026 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 290400000027 DNA binding site [nucleotide binding] 290400000028 active site 290400000029 Int/Topo IB signature motif; other site 290400000030 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400000031 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400000032 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 290400000033 MobA/MobL family; Region: MobA_MobL; pfam03389 290400000034 AAA domain; Region: AAA_30; pfam13604 290400000035 Family description; Region: UvrD_C_2; pfam13538 290400000036 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 290400000037 H-NS histone family; Region: Histone_HNS; pfam00816 290400000038 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 290400000039 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 290400000040 DNA-binding interface [nucleotide binding]; DNA binding site 290400000041 Winged helix-turn helix; Region: HTH_29; pfam13551 290400000042 Homeodomain-like domain; Region: HTH_32; pfam13565 290400000043 Integrase core domain; Region: rve; pfam00665 290400000044 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 290400000045 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 290400000046 Cytochrome c; Region: Cytochrom_C; cl11414 290400000047 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 290400000048 Rhomboid family; Region: Rhomboid; pfam01694 290400000049 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 290400000050 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 290400000051 SLBB domain; Region: SLBB; pfam10531 290400000052 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 290400000053 TPR motif; other site 290400000054 binding surface 290400000055 TPR repeat; Region: TPR_11; pfam13414 290400000056 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 290400000057 binding surface 290400000058 TPR motif; other site 290400000059 Bacterial sugar transferase; Region: Bac_transf; pfam02397 290400000060 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 290400000061 AAA ATPase domain; Region: AAA_16; pfam13191 290400000062 Walker A motif; other site 290400000063 ATP binding site [chemical binding]; other site 290400000064 Walker B motif; other site 290400000065 arginine finger; other site 290400000066 Chain length determinant protein; Region: Wzz; cl15801 290400000067 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 290400000068 AAA domain; Region: AAA_31; pfam13614 290400000069 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 290400000070 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 290400000071 dimer interface [polypeptide binding]; other site 290400000072 active site 290400000073 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 290400000074 putative ADP-binding pocket [chemical binding]; other site 290400000075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000076 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 290400000077 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 290400000078 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400000079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400000080 NAD(P) binding site [chemical binding]; other site 290400000081 active site 290400000082 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 290400000083 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 290400000084 active site 290400000085 Substrate binding site; other site 290400000086 Mg++ binding site; other site 290400000087 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 290400000088 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 290400000089 active site 290400000090 motif I; other site 290400000091 motif II; other site 290400000092 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 290400000093 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 290400000094 NAD binding site [chemical binding]; other site 290400000095 homodimer interface [polypeptide binding]; other site 290400000096 active site 290400000097 substrate binding site [chemical binding]; other site 290400000098 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400000099 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000100 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 290400000101 hypothetical protein; Validated; Region: PRK08238 290400000102 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290400000103 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 290400000104 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290400000105 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 290400000106 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 290400000107 active site 290400000108 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 290400000109 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 290400000110 active site 290400000111 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 290400000112 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 290400000113 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 290400000114 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 290400000115 Protein of unknown function (DUF3417); Region: DUF3417; pfam11897 290400000116 ParB-like nuclease domain; Region: ParB; smart00470 290400000117 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 290400000118 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 290400000119 P-loop; other site 290400000120 Magnesium ion binding site [ion binding]; other site 290400000121 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 290400000122 Magnesium ion binding site [ion binding]; other site 290400000123 Replication initiator protein A; Region: RPA; pfam10134 290400000124 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 290400000125 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400000126 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290400000127 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 290400000128 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290400000129 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 290400000130 active site 290400000131 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 290400000132 exosortase D, VPLPA-CTERM-specific; Region: exosort_VPLPA; TIGR04152 290400000133 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 290400000134 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000135 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 290400000136 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 290400000137 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 290400000138 active site 290400000139 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 290400000140 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290400000141 Probable Catalytic site; other site 290400000142 metal-binding site 290400000143 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400000144 Rhamnan synthesis protein F; Region: RgpF; pfam05045 290400000145 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290400000146 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400000147 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400000148 Walker A/P-loop; other site 290400000149 ATP binding site [chemical binding]; other site 290400000150 Q-loop/lid; other site 290400000151 ABC transporter signature motif; other site 290400000152 Walker B; other site 290400000153 D-loop; other site 290400000154 H-loop/switch region; other site 290400000155 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000156 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 290400000157 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 290400000158 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 290400000159 NADP-binding site; other site 290400000160 homotetramer interface [polypeptide binding]; other site 290400000161 substrate binding site [chemical binding]; other site 290400000162 homodimer interface [polypeptide binding]; other site 290400000163 active site 290400000164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400000165 NAD(P) binding site [chemical binding]; other site 290400000166 active site 290400000167 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400000168 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000169 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 290400000170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000171 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 290400000172 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 290400000173 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000174 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 290400000175 DnaA N-terminal domain; Region: DnaA_N; pfam11638 290400000176 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 290400000177 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 290400000178 Walker A motif; other site 290400000179 ATP binding site [chemical binding]; other site 290400000180 Walker B motif; other site 290400000181 arginine finger; other site 290400000182 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 290400000183 DnaA box-binding interface [nucleotide binding]; other site 290400000184 DNA polymerase III subunit beta; Validated; Region: PRK05643 290400000185 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 290400000186 putative DNA binding surface [nucleotide binding]; other site 290400000187 dimer interface [polypeptide binding]; other site 290400000188 beta-clamp/clamp loader binding surface; other site 290400000189 beta-clamp/translesion DNA polymerase binding surface; other site 290400000190 recombination protein F; Reviewed; Region: recF; PRK00064 290400000191 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400000192 Walker A/P-loop; other site 290400000193 ATP binding site [chemical binding]; other site 290400000194 Q-loop/lid; other site 290400000195 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400000196 ABC transporter signature motif; other site 290400000197 Walker B; other site 290400000198 D-loop; other site 290400000199 H-loop/switch region; other site 290400000200 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 290400000201 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 290400000202 Mg2+ binding site [ion binding]; other site 290400000203 G-X-G motif; other site 290400000204 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 290400000205 anchoring element; other site 290400000206 dimer interface [polypeptide binding]; other site 290400000207 ATP binding site [chemical binding]; other site 290400000208 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 290400000209 active site 290400000210 putative metal-binding site [ion binding]; other site 290400000211 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290400000212 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 290400000213 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 290400000214 sugar efflux transporter B; Provisional; Region: PRK15011 290400000215 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 290400000216 protein-splicing catalytic site; other site 290400000217 thioester formation/cholesterol transfer; other site 290400000218 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 290400000219 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 290400000220 active site residue [active] 290400000221 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 290400000222 Isochorismatase family; Region: Isochorismatase; pfam00857 290400000223 catalytic triad [active] 290400000224 metal binding site [ion binding]; metal-binding site 290400000225 conserved cis-peptide bond; other site 290400000226 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290400000227 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290400000228 Amidinotransferase; Region: Amidinotransf; cl12043 290400000229 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400000230 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 290400000231 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400000232 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 290400000233 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 290400000234 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 290400000235 Ligand Binding Site [chemical binding]; other site 290400000236 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 290400000237 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 290400000238 active site 290400000239 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 290400000240 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 290400000241 hypothetical protein; Provisional; Region: PRK09256 290400000242 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 290400000243 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 290400000244 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 290400000245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400000246 homodimer interface [polypeptide binding]; other site 290400000247 catalytic residue [active] 290400000248 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400000249 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400000250 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 290400000251 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 290400000252 active site residue [active] 290400000253 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 290400000254 active site residue [active] 290400000255 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 290400000256 SmpB-tmRNA interface; other site 290400000257 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290400000258 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 290400000259 putative substrate translocation pore; other site 290400000260 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290400000261 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 290400000262 dimer interface [polypeptide binding]; other site 290400000263 active site 290400000264 catalytic residue [active] 290400000265 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290400000266 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400000267 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400000268 catalytic residue [active] 290400000269 TspO/MBR family; Region: TspO_MBR; pfam03073 290400000270 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 290400000271 translation initiation factor IF-2; Region: IF-2; TIGR00487 290400000272 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 290400000273 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 290400000274 G1 box; other site 290400000275 putative GEF interaction site [polypeptide binding]; other site 290400000276 GTP/Mg2+ binding site [chemical binding]; other site 290400000277 Switch I region; other site 290400000278 G2 box; other site 290400000279 G3 box; other site 290400000280 Switch II region; other site 290400000281 G4 box; other site 290400000282 G5 box; other site 290400000283 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 290400000284 Translation-initiation factor 2; Region: IF-2; pfam11987 290400000285 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 290400000286 hypothetical protein; Provisional; Region: PRK09190 290400000287 Protein of unknown function (DUF448); Region: DUF448; pfam04296 290400000288 putative RNA binding cleft [nucleotide binding]; other site 290400000289 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 290400000290 NusA N-terminal domain; Region: NusA_N; pfam08529 290400000291 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 290400000292 RNA binding site [nucleotide binding]; other site 290400000293 homodimer interface [polypeptide binding]; other site 290400000294 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 290400000295 G-X-X-G motif; other site 290400000296 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 290400000297 G-X-X-G motif; other site 290400000298 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 290400000299 ribosome maturation protein RimP; Reviewed; Region: PRK00092 290400000300 Sm and related proteins; Region: Sm_like; cl00259 290400000301 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 290400000302 putative oligomer interface [polypeptide binding]; other site 290400000303 putative RNA binding site [nucleotide binding]; other site 290400000304 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 290400000305 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 290400000306 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 290400000307 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 290400000308 substrate binding site [chemical binding]; other site 290400000309 catalytic Zn binding site [ion binding]; other site 290400000310 NAD binding site [chemical binding]; other site 290400000311 structural Zn binding site [ion binding]; other site 290400000312 dimer interface [polypeptide binding]; other site 290400000313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400000314 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290400000315 Coenzyme A binding pocket [chemical binding]; other site 290400000316 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 290400000317 putative metal binding site [ion binding]; other site 290400000318 Uncharacterized conserved protein [Function unknown]; Region: COG1432 290400000319 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 290400000320 Predicted acetyltransferase [General function prediction only]; Region: COG5628 290400000321 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400000322 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 290400000323 DNA-binding interface [nucleotide binding]; DNA binding site 290400000324 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 290400000325 Predicted permeases [General function prediction only]; Region: COG0679 290400000326 S-formylglutathione hydrolase; Region: PLN02442 290400000327 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 290400000328 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 290400000329 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 290400000330 ornithine cyclodeaminase; Validated; Region: PRK06141 290400000331 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 290400000332 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 290400000333 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400000334 putative substrate translocation pore; other site 290400000335 Predicted ATPase [General function prediction only]; Region: COG1485 290400000336 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290400000337 Chloramphenicol O-acetyltransferase [Defense mechanisms]; Region: COG4845 290400000338 Chloramphenicol acetyltransferase; Region: CAT; smart01059 290400000339 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 290400000340 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290400000341 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 290400000342 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290400000343 CAAX protease self-immunity; Region: Abi; pfam02517 290400000344 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 290400000345 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 290400000346 argininosuccinate synthase; Provisional; Region: PRK13820 290400000347 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 290400000348 ANP binding site [chemical binding]; other site 290400000349 Substrate Binding Site II [chemical binding]; other site 290400000350 Substrate Binding Site I [chemical binding]; other site 290400000351 threonine dehydratase; Validated; Region: PRK08639 290400000352 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 290400000353 tetramer interface [polypeptide binding]; other site 290400000354 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400000355 catalytic residue [active] 290400000356 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 290400000357 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 290400000358 Response regulator receiver domain; Region: Response_reg; pfam00072 290400000359 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 290400000360 active site 290400000361 phosphorylation site [posttranslational modification] 290400000362 intermolecular recognition site; other site 290400000363 dimerization interface [polypeptide binding]; other site 290400000364 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 290400000365 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 290400000366 nudix motif; other site 290400000367 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 290400000368 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 290400000369 putative active site [active] 290400000370 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 290400000371 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 290400000372 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290400000373 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 290400000374 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 290400000375 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 290400000376 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400000377 putative NAD(P) binding site [chemical binding]; other site 290400000378 active site 290400000379 putative substrate binding site [chemical binding]; other site 290400000380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000381 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 290400000382 putative ADP-binding pocket [chemical binding]; other site 290400000383 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 290400000384 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 290400000385 dimerization interface [polypeptide binding]; other site 290400000386 domain crossover interface; other site 290400000387 redox-dependent activation switch; other site 290400000388 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 290400000389 putative active site [active] 290400000390 putative CoA binding site [chemical binding]; other site 290400000391 nudix motif; other site 290400000392 metal binding site [ion binding]; metal-binding site 290400000393 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 290400000394 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 290400000395 active site 290400000396 NTP binding site [chemical binding]; other site 290400000397 metal binding triad [ion binding]; metal-binding site 290400000398 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290400000399 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400000400 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400000401 Walker A/P-loop; other site 290400000402 ATP binding site [chemical binding]; other site 290400000403 Q-loop/lid; other site 290400000404 ABC transporter signature motif; other site 290400000405 Walker B; other site 290400000406 D-loop; other site 290400000407 H-loop/switch region; other site 290400000408 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290400000409 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400000410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400000411 Walker A/P-loop; other site 290400000412 ATP binding site [chemical binding]; other site 290400000413 Q-loop/lid; other site 290400000414 ABC transporter signature motif; other site 290400000415 Walker B; other site 290400000416 D-loop; other site 290400000417 H-loop/switch region; other site 290400000418 topology modulation protein; Reviewed; Region: PRK08118 290400000419 AAA domain; Region: AAA_17; pfam13207 290400000420 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400000421 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 290400000422 active site 290400000423 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 290400000424 TRAM domain; Region: TRAM; cl01282 290400000425 Ion transport protein; Region: Ion_trans; pfam00520 290400000426 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 290400000427 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 290400000428 TPP-binding site; other site 290400000429 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 290400000430 PYR/PP interface [polypeptide binding]; other site 290400000431 dimer interface [polypeptide binding]; other site 290400000432 TPP binding site [chemical binding]; other site 290400000433 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290400000434 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290400000435 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290400000436 substrate binding pocket [chemical binding]; other site 290400000437 chain length determination region; other site 290400000438 substrate-Mg2+ binding site; other site 290400000439 catalytic residues [active] 290400000440 aspartate-rich region 1; other site 290400000441 active site lid residues [active] 290400000442 aspartate-rich region 2; other site 290400000443 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 290400000444 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 290400000445 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 290400000446 putative active site [active] 290400000447 Zn binding site [ion binding]; other site 290400000448 osmolarity response regulator; Provisional; Region: ompR; PRK09468 290400000449 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 290400000450 active site 290400000451 phosphorylation site [posttranslational modification] 290400000452 intermolecular recognition site; other site 290400000453 dimerization interface [polypeptide binding]; other site 290400000454 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 290400000455 DNA binding site [nucleotide binding] 290400000456 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400000457 MarR family; Region: MarR_2; pfam12802 290400000458 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 290400000459 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290400000460 homodimer interface [polypeptide binding]; other site 290400000461 substrate-cofactor binding pocket; other site 290400000462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400000463 catalytic residue [active] 290400000464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400000465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400000466 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 290400000467 dimerization interface [polypeptide binding]; other site 290400000468 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400000469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400000470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400000471 MAPEG family; Region: MAPEG; pfam01124 290400000472 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 290400000473 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 290400000474 putative hydrophobic ligand binding site [chemical binding]; other site 290400000475 protein interface [polypeptide binding]; other site 290400000476 gate; other site 290400000477 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400000478 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290400000479 Serine hydrolase; Region: Ser_hydrolase; cl17834 290400000480 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 290400000481 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 290400000482 NlpC/P60 family; Region: NLPC_P60; pfam00877 290400000483 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 290400000484 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 290400000485 interface (dimer of trimers) [polypeptide binding]; other site 290400000486 Substrate-binding/catalytic site; other site 290400000487 Zn-binding sites [ion binding]; other site 290400000488 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 290400000489 active site clefts [active] 290400000490 zinc binding site [ion binding]; other site 290400000491 dimer interface [polypeptide binding]; other site 290400000492 Domain of unknown function (DUF897); Region: DUF897; pfam05982 290400000493 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 290400000494 putative hydrophobic ligand binding site [chemical binding]; other site 290400000495 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 290400000496 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 290400000497 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 290400000498 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290400000499 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 290400000500 DEAD-like helicases superfamily; Region: DEXDc; smart00487 290400000501 ATP binding site [chemical binding]; other site 290400000502 Mg++ binding site [ion binding]; other site 290400000503 motif III; other site 290400000504 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 290400000505 nucleotide binding region [chemical binding]; other site 290400000506 ATP-binding site [chemical binding]; other site 290400000507 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 290400000508 D-galactonate transporter; Region: 2A0114; TIGR00893 290400000509 putative substrate translocation pore; other site 290400000510 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 290400000511 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290400000512 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400000513 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 290400000514 putative substrate translocation pore; other site 290400000515 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 290400000516 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 290400000517 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 290400000518 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 290400000519 substrate binding site [chemical binding]; other site 290400000520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400000521 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400000522 NAD(P) binding site [chemical binding]; other site 290400000523 active site 290400000524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400000525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400000526 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 290400000527 dimerization interface [polypeptide binding]; other site 290400000528 tartrate dehydrogenase; Region: TTC; TIGR02089 290400000529 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 290400000530 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400000531 Coenzyme A binding pocket [chemical binding]; other site 290400000532 EamA-like transporter family; Region: EamA; pfam00892 290400000533 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 290400000534 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 290400000535 active site 290400000536 catalytic site [active] 290400000537 substrate binding site [chemical binding]; other site 290400000538 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 290400000539 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 290400000540 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 290400000541 dimer interface [polypeptide binding]; other site 290400000542 conserved gate region; other site 290400000543 putative PBP binding loops; other site 290400000544 ABC-ATPase subunit interface; other site 290400000545 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 290400000546 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 290400000547 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 290400000548 substrate binding site [chemical binding]; other site 290400000549 ligand binding site [chemical binding]; other site 290400000550 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 290400000551 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290400000552 thiamine pyrophosphate protein; Validated; Region: PRK08199 290400000553 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400000554 PYR/PP interface [polypeptide binding]; other site 290400000555 dimer interface [polypeptide binding]; other site 290400000556 TPP binding site [chemical binding]; other site 290400000557 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400000558 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 290400000559 TPP-binding site [chemical binding]; other site 290400000560 Predicted flavoprotein [General function prediction only]; Region: COG0431 290400000561 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400000562 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400000563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400000564 Uncharacterized conserved protein [Function unknown]; Region: COG4121 290400000565 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400000566 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 290400000567 active site lid residues [active] 290400000568 substrate binding pocket [chemical binding]; other site 290400000569 catalytic residues [active] 290400000570 substrate-Mg2+ binding site; other site 290400000571 aspartate-rich region 1; other site 290400000572 aspartate-rich region 2; other site 290400000573 phytoene desaturase; Region: crtI_fam; TIGR02734 290400000574 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290400000575 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 290400000576 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290400000577 Walker A motif; other site 290400000578 ATP binding site [chemical binding]; other site 290400000579 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 290400000580 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 290400000581 metal ion-dependent adhesion site (MIDAS); other site 290400000582 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 290400000583 Cytochrome c; Region: Cytochrom_C; cl11414 290400000584 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 290400000585 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 290400000586 substrate-cofactor binding pocket; other site 290400000587 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400000588 catalytic residue [active] 290400000589 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 290400000590 Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain; Region: ACSF; cd01047 290400000591 diiron binding motif [ion binding]; other site 290400000592 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 290400000593 Bacterial PH domain; Region: DUF304; pfam03703 290400000594 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 290400000595 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; cl17581 290400000596 subunit M interaction residues [polypeptide binding]; other site 290400000597 subunit L interaction residues [polypeptide binding]; other site 290400000598 putative proton transfer pathway, P1; other site 290400000599 putative proton transfer pathway, P2; other site 290400000600 PUCC protein; Region: PUCC; pfam03209 290400000601 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 290400000602 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 290400000603 S-adenosylmethionine binding site [chemical binding]; other site 290400000604 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 290400000605 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 290400000606 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400000607 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 290400000608 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290400000609 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 290400000610 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 290400000611 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 290400000612 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 290400000613 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 290400000614 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 290400000615 B12 binding domain; Region: B12-binding_2; cl03653 290400000616 B12 binding domain; Region: B12-binding; pfam02310 290400000617 B12 binding site [chemical binding]; other site 290400000618 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 290400000619 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 290400000620 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 290400000621 putative active site [active] 290400000622 heme pocket [chemical binding]; other site 290400000623 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290400000624 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 290400000625 UbiA prenyltransferase family; Region: UbiA; pfam01040 290400000626 PUCC protein; Region: PUCC; pfam03209 290400000627 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400000628 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 290400000629 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 290400000630 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 290400000631 nudix motif; other site 290400000632 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK12571 290400000633 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 290400000634 TPP-binding site; other site 290400000635 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 290400000636 PYR/PP interface [polypeptide binding]; other site 290400000637 dimer interface [polypeptide binding]; other site 290400000638 TPP binding site [chemical binding]; other site 290400000639 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290400000640 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 290400000641 subunit interface [polypeptide binding]; other site 290400000642 Heme binding sites [chemical binding]; other site 290400000643 photosynthetic reaction center subunit M; Provisional; Region: PRK14504 290400000644 pheophytin binding site; other site 290400000645 chlorophyll binding site; other site 290400000646 quinone binding site; other site 290400000647 Fe binding site [ion binding]; other site 290400000648 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 290400000649 subunit M interface; other site 290400000650 subunit H interface; other site 290400000651 quinone binding site; other site 290400000652 bacteriopheophytin binding site; other site 290400000653 bacteriochlorophyll binding site; other site 290400000654 cytochrome C subunit interface; other site 290400000655 Fe binding site [ion binding]; other site 290400000656 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 290400000657 PufQ cytochrome subunit; Region: PufQ; pfam05398 290400000658 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290400000659 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 290400000660 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 290400000661 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 290400000662 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400000663 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 290400000664 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 290400000665 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 290400000666 putative NAD(P) binding site [chemical binding]; other site 290400000667 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 290400000668 O-methyltransferase; Region: Methyltransf_2; pfam00891 290400000669 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290400000670 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290400000671 substrate binding pocket [chemical binding]; other site 290400000672 chain length determination region; other site 290400000673 substrate-Mg2+ binding site; other site 290400000674 catalytic residues [active] 290400000675 aspartate-rich region 1; other site 290400000676 active site lid residues [active] 290400000677 aspartate-rich region 2; other site 290400000678 phytoene desaturase; Region: crtI_fam; TIGR02734 290400000679 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 290400000680 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 290400000681 active site 290400000682 HslU subunit interaction site [polypeptide binding]; other site 290400000683 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 290400000684 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 290400000685 Walker A motif; other site 290400000686 ATP binding site [chemical binding]; other site 290400000687 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 290400000688 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290400000689 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 290400000690 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 290400000691 Smr domain; Region: Smr; pfam01713 290400000692 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 290400000693 MltA specific insert domain; Region: MltA; smart00925 290400000694 3D domain; Region: 3D; pfam06725 290400000695 Tim44-like domain; Region: Tim44; pfam04280 290400000696 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 290400000697 Preprotein translocase subunit SecB; Region: SecB; pfam02556 290400000698 SecA binding site; other site 290400000699 Preprotein binding site; other site 290400000700 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 290400000701 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 290400000702 active site 290400000703 catalytic site [active] 290400000704 substrate binding site [chemical binding]; other site 290400000705 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 290400000706 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 290400000707 CoA-binding site [chemical binding]; other site 290400000708 ATP-binding [chemical binding]; other site 290400000709 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 290400000710 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 290400000711 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 290400000712 shikimate binding site; other site 290400000713 NAD(P) binding site [chemical binding]; other site 290400000714 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 290400000715 active site 290400000716 dimer interface [polypeptide binding]; other site 290400000717 transcription termination factor Rho; Provisional; Region: rho; PRK09376 290400000718 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 290400000719 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 290400000720 RNA binding site [nucleotide binding]; other site 290400000721 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 290400000722 multimer interface [polypeptide binding]; other site 290400000723 Walker A motif; other site 290400000724 ATP binding site [chemical binding]; other site 290400000725 Walker B motif; other site 290400000726 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 290400000727 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 290400000728 trmE is a tRNA modification GTPase; Region: trmE; cd04164 290400000729 G1 box; other site 290400000730 GTP/Mg2+ binding site [chemical binding]; other site 290400000731 Switch I region; other site 290400000732 G2 box; other site 290400000733 Switch II region; other site 290400000734 G3 box; other site 290400000735 G4 box; other site 290400000736 G5 box; other site 290400000737 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 290400000738 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 290400000739 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400000740 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 290400000741 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 290400000742 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 290400000743 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 290400000744 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 290400000745 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400000746 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 290400000747 Magnesium ion binding site [ion binding]; other site 290400000748 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 290400000749 ParB-like nuclease domain; Region: ParB; smart00470 290400000750 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 290400000751 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 290400000752 FeS/SAM binding site; other site 290400000753 HemN C-terminal domain; Region: HemN_C; pfam06969 290400000754 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 290400000755 active site 290400000756 dimerization interface [polypeptide binding]; other site 290400000757 Ribonuclease PH; Region: RNase_PH_bact; cd11362 290400000758 ribonuclease PH; Reviewed; Region: rph; PRK00173 290400000759 hexamer interface [polypeptide binding]; other site 290400000760 active site 290400000761 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 290400000762 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 290400000763 heat shock protein GrpE; Provisional; Region: PRK14140 290400000764 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 290400000765 dimer interface [polypeptide binding]; other site 290400000766 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 290400000767 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 290400000768 MutS domain I; Region: MutS_I; pfam01624 290400000769 MutS domain II; Region: MutS_II; pfam05188 290400000770 MutS domain III; Region: MutS_III; pfam05192 290400000771 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 290400000772 Walker A/P-loop; other site 290400000773 ATP binding site [chemical binding]; other site 290400000774 Q-loop/lid; other site 290400000775 ABC transporter signature motif; other site 290400000776 Walker B; other site 290400000777 D-loop; other site 290400000778 H-loop/switch region; other site 290400000779 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 290400000780 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290400000781 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 290400000782 putative NAD(P) binding site [chemical binding]; other site 290400000783 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 290400000784 chaperone protein DnaJ; Provisional; Region: PRK10767 290400000785 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 290400000786 HSP70 interaction site [polypeptide binding]; other site 290400000787 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 290400000788 substrate binding site [polypeptide binding]; other site 290400000789 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 290400000790 Zn binding sites [ion binding]; other site 290400000791 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 290400000792 dimer interface [polypeptide binding]; other site 290400000793 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 290400000794 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 290400000795 nucleotide binding site [chemical binding]; other site 290400000796 NEF interaction site [polypeptide binding]; other site 290400000797 SBD interface [polypeptide binding]; other site 290400000798 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 290400000799 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 290400000800 ABC-2 type transporter; Region: ABC2_membrane; cl17235 290400000801 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290400000802 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 290400000803 active site 290400000804 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 290400000805 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 290400000806 Ligand binding site; other site 290400000807 oligomer interface; other site 290400000808 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 290400000809 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 290400000810 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 290400000811 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 290400000812 active site 290400000813 tetramer interface; other site 290400000814 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 290400000815 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400000816 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400000817 Core-2/I-Branching enzyme; Region: Branch; pfam02485 290400000818 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 290400000819 active site 290400000820 phosphorylation site [posttranslational modification] 290400000821 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 290400000822 30S subunit binding site; other site 290400000823 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 290400000824 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 290400000825 Walker A/P-loop; other site 290400000826 ATP binding site [chemical binding]; other site 290400000827 Q-loop/lid; other site 290400000828 ABC transporter signature motif; other site 290400000829 Walker B; other site 290400000830 D-loop; other site 290400000831 H-loop/switch region; other site 290400000832 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 290400000833 OstA-like protein; Region: OstA; pfam03968 290400000834 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 290400000835 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 290400000836 catalytic site [active] 290400000837 putative active site [active] 290400000838 putative substrate binding site [chemical binding]; other site 290400000839 integrase; Provisional; Region: PRK09692 290400000840 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 290400000841 active site 290400000842 Int/Topo IB signature motif; other site 290400000843 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 290400000844 active site 290400000845 metal binding site [ion binding]; metal-binding site 290400000846 interdomain interaction site; other site 290400000847 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 290400000848 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 290400000849 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 290400000850 active site 290400000851 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 290400000852 Catalytic site; other site 290400000853 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 290400000854 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 290400000855 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290400000856 Family of unknown function (DUF490); Region: DUF490; pfam04357 290400000857 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 290400000858 Surface antigen; Region: Bac_surface_Ag; pfam01103 290400000859 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 290400000860 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 290400000861 putative NAD(P) binding site [chemical binding]; other site 290400000862 active site 290400000863 Bacitracin resistance protein BacA; Region: BacA; pfam02673 290400000864 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 290400000865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400000866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400000867 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290400000868 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 290400000869 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 290400000870 active site 290400000871 dimer interface [polypeptide binding]; other site 290400000872 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 290400000873 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 290400000874 active site 290400000875 FMN binding site [chemical binding]; other site 290400000876 substrate binding site [chemical binding]; other site 290400000877 3Fe-4S cluster binding site [ion binding]; other site 290400000878 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 290400000879 domain interface; other site 290400000880 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 290400000881 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 290400000882 motif II; other site 290400000883 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290400000884 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290400000885 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290400000886 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 290400000887 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290400000888 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290400000889 Walker A/P-loop; other site 290400000890 ATP binding site [chemical binding]; other site 290400000891 Q-loop/lid; other site 290400000892 ABC transporter signature motif; other site 290400000893 Walker B; other site 290400000894 D-loop; other site 290400000895 H-loop/switch region; other site 290400000896 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400000897 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 290400000898 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400000899 MarR family; Region: MarR_2; pfam12802 290400000900 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 290400000901 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400000902 catalytic residue [active] 290400000903 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 290400000904 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 290400000905 ligand binding site [chemical binding]; other site 290400000906 NAD binding site [chemical binding]; other site 290400000907 dimerization interface [polypeptide binding]; other site 290400000908 catalytic site [active] 290400000909 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 290400000910 putative L-serine binding site [chemical binding]; other site 290400000911 beta-ketothiolase; Provisional; Region: PRK09051 290400000912 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 290400000913 dimer interface [polypeptide binding]; other site 290400000914 active site 290400000915 Transglycosylase; Region: Transgly; pfam00912 290400000916 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 290400000917 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290400000918 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 290400000919 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 290400000920 putative binding site; other site 290400000921 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 290400000922 MG2 domain; Region: A2M_N; pfam01835 290400000923 Alpha-2-macroglobulin family; Region: A2M; pfam00207 290400000924 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 290400000925 surface patch; other site 290400000926 thioester region; other site 290400000927 specificity defining residues; other site 290400000928 PAS fold; Region: PAS_7; pfam12860 290400000929 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 290400000930 dimer interface [polypeptide binding]; other site 290400000931 phosphorylation site [posttranslational modification] 290400000932 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 290400000933 ATP binding site [chemical binding]; other site 290400000934 Mg2+ binding site [ion binding]; other site 290400000935 G-X-G motif; other site 290400000936 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 290400000937 Response regulator receiver domain; Region: Response_reg; pfam00072 290400000938 active site 290400000939 phosphorylation site [posttranslational modification] 290400000940 intermolecular recognition site; other site 290400000941 dimerization interface [polypeptide binding]; other site 290400000942 L-asparaginase II; Region: Asparaginase_II; pfam06089 290400000943 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 290400000944 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 290400000945 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 290400000946 FeS/SAM binding site; other site 290400000947 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290400000948 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400000949 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 290400000950 putative NAD(P) binding site [chemical binding]; other site 290400000951 epoxyqueuosine reductase; Region: TIGR00276 290400000952 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 290400000953 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 290400000954 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400000955 C-terminal domain interface [polypeptide binding]; other site 290400000956 GSH binding site (G-site) [chemical binding]; other site 290400000957 dimer interface [polypeptide binding]; other site 290400000958 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 290400000959 N-terminal domain interface [polypeptide binding]; other site 290400000960 dimer interface [polypeptide binding]; other site 290400000961 substrate binding pocket (H-site) [chemical binding]; other site 290400000962 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 290400000963 Transglycosylase; Region: Transgly; cl17702 290400000964 agmatinase; Region: agmatinase; TIGR01230 290400000965 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 290400000966 oligomer interface [polypeptide binding]; other site 290400000967 active site 290400000968 Mn binding site [ion binding]; other site 290400000969 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 290400000970 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 290400000971 active site 290400000972 DNA binding site [nucleotide binding] 290400000973 Int/Topo IB signature motif; other site 290400000974 hypothetical protein; Provisional; Region: PRK07490 290400000975 active site 290400000976 intersubunit interface [polypeptide binding]; other site 290400000977 Zn2+ binding site [ion binding]; other site 290400000978 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400000979 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400000980 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 290400000981 putative effector binding pocket; other site 290400000982 dimerization interface [polypeptide binding]; other site 290400000983 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400000984 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400000985 ligand binding site [chemical binding]; other site 290400000986 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400000987 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290400000988 Coenzyme A binding pocket [chemical binding]; other site 290400000989 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 290400000990 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 290400000991 putative MPT binding site; other site 290400000992 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 290400000993 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 290400000994 active site 290400000995 hypothetical protein; Reviewed; Region: PRK00024 290400000996 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 290400000997 MPN+ (JAMM) motif; other site 290400000998 Zinc-binding site [ion binding]; other site 290400000999 PBP superfamily domain; Region: PBP_like_2; cl17296 290400001000 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400001001 ligand binding site [chemical binding]; other site 290400001002 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 290400001003 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 290400001004 SEC-C motif; Region: SEC-C; pfam02810 290400001005 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 290400001006 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 290400001007 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 290400001008 heterotetramer interface [polypeptide binding]; other site 290400001009 active site pocket [active] 290400001010 cleavage site 290400001011 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 290400001012 active site 290400001013 8-oxo-dGMP binding site [chemical binding]; other site 290400001014 nudix motif; other site 290400001015 metal binding site [ion binding]; metal-binding site 290400001016 ferrochelatase; Reviewed; Region: hemH; PRK00035 290400001017 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 290400001018 C-terminal domain interface [polypeptide binding]; other site 290400001019 active site 290400001020 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 290400001021 active site 290400001022 N-terminal domain interface [polypeptide binding]; other site 290400001023 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400001024 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 290400001025 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 290400001026 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400001027 active site 290400001028 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 290400001029 GSH binding site [chemical binding]; other site 290400001030 catalytic residues [active] 290400001031 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400001032 MarR family; Region: MarR_2; pfam12802 290400001033 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 290400001034 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 290400001035 S-adenosylmethionine binding site [chemical binding]; other site 290400001036 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 290400001037 TAP-like protein; Region: Abhydrolase_4; pfam08386 290400001038 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 290400001039 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 290400001040 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 290400001041 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 290400001042 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 290400001043 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 290400001044 NMT1/THI5 like; Region: NMT1; pfam09084 290400001045 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400001046 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400001047 Walker A/P-loop; other site 290400001048 ATP binding site [chemical binding]; other site 290400001049 Q-loop/lid; other site 290400001050 ABC transporter signature motif; other site 290400001051 Walker B; other site 290400001052 D-loop; other site 290400001053 H-loop/switch region; other site 290400001054 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400001055 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 290400001056 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400001057 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 290400001058 dimer interface [polypeptide binding]; other site 290400001059 conserved gate region; other site 290400001060 putative PBP binding loops; other site 290400001061 ABC-ATPase subunit interface; other site 290400001062 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 290400001063 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 290400001064 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400001065 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400001066 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400001067 DNA binding site [nucleotide binding] 290400001068 domain linker motif; other site 290400001069 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 290400001070 putative dimerization interface [polypeptide binding]; other site 290400001071 putative ligand binding site [chemical binding]; other site 290400001072 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 290400001073 intersubunit interface [polypeptide binding]; other site 290400001074 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 290400001075 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 290400001076 metal binding site 2 [ion binding]; metal-binding site 290400001077 putative DNA binding helix; other site 290400001078 metal binding site 1 [ion binding]; metal-binding site 290400001079 dimer interface [polypeptide binding]; other site 290400001080 structural Zn2+ binding site [ion binding]; other site 290400001081 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 290400001082 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290400001083 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290400001084 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 290400001085 ABC-ATPase subunit interface; other site 290400001086 dimer interface [polypeptide binding]; other site 290400001087 putative PBP binding regions; other site 290400001088 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 290400001089 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 290400001090 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 290400001091 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400001092 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400001093 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 290400001094 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290400001095 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 290400001096 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 290400001097 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290400001098 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 290400001099 FeS/SAM binding site; other site 290400001100 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 290400001101 putative glutathione S-transferase; Provisional; Region: PRK10357 290400001102 GST_N family, unknown subfamily 3; 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_3; cd03049 290400001103 putative C-terminal domain interface [polypeptide binding]; other site 290400001104 putative GSH binding site (G-site) [chemical binding]; other site 290400001105 putative dimer interface [polypeptide binding]; other site 290400001106 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 290400001107 dimer interface [polypeptide binding]; other site 290400001108 N-terminal domain interface [polypeptide binding]; other site 290400001109 putative substrate binding pocket (H-site) [chemical binding]; other site 290400001110 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 290400001111 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400001112 Coenzyme A binding pocket [chemical binding]; other site 290400001113 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 290400001114 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 290400001115 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 290400001116 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 290400001117 [2Fe-2S] cluster binding site [ion binding]; other site 290400001118 cytochrome b; Provisional; Region: CYTB; MTH00191 290400001119 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 290400001120 intrachain domain interface; other site 290400001121 interchain domain interface [polypeptide binding]; other site 290400001122 heme bH binding site [chemical binding]; other site 290400001123 Qi binding site; other site 290400001124 heme bL binding site [chemical binding]; other site 290400001125 Qo binding site; other site 290400001126 Cytochrome b(C-terminus)/b6/petD: 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_C; cd00290 290400001127 interchain domain interface [polypeptide binding]; other site 290400001128 intrachain domain interface; other site 290400001129 Qi binding site; other site 290400001130 Qo binding site; other site 290400001131 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 290400001132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400001133 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 290400001134 Walker A/P-loop; other site 290400001135 ATP binding site [chemical binding]; other site 290400001136 Q-loop/lid; other site 290400001137 ABC transporter signature motif; other site 290400001138 Walker B; other site 290400001139 D-loop; other site 290400001140 H-loop/switch region; other site 290400001141 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 290400001142 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 290400001143 dimer interface [polypeptide binding]; other site 290400001144 conserved gate region; other site 290400001145 putative PBP binding loops; other site 290400001146 ABC-ATPase subunit interface; other site 290400001147 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 290400001148 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 290400001149 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 290400001150 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 290400001151 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 290400001152 Tetramer interface [polypeptide binding]; other site 290400001153 active site 290400001154 FMN-binding site [chemical binding]; other site 290400001155 threonine dehydratase; Provisional; Region: PRK08198 290400001156 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 290400001157 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290400001158 catalytic residues [active] 290400001159 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 290400001160 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 290400001161 EamA-like transporter family; Region: EamA; pfam00892 290400001162 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290400001163 EamA-like transporter family; Region: EamA; pfam00892 290400001164 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 290400001165 IHF dimer interface [polypeptide binding]; other site 290400001166 IHF - DNA interface [nucleotide binding]; other site 290400001167 AMP nucleosidase; Provisional; Region: PRK08292 290400001168 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 290400001169 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 290400001170 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 290400001171 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 290400001172 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 290400001173 active site 290400001174 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 290400001175 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 290400001176 YGGT family; Region: YGGT; pfam02325 290400001177 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 290400001178 active site 290400001179 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 290400001180 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 290400001181 putative substrate translocation pore; other site 290400001182 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 290400001183 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 290400001184 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 290400001185 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 290400001186 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 290400001187 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 290400001188 trimer interface [polypeptide binding]; other site 290400001189 active site 290400001190 substrate binding site [chemical binding]; other site 290400001191 CoA binding site [chemical binding]; other site 290400001192 Hint domain; Region: Hint_2; pfam13403 290400001193 Hint domain; Region: Hint_2; pfam13403 290400001194 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 290400001195 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 290400001196 metal binding site [ion binding]; metal-binding site 290400001197 dimer interface [polypeptide binding]; other site 290400001198 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 290400001199 active site 290400001200 substrate binding site [chemical binding]; other site 290400001201 trimer interface [polypeptide binding]; other site 290400001202 ribonuclease R; Region: RNase_R; TIGR02063 290400001203 RNB domain; Region: RNB; pfam00773 290400001204 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 290400001205 RNA binding site [nucleotide binding]; other site 290400001206 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290400001207 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400001208 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400001209 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400001210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 290400001211 MOSC domain; Region: MOSC; pfam03473 290400001212 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 290400001213 putative hydrophobic ligand binding site [chemical binding]; other site 290400001214 Predicted transcriptional regulators [Transcription]; Region: COG1733 290400001215 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290400001216 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400001217 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 290400001218 active site 290400001219 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290400001220 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 290400001221 homodimer interface [polypeptide binding]; other site 290400001222 substrate-cofactor binding pocket; other site 290400001223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400001224 catalytic residue [active] 290400001225 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 290400001226 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 290400001227 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 290400001228 active site 290400001229 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 290400001230 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 290400001231 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 290400001232 putative dimer interface [polypeptide binding]; other site 290400001233 N-terminal domain interface [polypeptide binding]; other site 290400001234 putative substrate binding pocket (H-site) [chemical binding]; other site 290400001235 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 290400001236 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 290400001237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400001238 catalytic residue [active] 290400001239 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 290400001240 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290400001241 murein hydrolase B; Provisional; Region: PRK10760; cl17906 290400001242 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400001243 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 290400001244 ParB-like nuclease domain; Region: ParB; smart00470 290400001245 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 290400001246 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 290400001247 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290400001248 Walker A/P-loop; other site 290400001249 ATP binding site [chemical binding]; other site 290400001250 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 290400001251 Walker B; other site 290400001252 D-loop; other site 290400001253 H-loop/switch region; other site 290400001254 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 290400001255 non-specific DNA binding site [nucleotide binding]; other site 290400001256 salt bridge; other site 290400001257 sequence-specific DNA binding site [nucleotide binding]; other site 290400001258 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 290400001259 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 290400001260 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 290400001261 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 290400001262 phosphoglyceromutase; Provisional; Region: PRK05434 290400001263 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 290400001264 Peptidase family M23; Region: Peptidase_M23; pfam01551 290400001265 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 290400001266 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 290400001267 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 290400001268 protein binding site [polypeptide binding]; other site 290400001269 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 290400001270 Catalytic dyad [active] 290400001271 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 290400001272 putative active site [active] 290400001273 Ap4A binding site [chemical binding]; other site 290400001274 nudix motif; other site 290400001275 putative metal binding site [ion binding]; other site 290400001276 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 290400001277 Cupin-like domain; Region: Cupin_8; pfam13621 290400001278 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 290400001279 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; cl17355 290400001280 DNA binding site [nucleotide binding] 290400001281 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 290400001282 RNA/DNA hybrid binding site [nucleotide binding]; other site 290400001283 active site 290400001284 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 290400001285 DNA methylase; Region: N6_N4_Mtase; pfam01555 290400001286 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 290400001287 NADH(P)-binding; Region: NAD_binding_10; pfam13460 290400001288 NAD binding site [chemical binding]; other site 290400001289 substrate binding site [chemical binding]; other site 290400001290 putative active site [active] 290400001291 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 290400001292 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290400001293 Di-iron ligands [ion binding]; other site 290400001294 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 290400001295 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290400001296 minor groove reading motif; other site 290400001297 helix-hairpin-helix signature motif; other site 290400001298 substrate binding pocket [chemical binding]; other site 290400001299 active site 290400001300 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 290400001301 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 290400001302 DNA binding and oxoG recognition site [nucleotide binding] 290400001303 Protein of unknown function (DUF721); Region: DUF721; pfam05258 290400001304 Thioredoxin; Region: Thioredoxin_4; pfam13462 290400001305 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 290400001306 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 290400001307 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 290400001308 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 290400001309 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 290400001310 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290400001311 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 290400001312 active site 290400001313 peptidase PmbA; Provisional; Region: PRK11040 290400001314 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 290400001315 short chain dehydrogenase; Provisional; Region: PRK12828 290400001316 classical (c) SDRs; Region: SDR_c; cd05233 290400001317 NAD(P) binding site [chemical binding]; other site 290400001318 active site 290400001319 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 290400001320 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 290400001321 substrate binding site [chemical binding]; other site 290400001322 oxyanion hole (OAH) forming residues; other site 290400001323 trimer interface [polypeptide binding]; other site 290400001324 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290400001325 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 290400001326 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 290400001327 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400001328 putative C-terminal domain interface [polypeptide binding]; other site 290400001329 putative GSH binding site (G-site) [chemical binding]; other site 290400001330 putative dimer interface [polypeptide binding]; other site 290400001331 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 290400001332 substrate binding pocket (H-site) [chemical binding]; other site 290400001333 N-terminal domain interface [polypeptide binding]; other site 290400001334 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 290400001335 Lipopolysaccharide-assembly; Region: LptE; pfam04390 290400001336 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 290400001337 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 290400001338 HIGH motif; other site 290400001339 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 290400001340 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400001341 active site 290400001342 KMSKS motif; other site 290400001343 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 290400001344 tRNA binding surface [nucleotide binding]; other site 290400001345 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 290400001346 Gram-negative porin; Region: Porin_4; pfam13609 290400001347 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 290400001348 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400001349 catalytic residue [active] 290400001350 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 290400001351 GTP cyclohydrolase; Provisional; Region: PRK08815 290400001352 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 290400001353 dimerization interface [polypeptide binding]; other site 290400001354 active site 290400001355 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400001356 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 290400001357 active site 290400001358 phosphorylation site [posttranslational modification] 290400001359 intermolecular recognition site; other site 290400001360 dimerization interface [polypeptide binding]; other site 290400001361 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 290400001362 DNA binding site [nucleotide binding] 290400001363 LysE type translocator; Region: LysE; cl00565 290400001364 H+ Antiporter protein; Region: 2A0121; TIGR00900 290400001365 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 290400001366 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400001367 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 290400001368 putative catalytic site [active] 290400001369 putative phosphate binding site [ion binding]; other site 290400001370 active site 290400001371 metal binding site A [ion binding]; metal-binding site 290400001372 DNA binding site [nucleotide binding] 290400001373 putative AP binding site [nucleotide binding]; other site 290400001374 putative metal binding site B [ion binding]; other site 290400001375 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 290400001376 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 290400001377 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 290400001378 TPR motif; other site 290400001379 binding surface 290400001380 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 290400001381 Uncharacterized conserved protein [Function unknown]; Region: COG2835 290400001382 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 290400001383 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400001384 hypothetical protein; Provisional; Region: PRK06102 290400001385 Amidase; Region: Amidase; cl11426 290400001386 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 290400001387 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 290400001388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400001389 homodimer interface [polypeptide binding]; other site 290400001390 catalytic residue [active] 290400001391 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 290400001392 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 290400001393 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 290400001394 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 290400001395 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 290400001396 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 290400001397 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400001398 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400001399 catalytic residue [active] 290400001400 Predicted permeases [General function prediction only]; Region: COG0679 290400001401 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 290400001402 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 290400001403 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400001404 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 290400001405 Walker A/P-loop; other site 290400001406 ATP binding site [chemical binding]; other site 290400001407 Q-loop/lid; other site 290400001408 ABC transporter signature motif; other site 290400001409 Walker B; other site 290400001410 D-loop; other site 290400001411 H-loop/switch region; other site 290400001412 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 290400001413 HlyD family secretion protein; Region: HlyD_3; pfam13437 290400001414 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 290400001415 homotrimer interaction site [polypeptide binding]; other site 290400001416 putative active site [active] 290400001417 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 290400001418 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 290400001419 active site 290400001420 catalytic site [active] 290400001421 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 290400001422 Protein of unknown function, DUF482; Region: DUF482; pfam04339 290400001423 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 290400001424 aromatic arch; other site 290400001425 DCoH dimer interaction site [polypeptide binding]; other site 290400001426 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 290400001427 DCoH tetramer interaction site [polypeptide binding]; other site 290400001428 substrate binding site [chemical binding]; other site 290400001429 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 290400001430 catalytic triad [active] 290400001431 dimer interface [polypeptide binding]; other site 290400001432 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 290400001433 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400001434 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400001435 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 290400001436 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 290400001437 S-adenosylmethionine binding site [chemical binding]; other site 290400001438 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 290400001439 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 290400001440 motif II; other site 290400001441 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 290400001442 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 290400001443 ATP binding site [chemical binding]; other site 290400001444 putative Mg++ binding site [ion binding]; other site 290400001445 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 290400001446 nucleotide binding region [chemical binding]; other site 290400001447 ATP-binding site [chemical binding]; other site 290400001448 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 290400001449 HRDC domain; Region: HRDC; pfam00570 290400001450 HRDC domain; Region: HRDC; pfam00570 290400001451 Protein of unknown function (DUF328); Region: DUF328; pfam03883 290400001452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 290400001453 N-formylglutamate amidohydrolase; Region: FGase; cl01522 290400001454 pyruvate kinase; Provisional; Region: PRK06247 290400001455 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 290400001456 domain interfaces; other site 290400001457 active site 290400001458 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 290400001459 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 290400001460 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 290400001461 23S rRNA binding site [nucleotide binding]; other site 290400001462 L21 binding site [polypeptide binding]; other site 290400001463 L13 binding site [polypeptide binding]; other site 290400001464 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 290400001465 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 290400001466 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 290400001467 dimer interface [polypeptide binding]; other site 290400001468 motif 1; other site 290400001469 active site 290400001470 motif 2; other site 290400001471 motif 3; other site 290400001472 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 290400001473 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 290400001474 putative tRNA-binding site [nucleotide binding]; other site 290400001475 B3/4 domain; Region: B3_4; pfam03483 290400001476 tRNA synthetase B5 domain; Region: B5; smart00874 290400001477 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 290400001478 dimer interface [polypeptide binding]; other site 290400001479 motif 1; other site 290400001480 motif 3; other site 290400001481 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 290400001482 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 290400001483 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400001484 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 290400001485 C-terminal domain interface [polypeptide binding]; other site 290400001486 GSH binding site (G-site) [chemical binding]; other site 290400001487 dimer interface [polypeptide binding]; other site 290400001488 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 290400001489 dimer interface [polypeptide binding]; other site 290400001490 N-terminal domain interface [polypeptide binding]; other site 290400001491 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 290400001492 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 290400001493 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 290400001494 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 290400001495 hexamer interface [polypeptide binding]; other site 290400001496 ligand binding site [chemical binding]; other site 290400001497 putative active site [active] 290400001498 NAD(P) binding site [chemical binding]; other site 290400001499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400001500 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 290400001501 putative DNA binding site [nucleotide binding]; other site 290400001502 putative Zn2+ binding site [ion binding]; other site 290400001503 AsnC family; Region: AsnC_trans_reg; pfam01037 290400001504 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 290400001505 AzlC protein; Region: AzlC; pfam03591 290400001506 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 290400001507 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 290400001508 GTP binding site; other site 290400001509 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 290400001510 EamA-like transporter family; Region: EamA; pfam00892 290400001511 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 290400001512 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 290400001513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400001514 homodimer interface [polypeptide binding]; other site 290400001515 catalytic residue [active] 290400001516 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 290400001517 active site 290400001518 catalytic residues [active] 290400001519 metal binding site [ion binding]; metal-binding site 290400001520 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 290400001521 active site 290400001522 catalytic residues [active] 290400001523 metal binding site [ion binding]; metal-binding site 290400001524 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 290400001525 active site 290400001526 catalytic residues [active] 290400001527 metal binding site [ion binding]; metal-binding site 290400001528 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 290400001529 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 290400001530 putative active site [active] 290400001531 substrate binding site [chemical binding]; other site 290400001532 putative cosubstrate binding site; other site 290400001533 catalytic site [active] 290400001534 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 290400001535 substrate binding site [chemical binding]; other site 290400001536 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 290400001537 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 290400001538 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 290400001539 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 290400001540 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 290400001541 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 290400001542 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290400001543 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290400001544 putative acyl-acceptor binding pocket; other site 290400001545 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 290400001546 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 290400001547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400001548 Walker A/P-loop; other site 290400001549 ATP binding site [chemical binding]; other site 290400001550 Q-loop/lid; other site 290400001551 ABC transporter signature motif; other site 290400001552 Walker B; other site 290400001553 D-loop; other site 290400001554 H-loop/switch region; other site 290400001555 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 290400001556 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 290400001557 diaminopimelate decarboxylase; Region: lysA; TIGR01048 290400001558 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 290400001559 active site 290400001560 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400001561 substrate binding site [chemical binding]; other site 290400001562 catalytic residues [active] 290400001563 dimer interface [polypeptide binding]; other site 290400001564 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 290400001565 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 290400001566 NADP binding site [chemical binding]; other site 290400001567 dimer interface [polypeptide binding]; other site 290400001568 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 290400001569 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 290400001570 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400001571 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 290400001572 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 290400001573 binding surface 290400001574 TPR motif; other site 290400001575 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 290400001576 TPR motif; other site 290400001577 TPR repeat; Region: TPR_11; pfam13414 290400001578 binding surface 290400001579 TPR repeat; Region: TPR_11; pfam13414 290400001580 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 290400001581 binding surface 290400001582 TPR motif; other site 290400001583 TPR repeat; Region: TPR_11; pfam13414 290400001584 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 290400001585 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 290400001586 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 290400001587 substrate binding pocket [chemical binding]; other site 290400001588 chain length determination region; other site 290400001589 substrate-Mg2+ binding site; other site 290400001590 catalytic residues [active] 290400001591 aspartate-rich region 1; other site 290400001592 active site lid residues [active] 290400001593 aspartate-rich region 2; other site 290400001594 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 290400001595 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 290400001596 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 290400001597 S-adenosylmethionine binding site [chemical binding]; other site 290400001598 Protein of unknown function (DUF465); Region: DUF465; cl01070 290400001599 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290400001600 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400001601 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290400001602 dimerization interface [polypeptide binding]; other site 290400001603 substrate binding pocket [chemical binding]; other site 290400001604 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 290400001605 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 290400001606 NAD(P) binding site [chemical binding]; other site 290400001607 homotetramer interface [polypeptide binding]; other site 290400001608 homodimer interface [polypeptide binding]; other site 290400001609 active site 290400001610 putative acyltransferase; Provisional; Region: PRK05790 290400001611 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 290400001612 dimer interface [polypeptide binding]; other site 290400001613 active site 290400001614 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 290400001615 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 290400001616 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 290400001617 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290400001618 catalytic residues [active] 290400001619 argininosuccinate lyase; Provisional; Region: PRK00855 290400001620 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 290400001621 active sites [active] 290400001622 tetramer interface [polypeptide binding]; other site 290400001623 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 290400001624 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 290400001625 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 290400001626 Predicted membrane protein [Function unknown]; Region: COG2860 290400001627 UPF0126 domain; Region: UPF0126; pfam03458 290400001628 UPF0126 domain; Region: UPF0126; pfam03458 290400001629 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 290400001630 nudix motif; other site 290400001631 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 290400001632 RNA/DNA hybrid binding site [nucleotide binding]; other site 290400001633 active site 290400001634 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400001635 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400001636 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 290400001637 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400001638 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290400001639 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 290400001640 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 290400001641 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 290400001642 putative catalytic residues [active] 290400001643 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400001644 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400001645 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 290400001646 Uncharacterized conserved protein [Function unknown]; Region: COG1432 290400001647 LabA_like proteins; Region: LabA; cd10911 290400001648 putative metal binding site [ion binding]; other site 290400001649 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 290400001650 catalytic center binding site [active] 290400001651 ATP binding site [chemical binding]; other site 290400001652 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 290400001653 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 290400001654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290400001655 Zn2+ binding site [ion binding]; other site 290400001656 Mg2+ binding site [ion binding]; other site 290400001657 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290400001658 synthetase active site [active] 290400001659 NTP binding site [chemical binding]; other site 290400001660 metal binding site [ion binding]; metal-binding site 290400001661 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 290400001662 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 290400001663 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 290400001664 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 290400001665 active site 290400001666 hydrophilic channel; other site 290400001667 dimerization interface [polypeptide binding]; other site 290400001668 catalytic residues [active] 290400001669 active site lid [active] 290400001670 LysE type translocator; Region: LysE; cl00565 290400001671 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 290400001672 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 290400001673 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 290400001674 Catalytic site [active] 290400001675 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 290400001676 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 290400001677 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 290400001678 dimerization interface [polypeptide binding]; other site 290400001679 active site 290400001680 metal binding site [ion binding]; metal-binding site 290400001681 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 290400001682 Predicted small integral membrane protein (DUF2165); Region: DUF2165; pfam09933 290400001683 GTPase Era; Reviewed; Region: era; PRK00089 290400001684 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 290400001685 G1 box; other site 290400001686 GTP/Mg2+ binding site [chemical binding]; other site 290400001687 Switch I region; other site 290400001688 G2 box; other site 290400001689 Switch II region; other site 290400001690 G3 box; other site 290400001691 G4 box; other site 290400001692 G5 box; other site 290400001693 KH domain; Region: KH_2; pfam07650 290400001694 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 290400001695 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 290400001696 Recombination protein O N terminal; Region: RecO_N; pfam11967 290400001697 Recombination protein O C terminal; Region: RecO_C; pfam02565 290400001698 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 290400001699 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 290400001700 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 290400001701 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 290400001702 NADP binding site [chemical binding]; other site 290400001703 putative substrate binding site [chemical binding]; other site 290400001704 active site 290400001705 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400001706 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400001707 active site 290400001708 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400001709 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 290400001710 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 290400001711 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 290400001712 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 290400001713 active site 290400001714 substrate-binding site [chemical binding]; other site 290400001715 metal-binding site [ion binding] 290400001716 ATP binding site [chemical binding]; other site 290400001717 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400001718 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 290400001719 active site 290400001720 phosphorylation site [posttranslational modification] 290400001721 intermolecular recognition site; other site 290400001722 dimerization interface [polypeptide binding]; other site 290400001723 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 290400001724 DNA binding site [nucleotide binding] 290400001725 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 290400001726 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 290400001727 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400001728 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 290400001729 dimer interface [polypeptide binding]; other site 290400001730 phosphorylation site [posttranslational modification] 290400001731 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 290400001732 ATP binding site [chemical binding]; other site 290400001733 Mg2+ binding site [ion binding]; other site 290400001734 G-X-G motif; other site 290400001735 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 290400001736 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 290400001737 active pocket/dimerization site; other site 290400001738 active site 290400001739 phosphorylation site [posttranslational modification] 290400001740 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 290400001741 regulatory protein interface [polypeptide binding]; other site 290400001742 active site 290400001743 regulatory phosphorylation site [posttranslational modification]; other site 290400001744 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 290400001745 putative acyl-acceptor binding pocket; other site 290400001746 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 290400001747 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290400001748 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400001749 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 290400001750 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 290400001751 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 290400001752 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 290400001753 Ligand binding site [chemical binding]; other site 290400001754 Electron transfer flavoprotein domain; Region: ETF; pfam01012 290400001755 Haemolysin-III related; Region: HlyIII; cl03831 290400001756 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 290400001757 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 290400001758 short chain dehydrogenase; Provisional; Region: PRK05993 290400001759 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 290400001760 NADP binding site [chemical binding]; other site 290400001761 active site 290400001762 steroid binding site; other site 290400001763 Bacterial SH3 domain homologues; Region: SH3b; smart00287 290400001764 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 290400001765 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 290400001766 CAP-like domain; other site 290400001767 active site 290400001768 primary dimer interface [polypeptide binding]; other site 290400001769 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290400001770 elongation factor Tu; Reviewed; Region: PRK00049 290400001771 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290400001772 G1 box; other site 290400001773 GEF interaction site [polypeptide binding]; other site 290400001774 GTP/Mg2+ binding site [chemical binding]; other site 290400001775 Switch I region; other site 290400001776 G2 box; other site 290400001777 G3 box; other site 290400001778 Switch II region; other site 290400001779 G4 box; other site 290400001780 G5 box; other site 290400001781 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 290400001782 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 290400001783 Antibiotic Binding Site [chemical binding]; other site 290400001784 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 290400001785 dimer interface [polypeptide binding]; other site 290400001786 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400001787 ligand binding site [chemical binding]; other site 290400001788 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 290400001789 putative active site [active] 290400001790 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 290400001791 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 290400001792 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 290400001793 putative homodimer interface [polypeptide binding]; other site 290400001794 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 290400001795 heterodimer interface [polypeptide binding]; other site 290400001796 homodimer interface [polypeptide binding]; other site 290400001797 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 290400001798 putative hydrophobic ligand binding site [chemical binding]; other site 290400001799 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 290400001800 dimerization interface [polypeptide binding]; other site 290400001801 putative DNA binding site [nucleotide binding]; other site 290400001802 putative Zn2+ binding site [ion binding]; other site 290400001803 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 290400001804 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 290400001805 23S rRNA interface [nucleotide binding]; other site 290400001806 L7/L12 interface [polypeptide binding]; other site 290400001807 putative thiostrepton binding site; other site 290400001808 L25 interface [polypeptide binding]; other site 290400001809 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 290400001810 mRNA/rRNA interface [nucleotide binding]; other site 290400001811 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 290400001812 23S rRNA interface [nucleotide binding]; other site 290400001813 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 290400001814 core dimer interface [polypeptide binding]; other site 290400001815 peripheral dimer interface [polypeptide binding]; other site 290400001816 L10 interface [polypeptide binding]; other site 290400001817 L11 interface [polypeptide binding]; other site 290400001818 putative EF-Tu interaction site [polypeptide binding]; other site 290400001819 putative EF-G interaction site [polypeptide binding]; other site 290400001820 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 290400001821 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 290400001822 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 290400001823 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 290400001824 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 290400001825 RPB12 interaction site [polypeptide binding]; other site 290400001826 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 290400001827 RPB11 interaction site [polypeptide binding]; other site 290400001828 RPB12 interaction site [polypeptide binding]; other site 290400001829 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 290400001830 RPB3 interaction site [polypeptide binding]; other site 290400001831 RPB1 interaction site [polypeptide binding]; other site 290400001832 RPB11 interaction site [polypeptide binding]; other site 290400001833 RPB10 interaction site [polypeptide binding]; other site 290400001834 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 290400001835 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 290400001836 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 290400001837 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 290400001838 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 290400001839 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 290400001840 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 290400001841 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 290400001842 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 290400001843 DNA binding site [nucleotide binding] 290400001844 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 290400001845 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 290400001846 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400001847 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 290400001848 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 290400001849 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400001850 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 290400001851 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 290400001852 S17 interaction site [polypeptide binding]; other site 290400001853 S8 interaction site; other site 290400001854 16S rRNA interaction site [nucleotide binding]; other site 290400001855 streptomycin interaction site [chemical binding]; other site 290400001856 23S rRNA interaction site [nucleotide binding]; other site 290400001857 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 290400001858 30S ribosomal protein S7; Validated; Region: PRK05302 290400001859 elongation factor G; Reviewed; Region: PRK00007 290400001860 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 290400001861 G1 box; other site 290400001862 putative GEF interaction site [polypeptide binding]; other site 290400001863 GTP/Mg2+ binding site [chemical binding]; other site 290400001864 Switch I region; other site 290400001865 G2 box; other site 290400001866 G3 box; other site 290400001867 Switch II region; other site 290400001868 G4 box; other site 290400001869 G5 box; other site 290400001870 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 290400001871 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 290400001872 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 290400001873 elongation factor Tu; Reviewed; Region: PRK00049 290400001874 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 290400001875 G1 box; other site 290400001876 GEF interaction site [polypeptide binding]; other site 290400001877 GTP/Mg2+ binding site [chemical binding]; other site 290400001878 Switch I region; other site 290400001879 G2 box; other site 290400001880 G3 box; other site 290400001881 Switch II region; other site 290400001882 G4 box; other site 290400001883 G5 box; other site 290400001884 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 290400001885 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 290400001886 Antibiotic Binding Site [chemical binding]; other site 290400001887 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 290400001888 dimerization interface [polypeptide binding]; other site 290400001889 metal binding site [ion binding]; metal-binding site 290400001890 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 290400001891 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 290400001892 Catalytic site; other site 290400001893 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 290400001894 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 290400001895 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 290400001896 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 290400001897 Protein of unknown function, DUF488; Region: DUF488; pfam04343 290400001898 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 290400001899 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 290400001900 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 290400001901 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 290400001902 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 290400001903 putative translocon binding site; other site 290400001904 protein-rRNA interface [nucleotide binding]; other site 290400001905 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 290400001906 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 290400001907 G-X-X-G motif; other site 290400001908 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 290400001909 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 290400001910 23S rRNA interface [nucleotide binding]; other site 290400001911 5S rRNA interface [nucleotide binding]; other site 290400001912 putative antibiotic binding site [chemical binding]; other site 290400001913 L25 interface [polypeptide binding]; other site 290400001914 L27 interface [polypeptide binding]; other site 290400001915 Protein of unknown function (DUF998); Region: DUF998; pfam06197 290400001916 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290400001917 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 290400001918 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 290400001919 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; cl17879 290400001920 Methyltransferase domain; Region: Methyltransf_24; pfam13578 290400001921 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 290400001922 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 290400001923 putative translocon interaction site; other site 290400001924 23S rRNA interface [nucleotide binding]; other site 290400001925 signal recognition particle (SRP54) interaction site; other site 290400001926 L23 interface [polypeptide binding]; other site 290400001927 trigger factor interaction site; other site 290400001928 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 290400001929 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 290400001930 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 290400001931 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 290400001932 RNA binding site [nucleotide binding]; other site 290400001933 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 290400001934 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 290400001935 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 290400001936 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 290400001937 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 290400001938 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 290400001939 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290400001940 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 290400001941 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 290400001942 5S rRNA interface [nucleotide binding]; other site 290400001943 23S rRNA interface [nucleotide binding]; other site 290400001944 L5 interface [polypeptide binding]; other site 290400001945 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 290400001946 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 290400001947 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 290400001948 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 290400001949 23S rRNA binding site [nucleotide binding]; other site 290400001950 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290400001951 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 290400001952 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 290400001953 SecY translocase; Region: SecY; pfam00344 290400001954 adenylate kinase; Reviewed; Region: adk; PRK00279 290400001955 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 290400001956 AMP-binding site [chemical binding]; other site 290400001957 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 290400001958 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 290400001959 30S ribosomal protein S13; Region: bact_S13; TIGR03631 290400001960 30S ribosomal protein S11; Validated; Region: PRK05309 290400001961 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 290400001962 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 290400001963 alphaNTD - beta interaction site [polypeptide binding]; other site 290400001964 alphaNTD homodimer interface [polypeptide binding]; other site 290400001965 alphaNTD - beta' interaction site [polypeptide binding]; other site 290400001966 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 290400001967 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 290400001968 Autoinducer binding domain; Region: Autoind_bind; pfam03472 290400001969 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 290400001970 DNA binding residues [nucleotide binding] 290400001971 dimerization interface [polypeptide binding]; other site 290400001972 Autoinducer synthetase; Region: Autoind_synth; cl17404 290400001973 recombination factor protein RarA; Reviewed; Region: PRK13342 290400001974 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 290400001975 Walker A motif; other site 290400001976 ATP binding site [chemical binding]; other site 290400001977 Walker B motif; other site 290400001978 arginine finger; other site 290400001979 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 290400001980 CrcB-like protein; Region: CRCB; cl09114 290400001981 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290400001982 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 290400001983 RNA binding surface [nucleotide binding]; other site 290400001984 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290400001985 active site 290400001986 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290400001987 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 290400001988 motif II; other site 290400001989 ATP12 chaperone protein; Region: ATP12; pfam07542 290400001990 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 290400001991 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 290400001992 substrate binding pocket [chemical binding]; other site 290400001993 membrane-bound complex binding site; other site 290400001994 hinge residues; other site 290400001995 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 290400001996 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 290400001997 conserved gate region; other site 290400001998 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 290400001999 dimer interface [polypeptide binding]; other site 290400002000 ABC-ATPase subunit interface; other site 290400002001 putative PBP binding loops; other site 290400002002 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 290400002003 dimer interface [polypeptide binding]; other site 290400002004 conserved gate region; other site 290400002005 putative PBP binding loops; other site 290400002006 ABC-ATPase subunit interface; other site 290400002007 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290400002008 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290400002009 Walker A/P-loop; other site 290400002010 ATP binding site [chemical binding]; other site 290400002011 Q-loop/lid; other site 290400002012 ABC transporter signature motif; other site 290400002013 Walker B; other site 290400002014 D-loop; other site 290400002015 H-loop/switch region; other site 290400002016 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 290400002017 catalytic core [active] 290400002018 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 290400002019 feedback inhibition sensing region; other site 290400002020 homohexameric interface [polypeptide binding]; other site 290400002021 nucleotide binding site [chemical binding]; other site 290400002022 N-acetyl-L-glutamate binding site [chemical binding]; other site 290400002023 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 290400002024 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 290400002025 G1 box; other site 290400002026 GTP/Mg2+ binding site [chemical binding]; other site 290400002027 Switch I region; other site 290400002028 G2 box; other site 290400002029 G3 box; other site 290400002030 Switch II region; other site 290400002031 G4 box; other site 290400002032 G5 box; other site 290400002033 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 290400002034 trimer interface [polypeptide binding]; other site 290400002035 active site 290400002036 substrate binding site [chemical binding]; other site 290400002037 CoA binding site [chemical binding]; other site 290400002038 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 290400002039 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 290400002040 MOSC domain; Region: MOSC; pfam03473 290400002041 membrane protein insertase; Provisional; Region: PRK01318 290400002042 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 290400002043 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400002044 metal binding site [ion binding]; metal-binding site 290400002045 active site 290400002046 I-site; other site 290400002047 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 290400002048 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 290400002049 Haemolytic domain; Region: Haemolytic; pfam01809 290400002050 Ribonuclease P; Region: Ribonuclease_P; pfam00825 290400002051 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 290400002052 Uncharacterized conserved protein [Function unknown]; Region: COG1683 290400002053 Uncharacterized conserved protein [Function unknown]; Region: COG0398 290400002054 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 290400002055 mercuric reductase; Validated; Region: PRK06370 290400002056 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400002057 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290400002058 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400002059 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 290400002060 dimer interface [polypeptide binding]; other site 290400002061 phosphorylation site [posttranslational modification] 290400002062 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 290400002063 ATP binding site [chemical binding]; other site 290400002064 Mg2+ binding site [ion binding]; other site 290400002065 G-X-G motif; other site 290400002066 Domain of unknown function (DUF4394); Region: DUF4394; pfam14339 290400002067 RNA polymerase sigma factor; Provisional; Region: PRK12514 290400002068 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400002069 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290400002070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 290400002071 Anti-sigma-K factor rskA; Region: RskA; pfam10099 290400002072 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 290400002073 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 290400002074 dimer interface [polypeptide binding]; other site 290400002075 active site 290400002076 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 290400002077 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 290400002078 FAD binding pocket [chemical binding]; other site 290400002079 FAD binding motif [chemical binding]; other site 290400002080 phosphate binding motif [ion binding]; other site 290400002081 beta-alpha-beta structure motif; other site 290400002082 NAD(p) ribose binding residues [chemical binding]; other site 290400002083 NAD binding pocket [chemical binding]; other site 290400002084 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 290400002085 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 290400002086 catalytic loop [active] 290400002087 iron binding site [ion binding]; other site 290400002088 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 290400002089 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 290400002090 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 290400002091 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 290400002092 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 290400002093 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 290400002094 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400002095 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 290400002096 acyl-activating enzyme (AAE) consensus motif; other site 290400002097 AMP binding site [chemical binding]; other site 290400002098 active site 290400002099 CoA binding site [chemical binding]; other site 290400002100 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 290400002101 CoenzymeA binding site [chemical binding]; other site 290400002102 subunit interaction site [polypeptide binding]; other site 290400002103 PHB binding site; other site 290400002104 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 290400002105 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 290400002106 substrate binding site [chemical binding]; other site 290400002107 dimer interface [polypeptide binding]; other site 290400002108 NADP binding site [chemical binding]; other site 290400002109 catalytic residues [active] 290400002110 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 290400002111 active site 2 [active] 290400002112 active site 1 [active] 290400002113 PaaX-like protein; Region: PaaX; pfam07848 290400002114 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 290400002115 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400002116 MarR family; Region: MarR_2; cl17246 290400002117 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400002118 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 290400002119 DctM-like transporters; Region: DctM; pfam06808 290400002120 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400002121 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400002122 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400002123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400002124 NAD(P) binding site [chemical binding]; other site 290400002125 active site 290400002126 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 290400002127 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 290400002128 substrate binding site [chemical binding]; other site 290400002129 oxyanion hole (OAH) forming residues; other site 290400002130 trimer interface [polypeptide binding]; other site 290400002131 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400002132 MarR family; Region: MarR_2; pfam12802 290400002133 feruloyl-CoA synthase; Reviewed; Region: PRK08180 290400002134 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 290400002135 acyl-activating enzyme (AAE) consensus motif; other site 290400002136 putative AMP binding site [chemical binding]; other site 290400002137 putative active site [active] 290400002138 putative CoA binding site [chemical binding]; other site 290400002139 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 290400002140 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 290400002141 dimer interface [polypeptide binding]; other site 290400002142 active site 290400002143 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 290400002144 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 290400002145 dimer interface [polypeptide binding]; other site 290400002146 acyl-activating enzyme (AAE) consensus motif; other site 290400002147 putative active site [active] 290400002148 putative AMP binding site [chemical binding]; other site 290400002149 putative CoA binding site [chemical binding]; other site 290400002150 chemical substrate binding site [chemical binding]; other site 290400002151 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400002152 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 290400002153 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 290400002154 substrate binding site [chemical binding]; other site 290400002155 oxyanion hole (OAH) forming residues; other site 290400002156 trimer interface [polypeptide binding]; other site 290400002157 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 290400002158 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290400002159 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 290400002160 active site 290400002161 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 290400002162 sequence-specific DNA binding site [nucleotide binding]; other site 290400002163 salt bridge; other site 290400002164 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 290400002165 Shikimate kinase; Region: SKI; pfam01202 290400002166 ADP binding site [chemical binding]; other site 290400002167 magnesium binding site [ion binding]; other site 290400002168 putative shikimate binding site; other site 290400002169 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 290400002170 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 290400002171 substrate binding site [chemical binding]; other site 290400002172 oxyanion hole (OAH) forming residues; other site 290400002173 trimer interface [polypeptide binding]; other site 290400002174 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 290400002175 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290400002176 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400002177 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400002178 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400002179 Cytochrome P450; Region: p450; cl12078 290400002180 B12 binding domain; Region: B12-binding_2; pfam02607 290400002181 B12 binding domain; Region: B12-binding; pfam02310 290400002182 Predicted transcriptional regulator [Transcription]; Region: COG2378 290400002183 HTH domain; Region: HTH_11; pfam08279 290400002184 WYL domain; Region: WYL; pfam13280 290400002185 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 290400002186 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400002187 Domain of unknown function (DUF1993); Region: DUF1993; cl01567 290400002188 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 290400002189 MoxR-like ATPases [General function prediction only]; Region: COG0714 290400002190 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 290400002191 Walker A motif; other site 290400002192 ATP binding site [chemical binding]; other site 290400002193 Walker B motif; other site 290400002194 arginine finger; other site 290400002195 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 290400002196 Protein of unknown function DUF58; Region: DUF58; pfam01882 290400002197 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 290400002198 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 290400002199 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 290400002200 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 290400002201 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 290400002202 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 290400002203 FAD binding domain; Region: FAD_binding_4; pfam01565 290400002204 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400002205 FAD binding domain; Region: FAD_binding_4; pfam01565 290400002206 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 290400002207 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 290400002208 Cysteine-rich domain; Region: CCG; pfam02754 290400002209 Cysteine-rich domain; Region: CCG; pfam02754 290400002210 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 290400002211 active site 290400002212 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290400002213 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 290400002214 putative dimer interface [polypeptide binding]; other site 290400002215 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400002216 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 290400002217 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290400002218 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 290400002219 FeS/SAM binding site; other site 290400002220 TRAM domain; Region: TRAM; pfam01938 290400002221 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400002222 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400002223 ligand binding site [chemical binding]; other site 290400002224 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 290400002225 PhoH-like protein; Region: PhoH; pfam02562 290400002226 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400002227 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 290400002228 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 290400002229 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 290400002230 Transporter associated domain; Region: CorC_HlyC; smart01091 290400002231 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 290400002232 putative active site [active] 290400002233 catalytic triad [active] 290400002234 putative dimer interface [polypeptide binding]; other site 290400002235 S-adenosylmethionine synthetase; Validated; Region: PRK05250 290400002236 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 290400002237 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 290400002238 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 290400002239 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 290400002240 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 290400002241 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 290400002242 hinge; other site 290400002243 active site 290400002244 replicative DNA helicase; Provisional; Region: PRK05973 290400002245 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 290400002246 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290400002247 Di-iron ligands [ion binding]; other site 290400002248 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 290400002249 Di-iron ligands [ion binding]; other site 290400002250 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 290400002251 dimerization interface [polypeptide binding]; other site 290400002252 putative DNA binding site [nucleotide binding]; other site 290400002253 putative Zn2+ binding site [ion binding]; other site 290400002254 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290400002255 cytidylate kinase; Provisional; Region: cmk; PRK00023 290400002256 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 290400002257 CMP-binding site; other site 290400002258 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 290400002259 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400002260 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400002261 hypothetical protein; Reviewed; Region: PRK00024 290400002262 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 290400002263 MPN+ (JAMM) motif; other site 290400002264 Zinc-binding site [ion binding]; other site 290400002265 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 290400002266 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 290400002267 RNA binding site [nucleotide binding]; other site 290400002268 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 290400002269 RNA binding site [nucleotide binding]; other site 290400002270 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 290400002271 RNA binding site [nucleotide binding]; other site 290400002272 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 290400002273 RNA binding site [nucleotide binding]; other site 290400002274 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 290400002275 RNA binding site [nucleotide binding]; other site 290400002276 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 290400002277 RNA binding site [nucleotide binding]; other site 290400002278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400002279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400002280 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 290400002281 dimerization interface [polypeptide binding]; other site 290400002282 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 290400002283 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 290400002284 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290400002285 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290400002286 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 290400002287 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400002288 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290400002289 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400002290 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400002291 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 290400002292 dimerization interface [polypeptide binding]; other site 290400002293 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 290400002294 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290400002295 Helix-turn-helix domain; Region: HTH_18; pfam12833 290400002296 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400002297 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290400002298 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 290400002299 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290400002300 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290400002301 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 290400002302 motif II; other site 290400002303 Predicted transcriptional regulators [Transcription]; Region: COG1510 290400002304 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 290400002305 dimerization interface [polypeptide binding]; other site 290400002306 putative DNA binding site [nucleotide binding]; other site 290400002307 putative Zn2+ binding site [ion binding]; other site 290400002308 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 290400002309 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 290400002310 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 290400002311 ATPase MipZ; Region: MipZ; pfam09140 290400002312 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 290400002313 P-loop; other site 290400002314 Magnesium ion binding site [ion binding]; other site 290400002315 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 290400002316 Magnesium ion binding site [ion binding]; other site 290400002317 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 290400002318 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290400002319 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 290400002320 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 290400002321 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 290400002322 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 290400002323 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 290400002324 Walker A/P-loop; other site 290400002325 ATP binding site [chemical binding]; other site 290400002326 Q-loop/lid; other site 290400002327 ABC transporter signature motif; other site 290400002328 Walker B; other site 290400002329 D-loop; other site 290400002330 H-loop/switch region; other site 290400002331 ABC-2 type transporter; Region: ABC2_membrane; cl17235 290400002332 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 290400002333 RimM N-terminal domain; Region: RimM; pfam01782 290400002334 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 290400002335 PRC-barrel domain; Region: PRC; pfam05239 290400002336 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 290400002337 chorismate mutase; Provisional; Region: PRK09239 290400002338 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400002339 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400002340 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400002341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400002342 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400002343 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400002344 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400002345 NIPSNAP; Region: NIPSNAP; pfam07978 290400002346 signal recognition particle protein; Provisional; Region: PRK10867 290400002347 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 290400002348 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 290400002349 P loop; other site 290400002350 GTP binding site [chemical binding]; other site 290400002351 Signal peptide binding domain; Region: SRP_SPB; pfam02978 290400002352 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290400002353 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400002354 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400002355 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400002356 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400002357 dimerization interface [polypeptide binding]; other site 290400002358 EamA-like transporter family; Region: EamA; pfam00892 290400002359 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 290400002360 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 290400002361 dimerization interface [polypeptide binding]; other site 290400002362 putative DNA binding site [nucleotide binding]; other site 290400002363 putative Zn2+ binding site [ion binding]; other site 290400002364 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 290400002365 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 290400002366 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 290400002367 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 290400002368 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 290400002369 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 290400002370 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 290400002371 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 290400002372 putative active site pocket [active] 290400002373 cleavage site 290400002374 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 290400002375 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 290400002376 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 290400002377 putative NAD(P) binding site [chemical binding]; other site 290400002378 active site 290400002379 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400002380 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 290400002381 NAD(P) binding site [chemical binding]; other site 290400002382 catalytic residues [active] 290400002383 catalytic residues [active] 290400002384 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400002385 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400002386 Walker A/P-loop; other site 290400002387 ATP binding site [chemical binding]; other site 290400002388 Q-loop/lid; other site 290400002389 ABC transporter signature motif; other site 290400002390 Walker B; other site 290400002391 D-loop; other site 290400002392 H-loop/switch region; other site 290400002393 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400002394 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400002395 Walker A/P-loop; other site 290400002396 ATP binding site [chemical binding]; other site 290400002397 Q-loop/lid; other site 290400002398 ABC transporter signature motif; other site 290400002399 Walker B; other site 290400002400 D-loop; other site 290400002401 H-loop/switch region; other site 290400002402 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400002403 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400002404 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 290400002405 dimer interface [polypeptide binding]; other site 290400002406 conserved gate region; other site 290400002407 putative PBP binding loops; other site 290400002408 ABC-ATPase subunit interface; other site 290400002409 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400002410 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 290400002411 dimer interface [polypeptide binding]; other site 290400002412 conserved gate region; other site 290400002413 putative PBP binding loops; other site 290400002414 ABC-ATPase subunit interface; other site 290400002415 Hint domain; Region: Hint_2; pfam13403 290400002416 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400002417 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_6; cd08494 290400002418 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13013 290400002419 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 290400002420 metal binding site [ion binding]; metal-binding site 290400002421 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 290400002422 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 290400002423 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400002424 NAD(P) binding site [chemical binding]; other site 290400002425 catalytic residues [active] 290400002426 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290400002427 NAD(P) binding site [chemical binding]; other site 290400002428 catalytic residues [active] 290400002429 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 290400002430 intersubunit interface [polypeptide binding]; other site 290400002431 active site 290400002432 catalytic residue [active] 290400002433 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 290400002434 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 290400002435 substrate binding site [chemical binding]; other site 290400002436 hexamer interface [polypeptide binding]; other site 290400002437 metal binding site [ion binding]; metal-binding site 290400002438 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 290400002439 Catalytic site; other site 290400002440 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 290400002441 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 290400002442 putative NAD(P) binding site [chemical binding]; other site 290400002443 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 290400002444 putative acyl-acceptor binding pocket; other site 290400002445 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 290400002446 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 290400002447 B12 binding site [chemical binding]; other site 290400002448 cobalt ligand [ion binding]; other site 290400002449 H-NS histone family; Region: Histone_HNS; pfam00816 290400002450 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 290400002451 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 290400002452 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 290400002453 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 290400002454 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400002455 active site 290400002456 catalytic tetrad [active] 290400002457 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 290400002458 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 290400002459 dimer interface [polypeptide binding]; other site 290400002460 active site 290400002461 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400002462 catalytic residues [active] 290400002463 substrate binding site [chemical binding]; other site 290400002464 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 290400002465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5255 290400002466 Domain of unknown function (DUF1868); Region: 2H-phosphodiest; pfam08975 290400002467 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 290400002468 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 290400002469 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 290400002470 L-aspartate oxidase; Provisional; Region: PRK06175 290400002471 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290400002472 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 290400002473 putative SdhC subunit interface [polypeptide binding]; other site 290400002474 putative proximal heme binding site [chemical binding]; other site 290400002475 putative Iron-sulfur protein interface [polypeptide binding]; other site 290400002476 putative proximal quinone binding site; other site 290400002477 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 290400002478 Iron-sulfur protein interface; other site 290400002479 proximal quinone binding site [chemical binding]; other site 290400002480 SdhD (CybS) interface [polypeptide binding]; other site 290400002481 proximal heme binding site [chemical binding]; other site 290400002482 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 290400002483 putative active site [active] 290400002484 putative catalytic site [active] 290400002485 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 290400002486 active site 2 [active] 290400002487 active site 1 [active] 290400002488 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 290400002489 NnrU protein; Region: NnrU; pfam07298 290400002490 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 290400002491 malate dehydrogenase; Reviewed; Region: PRK06223 290400002492 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 290400002493 NAD(P) binding site [chemical binding]; other site 290400002494 dimer interface [polypeptide binding]; other site 290400002495 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290400002496 substrate binding site [chemical binding]; other site 290400002497 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400002498 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 290400002499 active site 290400002500 nucleotide binding site [chemical binding]; other site 290400002501 HIGH motif; other site 290400002502 KMSKS motif; other site 290400002503 LicD family; Region: LicD; pfam04991 290400002504 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 290400002505 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 290400002506 CoA-ligase; Region: Ligase_CoA; pfam00549 290400002507 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 290400002508 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 290400002509 CoA binding domain; Region: CoA_binding; pfam02629 290400002510 CoA-ligase; Region: Ligase_CoA; pfam00549 290400002511 Protein of unknown function (DUF805); Region: DUF805; pfam05656 290400002512 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 290400002513 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 290400002514 TPP-binding site [chemical binding]; other site 290400002515 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 290400002516 dimer interface [polypeptide binding]; other site 290400002517 PYR/PP interface [polypeptide binding]; other site 290400002518 TPP binding site [chemical binding]; other site 290400002519 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 290400002520 E3 interaction surface; other site 290400002521 lipoyl attachment site [posttranslational modification]; other site 290400002522 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 290400002523 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 290400002524 E3 interaction surface; other site 290400002525 lipoyl attachment site [posttranslational modification]; other site 290400002526 e3 binding domain; Region: E3_binding; pfam02817 290400002527 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 290400002528 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 290400002529 SelR domain; Region: SelR; pfam01641 290400002530 MAPEG family; Region: MAPEG; pfam01124 290400002531 active site 290400002532 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400002533 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 290400002534 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 290400002535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400002536 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290400002537 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400002538 DNA-binding site [nucleotide binding]; DNA binding site 290400002539 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 290400002540 FCD domain; Region: FCD; pfam07729 290400002541 Protein of unknown function DUF45; Region: DUF45; pfam01863 290400002542 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 290400002543 TIGR02300 family protein; Region: FYDLN_acid 290400002544 von Willebrand factor; Region: vWF_A; pfam12450 290400002545 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 290400002546 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 290400002547 metal ion-dependent adhesion site (MIDAS); other site 290400002548 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 290400002549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400002550 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 290400002551 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 290400002552 DNA binding residues [nucleotide binding] 290400002553 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400002554 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 290400002555 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290400002556 classical (c) SDRs; Region: SDR_c; cd05233 290400002557 NAD(P) binding site [chemical binding]; other site 290400002558 active site 290400002559 AAA domain; Region: AAA_30; pfam13604 290400002560 Family description; Region: UvrD_C_2; pfam13538 290400002561 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 290400002562 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 290400002563 putative active site [active] 290400002564 Zn binding site [ion binding]; other site 290400002565 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 290400002566 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400002567 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290400002568 active site 290400002569 hypothetical protein; Provisional; Region: PRK07482 290400002570 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 290400002571 inhibitor-cofactor binding pocket; inhibition site 290400002572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400002573 catalytic residue [active] 290400002574 Flavodoxin domain; Region: Flavodoxin_5; cl17428 290400002575 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 290400002576 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 290400002577 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 290400002578 spermidine synthase; Provisional; Region: PRK03612 290400002579 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 290400002580 S-adenosylmethionine binding site [chemical binding]; other site 290400002581 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400002582 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 290400002583 TM-ABC transporter signature motif; other site 290400002584 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400002585 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400002586 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400002587 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 290400002588 TM-ABC transporter signature motif; other site 290400002589 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290400002590 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400002591 Walker A/P-loop; other site 290400002592 ATP binding site [chemical binding]; other site 290400002593 Q-loop/lid; other site 290400002594 ABC transporter signature motif; other site 290400002595 Walker B; other site 290400002596 D-loop; other site 290400002597 H-loop/switch region; other site 290400002598 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400002599 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 290400002600 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290400002601 ligand binding site [chemical binding]; other site 290400002602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400002603 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 290400002604 Glycoprotease family; Region: Peptidase_M22; pfam00814 290400002605 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290400002606 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 290400002607 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 290400002608 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 290400002609 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400002610 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400002611 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 290400002612 ligand binding site [chemical binding]; other site 290400002613 flexible hinge region; other site 290400002614 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 290400002615 Ligand Binding Site [chemical binding]; other site 290400002616 aminotransferase; Provisional; Region: PRK13356 290400002617 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290400002618 homodimer interface [polypeptide binding]; other site 290400002619 substrate-cofactor binding pocket; other site 290400002620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400002621 catalytic residue [active] 290400002622 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400002623 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400002624 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400002625 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400002626 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400002627 DctM-like transporters; Region: DctM; pfam06808 290400002628 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 290400002629 active site 290400002630 intersubunit interface [polypeptide binding]; other site 290400002631 Zn2+ binding site [ion binding]; other site 290400002632 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290400002633 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 290400002634 catalytic loop [active] 290400002635 iron binding site [ion binding]; other site 290400002636 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400002637 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400002638 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400002639 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400002640 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400002641 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400002642 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400002643 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400002644 DNA-binding site [nucleotide binding]; DNA binding site 290400002645 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290400002646 HTH domain; Region: HTH_11; pfam08279 290400002647 WYL domain; Region: WYL; pfam13280 290400002648 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 290400002649 non-specific DNA interactions [nucleotide binding]; other site 290400002650 DNA binding site [nucleotide binding] 290400002651 sequence specific DNA binding site [nucleotide binding]; other site 290400002652 putative cAMP binding site [chemical binding]; other site 290400002653 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290400002654 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290400002655 nucleotide binding site [chemical binding]; other site 290400002656 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 290400002657 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 290400002658 metal binding site [ion binding]; metal-binding site 290400002659 dimer interface [polypeptide binding]; other site 290400002660 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290400002661 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400002662 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400002663 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400002664 TM-ABC transporter signature motif; other site 290400002665 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 290400002666 dimer interface [polypeptide binding]; other site 290400002667 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 290400002668 active site 290400002669 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400002670 substrate binding site [chemical binding]; other site 290400002671 catalytic residue [active] 290400002672 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400002673 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400002674 Walker A/P-loop; other site 290400002675 ATP binding site [chemical binding]; other site 290400002676 Q-loop/lid; other site 290400002677 ABC transporter signature motif; other site 290400002678 Walker B; other site 290400002679 D-loop; other site 290400002680 H-loop/switch region; other site 290400002681 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 290400002682 active site 290400002683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400002684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400002685 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 290400002686 putative effector binding pocket; other site 290400002687 dimerization interface [polypeptide binding]; other site 290400002688 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 290400002689 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 290400002690 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400002691 active site 290400002692 catalytic tetrad [active] 290400002693 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 290400002694 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 290400002695 putative substrate translocation pore; other site 290400002696 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 290400002697 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 290400002698 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400002699 putative metal binding site [ion binding]; other site 290400002700 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 290400002701 active site 290400002702 HIGH motif; other site 290400002703 dimer interface [polypeptide binding]; other site 290400002704 KMSKS motif; other site 290400002705 Rhomboid family; Region: Rhomboid; cl11446 290400002706 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 290400002707 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 290400002708 PII uridylyl-transferase; Provisional; Region: PRK05092 290400002709 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290400002710 metal binding triad; other site 290400002711 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 290400002712 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 290400002713 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290400002714 Zn2+ binding site [ion binding]; other site 290400002715 Mg2+ binding site [ion binding]; other site 290400002716 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 290400002717 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 290400002718 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290400002719 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 290400002720 putative ligand binding site [chemical binding]; other site 290400002721 Predicted methyltransferases [General function prediction only]; Region: COG0313 290400002722 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 290400002723 putative SAM binding site [chemical binding]; other site 290400002724 putative homodimer interface [polypeptide binding]; other site 290400002725 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 290400002726 glutathione synthetase; Provisional; Region: PRK05246 290400002727 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 290400002728 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 290400002729 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 290400002730 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290400002731 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 290400002732 Walker A motif; other site 290400002733 ATP binding site [chemical binding]; other site 290400002734 Walker B motif; other site 290400002735 arginine finger; other site 290400002736 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 290400002737 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290400002738 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400002739 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 290400002740 putative N-terminal domain interface [polypeptide binding]; other site 290400002741 putative dimer interface [polypeptide binding]; other site 290400002742 putative substrate binding pocket (H-site) [chemical binding]; other site 290400002743 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 290400002744 catalytic core [active] 290400002745 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 290400002746 homotrimer interface [polypeptide binding]; other site 290400002747 Walker A motif; other site 290400002748 GTP binding site [chemical binding]; other site 290400002749 Walker B motif; other site 290400002750 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 290400002751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400002752 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 290400002753 DNA binding residues [nucleotide binding] 290400002754 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 290400002755 Flavoprotein; Region: Flavoprotein; pfam02441 290400002756 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 290400002757 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290400002758 trimer interface [polypeptide binding]; other site 290400002759 active site 290400002760 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 290400002761 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 290400002762 ATP binding site [chemical binding]; other site 290400002763 substrate interface [chemical binding]; other site 290400002764 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 290400002765 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290400002766 substrate binding pocket [chemical binding]; other site 290400002767 membrane-bound complex binding site; other site 290400002768 hinge residues; other site 290400002769 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290400002770 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 290400002771 dimer interface [polypeptide binding]; other site 290400002772 conserved gate region; other site 290400002773 putative PBP binding loops; other site 290400002774 ABC-ATPase subunit interface; other site 290400002775 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 290400002776 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 290400002777 active site 290400002778 Zn binding site [ion binding]; other site 290400002779 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 290400002780 Bacterial SH3 domain; Region: SH3_4; pfam06347 290400002781 Bacterial SH3 domain; Region: SH3_4; pfam06347 290400002782 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290400002783 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 290400002784 dimerization interface [polypeptide binding]; other site 290400002785 ligand binding site [chemical binding]; other site 290400002786 NADP binding site [chemical binding]; other site 290400002787 catalytic site [active] 290400002788 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 290400002789 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 290400002790 nucleophilic elbow; other site 290400002791 catalytic triad; other site 290400002792 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400002793 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400002794 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400002795 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400002796 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400002797 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 290400002798 ligand binding site [chemical binding]; other site 290400002799 flexible hinge region; other site 290400002800 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 290400002801 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 290400002802 active site 290400002803 nucleophile elbow; other site 290400002804 Protein of unknown function (DUF938); Region: DUF938; pfam06080 290400002805 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400002806 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400002807 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 290400002808 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290400002809 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 290400002810 putative ligand binding site [chemical binding]; other site 290400002811 Ion transport protein; Region: Ion_trans; pfam00520 290400002812 Ion channel; Region: Ion_trans_2; pfam07885 290400002813 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400002814 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 290400002815 TM-ABC transporter signature motif; other site 290400002816 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400002817 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 290400002818 TM-ABC transporter signature motif; other site 290400002819 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290400002820 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400002821 Walker A/P-loop; other site 290400002822 ATP binding site [chemical binding]; other site 290400002823 Q-loop/lid; other site 290400002824 ABC transporter signature motif; other site 290400002825 Walker B; other site 290400002826 D-loop; other site 290400002827 H-loop/switch region; other site 290400002828 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400002829 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 290400002830 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290400002831 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290400002832 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 290400002833 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400002834 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400002835 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400002836 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 290400002837 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 290400002838 catalytic loop [active] 290400002839 iron binding site [ion binding]; other site 290400002840 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400002841 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 290400002842 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290400002843 hydrophobic ligand binding site; other site 290400002844 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 290400002845 dimerization interface [polypeptide binding]; other site 290400002846 putative DNA binding site [nucleotide binding]; other site 290400002847 putative Zn2+ binding site [ion binding]; other site 290400002848 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 290400002849 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 290400002850 putative active site [active] 290400002851 putative PHP Thumb interface [polypeptide binding]; other site 290400002852 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 290400002853 generic binding surface II; other site 290400002854 generic binding surface I; other site 290400002855 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 290400002856 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400002857 putative substrate translocation pore; other site 290400002858 SlyX; Region: SlyX; pfam04102 290400002859 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 290400002860 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 290400002861 dimer interface [polypeptide binding]; other site 290400002862 motif 1; other site 290400002863 motif 2; other site 290400002864 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400002865 active site 290400002866 motif 3; other site 290400002867 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 290400002868 anticodon binding site; other site 290400002869 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 290400002870 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400002871 motif 1; other site 290400002872 dimer interface [polypeptide binding]; other site 290400002873 active site 290400002874 motif 2; other site 290400002875 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400002876 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 290400002877 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 290400002878 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; cl17244 290400002879 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 290400002880 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 290400002881 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 290400002882 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 290400002883 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 290400002884 active site 290400002885 dimer interface [polypeptide binding]; other site 290400002886 effector binding site; other site 290400002887 TSCPD domain; Region: TSCPD; pfam12637 290400002888 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 290400002889 Hint domain; Region: Hint_2; pfam13403 290400002890 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 290400002891 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 290400002892 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 290400002893 RNA binding surface [nucleotide binding]; other site 290400002894 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290400002895 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 290400002896 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 290400002897 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400002898 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 290400002899 S-adenosylmethionine binding site [chemical binding]; other site 290400002900 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 290400002901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400002902 putative substrate translocation pore; other site 290400002903 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 290400002904 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 290400002905 S-adenosylmethionine binding site [chemical binding]; other site 290400002906 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 290400002907 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 290400002908 active site 290400002909 putative DNA-binding cleft [nucleotide binding]; other site 290400002910 dimer interface [polypeptide binding]; other site 290400002911 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 290400002912 RuvA N terminal domain; Region: RuvA_N; pfam01330 290400002913 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 290400002914 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 290400002915 Walker A motif; other site 290400002916 ATP binding site [chemical binding]; other site 290400002917 Walker B motif; other site 290400002918 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 290400002919 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 290400002920 active site 290400002921 TolQ protein; Region: tolQ; TIGR02796 290400002922 TolR protein; Region: tolR; TIGR02801 290400002923 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 290400002924 translocation protein TolB; Provisional; Region: tolB; PRK05137 290400002925 TolB amino-terminal domain; Region: TolB_N; pfam04052 290400002926 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290400002927 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290400002928 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290400002929 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 290400002930 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400002931 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400002932 ligand binding site [chemical binding]; other site 290400002933 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 290400002934 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 290400002935 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 290400002936 Ligand Binding Site [chemical binding]; other site 290400002937 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 290400002938 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 290400002939 Walker A motif; other site 290400002940 ATP binding site [chemical binding]; other site 290400002941 Walker B motif; other site 290400002942 arginine finger; other site 290400002943 Peptidase family M41; Region: Peptidase_M41; pfam01434 290400002944 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 290400002945 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 290400002946 Potassium binding sites [ion binding]; other site 290400002947 Cesium cation binding sites [ion binding]; other site 290400002948 OsmC-like protein; Region: OsmC; pfam02566 290400002949 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 290400002950 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 290400002951 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 290400002952 homodimer interface [polypeptide binding]; other site 290400002953 NADP binding site [chemical binding]; other site 290400002954 substrate binding site [chemical binding]; other site 290400002955 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 290400002956 CoenzymeA binding site [chemical binding]; other site 290400002957 subunit interaction site [polypeptide binding]; other site 290400002958 PHB binding site; other site 290400002959 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 290400002960 active site 290400002961 metal binding site [ion binding]; metal-binding site 290400002962 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 290400002963 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 290400002964 ATP binding site [chemical binding]; other site 290400002965 putative Mg++ binding site [ion binding]; other site 290400002966 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 290400002967 nucleotide binding region [chemical binding]; other site 290400002968 ATP-binding site [chemical binding]; other site 290400002969 DEAD/H associated; Region: DEAD_assoc; pfam08494 290400002970 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 290400002971 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290400002972 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 290400002973 TPR repeat; Region: TPR_11; pfam13414 290400002974 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 290400002975 binding surface 290400002976 TPR motif; other site 290400002977 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 290400002978 TPR motif; other site 290400002979 binding surface 290400002980 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 290400002981 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290400002982 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 290400002983 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 290400002984 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 290400002985 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 290400002986 ATP binding site [chemical binding]; other site 290400002987 Walker A motif; other site 290400002988 hexamer interface [polypeptide binding]; other site 290400002989 Walker B motif; other site 290400002990 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 290400002991 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 290400002992 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400002993 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400002994 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400002995 ligand binding site [chemical binding]; other site 290400002996 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 290400002997 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 290400002998 BON domain; Region: BON; pfam04972 290400002999 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 290400003000 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 290400003001 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 290400003002 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290400003003 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400003004 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400003005 catalytic residue [active] 290400003006 Predicted acetyltransferase [General function prediction only]; Region: COG2388 290400003007 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 290400003008 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 290400003009 GSCFA family; Region: GSCFA; pfam08885 290400003010 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 290400003011 dimer interface [polypeptide binding]; other site 290400003012 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400003013 ligand binding site [chemical binding]; other site 290400003014 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 290400003015 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 290400003016 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 290400003017 active site 290400003018 Zn binding site [ion binding]; other site 290400003019 Peptidase family M48; Region: Peptidase_M48; cl12018 290400003020 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 290400003021 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 290400003022 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 290400003023 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 290400003024 FeS/SAM binding site; other site 290400003025 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 290400003026 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290400003027 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290400003028 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400003029 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400003030 catalytic residue [active] 290400003031 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 290400003032 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 290400003033 dimer interface [polypeptide binding]; other site 290400003034 ligand binding site [chemical binding]; other site 290400003035 GcrA cell cycle regulator; Region: GcrA; cl11564 290400003036 Beta-lactamase; Region: Beta-lactamase; pfam00144 290400003037 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290400003038 ornithine carbamoyltransferase; Provisional; Region: PRK00779 290400003039 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290400003040 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290400003041 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 290400003042 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 290400003043 inhibitor-cofactor binding pocket; inhibition site 290400003044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400003045 catalytic residue [active] 290400003046 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 290400003047 CoenzymeA binding site [chemical binding]; other site 290400003048 subunit interaction site [polypeptide binding]; other site 290400003049 PHB binding site; other site 290400003050 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 290400003051 FAD binding site [chemical binding]; other site 290400003052 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400003053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003054 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 290400003055 putative dimerization interface [polypeptide binding]; other site 290400003056 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290400003057 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 290400003058 active site 290400003059 dimerization interface [polypeptide binding]; other site 290400003060 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 290400003061 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 290400003062 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 290400003063 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 290400003064 active site 290400003065 DNA binding site [nucleotide binding] 290400003066 Int/Topo IB signature motif; other site 290400003067 Protein of unknown function, DUF484; Region: DUF484; cl17449 290400003068 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 290400003069 active site 290400003070 intersubunit interactions; other site 290400003071 catalytic residue [active] 290400003072 primosome assembly protein PriA; Validated; Region: PRK05580 290400003073 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 290400003074 ATP binding site [chemical binding]; other site 290400003075 putative Mg++ binding site [ion binding]; other site 290400003076 helicase superfamily c-terminal domain; Region: HELICc; smart00490 290400003077 nucleotide binding region [chemical binding]; other site 290400003078 ATP-binding site [chemical binding]; other site 290400003079 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 290400003080 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 290400003081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400003082 homodimer interface [polypeptide binding]; other site 290400003083 catalytic residue [active] 290400003084 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 290400003085 prephenate dehydrogenase; Validated; Region: PRK08507 290400003086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 290400003087 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 290400003088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 290400003089 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 290400003090 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 290400003091 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 290400003092 putative active site pocket [active] 290400003093 dimerization interface [polypeptide binding]; other site 290400003094 putative catalytic residue [active] 290400003095 hypothetical protein; Validated; Region: PRK09039 290400003096 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400003097 ligand binding site [chemical binding]; other site 290400003098 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 290400003099 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 290400003100 Walker A motif; other site 290400003101 ATP binding site [chemical binding]; other site 290400003102 Walker B motif; other site 290400003103 arginine finger; other site 290400003104 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 290400003105 Walker A motif; other site 290400003106 ATP binding site [chemical binding]; other site 290400003107 Walker B motif; other site 290400003108 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290400003109 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 290400003110 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400003111 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400003112 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 290400003113 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400003114 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 290400003115 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 290400003116 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 290400003117 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290400003118 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 290400003119 beta subunit interaction interface [polypeptide binding]; other site 290400003120 Walker A motif; other site 290400003121 ATP binding site [chemical binding]; other site 290400003122 Walker B motif; other site 290400003123 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290400003124 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 290400003125 core domain interface [polypeptide binding]; other site 290400003126 delta subunit interface [polypeptide binding]; other site 290400003127 epsilon subunit interface [polypeptide binding]; other site 290400003128 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 290400003129 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 290400003130 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 290400003131 alpha subunit interaction interface [polypeptide binding]; other site 290400003132 Walker A motif; other site 290400003133 ATP binding site [chemical binding]; other site 290400003134 Walker B motif; other site 290400003135 inhibitor binding site; inhibition site 290400003136 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 290400003137 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK01474 290400003138 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 290400003139 gamma subunit interface [polypeptide binding]; other site 290400003140 epsilon subunit interface [polypeptide binding]; other site 290400003141 LBP interface [polypeptide binding]; other site 290400003142 H-type lectin domain; Region: H_lectin; pfam09458 290400003143 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 290400003144 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 290400003145 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400003146 active site 290400003147 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 290400003148 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 290400003149 putative catalytic residue [active] 290400003150 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400003151 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290400003152 catalytic site [active] 290400003153 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290400003154 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290400003155 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 290400003156 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290400003157 polyphosphate kinase; Provisional; Region: PRK05443 290400003158 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 290400003159 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 290400003160 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 290400003161 putative domain interface [polypeptide binding]; other site 290400003162 putative active site [active] 290400003163 catalytic site [active] 290400003164 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 290400003165 putative domain interface [polypeptide binding]; other site 290400003166 putative active site [active] 290400003167 catalytic site [active] 290400003168 exopolyphosphatase; Region: exo_poly_only; TIGR03706 290400003169 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290400003170 prolyl-tRNA synthetase; Provisional; Region: PRK12325 290400003171 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 290400003172 dimer interface [polypeptide binding]; other site 290400003173 motif 1; other site 290400003174 active site 290400003175 motif 2; other site 290400003176 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400003177 active site 290400003178 motif 3; other site 290400003179 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 290400003180 anticodon binding site; other site 290400003181 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 290400003182 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 290400003183 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 290400003184 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400003185 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290400003186 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 290400003187 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400003188 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290400003189 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 290400003190 IMP binding site; other site 290400003191 dimer interface [polypeptide binding]; other site 290400003192 partial ornithine binding site; other site 290400003193 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 290400003194 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 290400003195 motif II; other site 290400003196 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290400003197 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290400003198 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290400003199 Peptidase family M23; Region: Peptidase_M23; pfam01551 290400003200 Hint domain; Region: Hint_2; pfam13403 290400003201 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 290400003202 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 290400003203 S-adenosylmethionine binding site [chemical binding]; other site 290400003204 stationary phase survival protein SurE; Provisional; Region: PRK13931 290400003205 seryl-tRNA synthetase; Provisional; Region: PRK05431 290400003206 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 290400003207 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 290400003208 dimer interface [polypeptide binding]; other site 290400003209 active site 290400003210 motif 1; other site 290400003211 motif 2; other site 290400003212 motif 3; other site 290400003213 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290400003214 active site 290400003215 replicative DNA helicase; Provisional; Region: PRK05973 290400003216 Replicative DNA helicase [DNA replication, recombination, and repair]; Region: DnaB; COG0305 290400003217 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 290400003218 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400003219 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 290400003220 dimer interface [polypeptide binding]; other site 290400003221 conserved gate region; other site 290400003222 putative PBP binding loops; other site 290400003223 ABC-ATPase subunit interface; other site 290400003224 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400003225 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 290400003226 dimer interface [polypeptide binding]; other site 290400003227 conserved gate region; other site 290400003228 putative PBP binding loops; other site 290400003229 ABC-ATPase subunit interface; other site 290400003230 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400003231 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400003232 Walker A/P-loop; other site 290400003233 ATP binding site [chemical binding]; other site 290400003234 Q-loop/lid; other site 290400003235 ABC transporter signature motif; other site 290400003236 Walker B; other site 290400003237 D-loop; other site 290400003238 H-loop/switch region; other site 290400003239 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290400003240 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400003241 Walker A/P-loop; other site 290400003242 ATP binding site [chemical binding]; other site 290400003243 Q-loop/lid; other site 290400003244 ABC transporter signature motif; other site 290400003245 Walker B; other site 290400003246 D-loop; other site 290400003247 H-loop/switch region; other site 290400003248 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400003249 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_10; cd08515 290400003250 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290400003251 nitrilase; Region: PLN02798 290400003252 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 290400003253 putative active site [active] 290400003254 catalytic triad [active] 290400003255 dimer interface [polypeptide binding]; other site 290400003256 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290400003257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003258 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 290400003259 dimerization interface [polypeptide binding]; other site 290400003260 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 290400003261 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290400003262 active site 290400003263 metal binding site [ion binding]; metal-binding site 290400003264 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400003265 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400003266 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 290400003267 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290400003268 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290400003269 Preprotein translocase subunit; Region: YajC; pfam02699 290400003270 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 290400003271 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 290400003272 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 290400003273 Protein export membrane protein; Region: SecD_SecF; pfam02355 290400003274 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400003275 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 290400003276 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 290400003277 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 290400003278 dimer interface [polypeptide binding]; other site 290400003279 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400003280 active site 290400003281 metal binding site [ion binding]; metal-binding site 290400003282 glutathione binding site [chemical binding]; other site 290400003283 Protein of unknown function (DUF817); Region: DUF817; pfam05675 290400003284 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 290400003285 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290400003286 DNA-binding site [nucleotide binding]; DNA binding site 290400003287 RNA-binding motif; other site 290400003288 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290400003289 ArsC family; Region: ArsC; pfam03960 290400003290 Hint domain; Region: Hint_2; pfam13403 290400003291 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 290400003292 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 290400003293 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290400003294 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 290400003295 active site 290400003296 dimer interface [polypeptide binding]; other site 290400003297 motif 1; other site 290400003298 motif 2; other site 290400003299 motif 3; other site 290400003300 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 290400003301 anticodon binding site; other site 290400003302 MAPEG family; Region: MAPEG; pfam01124 290400003303 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 290400003304 dimerization interface [polypeptide binding]; other site 290400003305 putative DNA binding site [nucleotide binding]; other site 290400003306 putative Zn2+ binding site [ion binding]; other site 290400003307 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290400003308 hydrophobic ligand binding site; other site 290400003309 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400003310 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290400003311 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 290400003312 Esterase/lipase [General function prediction only]; Region: COG1647 290400003313 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 290400003314 histidinol dehydrogenase; Region: hisD; TIGR00069 290400003315 NAD binding site [chemical binding]; other site 290400003316 dimerization interface [polypeptide binding]; other site 290400003317 product binding site; other site 290400003318 substrate binding site [chemical binding]; other site 290400003319 zinc binding site [ion binding]; other site 290400003320 catalytic residues [active] 290400003321 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 290400003322 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 290400003323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400003324 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400003325 NAD(P) binding site [chemical binding]; other site 290400003326 active site 290400003327 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400003328 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400003329 DNA binding site [nucleotide binding] 290400003330 domain linker motif; other site 290400003331 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 290400003332 putative dimerization interface [polypeptide binding]; other site 290400003333 putative ligand binding site [chemical binding]; other site 290400003334 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 290400003335 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 290400003336 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 290400003337 homotrimer interaction site [polypeptide binding]; other site 290400003338 putative active site [active] 290400003339 Cupin domain; Region: Cupin_2; pfam07883 290400003340 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 290400003341 substrate binding site [chemical binding]; other site 290400003342 THF binding site; other site 290400003343 zinc-binding site [ion binding]; other site 290400003344 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 290400003345 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 290400003346 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 290400003347 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 290400003348 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 290400003349 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 290400003350 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 290400003351 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 290400003352 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400003353 aminotransferase; Provisional; Region: PRK06105 290400003354 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 290400003355 inhibitor-cofactor binding pocket; inhibition site 290400003356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400003357 catalytic residue [active] 290400003358 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290400003359 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 290400003360 homodimer interface [polypeptide binding]; other site 290400003361 substrate-cofactor binding pocket; other site 290400003362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400003363 catalytic residue [active] 290400003364 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 290400003365 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400003366 catalytic residue [active] 290400003367 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290400003368 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400003369 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290400003370 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 290400003371 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290400003372 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290400003373 catalytic triad [active] 290400003374 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 290400003375 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290400003376 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290400003377 VPLPA-CTERM protein sorting domain; Region: VPLPA-CTERM; TIGR03370 290400003378 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 290400003379 dimer interface [polypeptide binding]; other site 290400003380 conserved gate region; other site 290400003381 putative PBP binding loops; other site 290400003382 ABC-ATPase subunit interface; other site 290400003383 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290400003384 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 290400003385 ABC-ATPase subunit interface; other site 290400003386 AAA domain; Region: AAA_18; pfam13238 290400003387 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290400003388 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 290400003389 substrate binding pocket [chemical binding]; other site 290400003390 membrane-bound complex binding site; other site 290400003391 hinge residues; other site 290400003392 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 290400003393 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400003394 Walker A/P-loop; other site 290400003395 ATP binding site [chemical binding]; other site 290400003396 Q-loop/lid; other site 290400003397 ABC transporter signature motif; other site 290400003398 Walker B; other site 290400003399 D-loop; other site 290400003400 H-loop/switch region; other site 290400003401 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 290400003402 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 290400003403 putative metal binding site [ion binding]; other site 290400003404 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290400003405 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 290400003406 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 290400003407 2-oxoglutarate-dependent dioxygenase; Region: PLN02365 290400003408 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 290400003409 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 290400003410 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 290400003411 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 290400003412 FMN binding site [chemical binding]; other site 290400003413 substrate binding site [chemical binding]; other site 290400003414 putative catalytic residue [active] 290400003415 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 290400003416 isovaleryl-CoA dehydrogenase; Region: PLN02519 290400003417 substrate binding site [chemical binding]; other site 290400003418 FAD binding site [chemical binding]; other site 290400003419 catalytic base [active] 290400003420 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 290400003421 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 290400003422 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 290400003423 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 290400003424 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400003425 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290400003426 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 290400003427 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 290400003428 carboxyltransferase (CT) interaction site; other site 290400003429 biotinylation site [posttranslational modification]; other site 290400003430 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400003431 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 290400003432 putative C-terminal domain interface [polypeptide binding]; other site 290400003433 putative GSH binding site (G-site) [chemical binding]; other site 290400003434 putative dimer interface [polypeptide binding]; other site 290400003435 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 290400003436 N-terminal domain interface [polypeptide binding]; other site 290400003437 dimer interface [polypeptide binding]; other site 290400003438 substrate binding pocket (H-site) [chemical binding]; other site 290400003439 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 290400003440 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 290400003441 active site 290400003442 catalytic residues [active] 290400003443 metal binding site [ion binding]; metal-binding site 290400003444 enoyl-CoA hydratase; Provisional; Region: PRK07468 290400003445 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 290400003446 substrate binding site [chemical binding]; other site 290400003447 oxyanion hole (OAH) forming residues; other site 290400003448 4-coumarate--CoA ligase; Region: PLN02246 290400003449 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 290400003450 acyl-activating enzyme (AAE) consensus motif; other site 290400003451 active site 290400003452 putative CoA binding site [chemical binding]; other site 290400003453 AMP binding site [chemical binding]; other site 290400003454 Autoinducer binding domain; Region: Autoind_bind; pfam03472 290400003455 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400003456 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 290400003457 DNA binding residues [nucleotide binding] 290400003458 dimerization interface [polypeptide binding]; other site 290400003459 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 290400003460 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 290400003461 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 290400003462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290400003463 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290400003464 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290400003465 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290400003466 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400003467 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400003468 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 290400003469 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400003470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290400003471 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 290400003472 homodimer interface [polypeptide binding]; other site 290400003473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400003474 catalytic residue [active] 290400003475 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400003476 FAD binding domain; Region: FAD_binding_4; pfam01565 290400003477 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 290400003478 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290400003479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400003480 DNA-binding site [nucleotide binding]; DNA binding site 290400003481 FCD domain; Region: FCD; pfam07729 290400003482 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 290400003483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400003484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003485 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_5; cd08474 290400003486 putative effector binding pocket; other site 290400003487 putative dimerization interface [polypeptide binding]; other site 290400003488 NADH dehydrogenase subunit B; Validated; Region: PRK06411 290400003489 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 290400003490 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 290400003491 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290400003492 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 290400003493 NADH dehydrogenase subunit D; Validated; Region: PRK06075 290400003494 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 290400003495 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 290400003496 putative dimer interface [polypeptide binding]; other site 290400003497 [2Fe-2S] cluster binding site [ion binding]; other site 290400003498 Uncharacterized conserved protein [Function unknown]; Region: COG3743 290400003499 Uncharacterized conserved protein [Function unknown]; Region: COG3743 290400003500 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 290400003501 SLBB domain; Region: SLBB; pfam10531 290400003502 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 290400003503 NADH dehydrogenase subunit G; Validated; Region: PRK09130 290400003504 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 290400003505 catalytic loop [active] 290400003506 iron binding site [ion binding]; other site 290400003507 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 290400003508 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290400003509 molybdopterin cofactor binding site; other site 290400003510 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 290400003511 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 290400003512 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 290400003513 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 290400003514 4Fe-4S binding domain; Region: Fer4; pfam00037 290400003515 4Fe-4S binding domain; Region: Fer4; pfam00037 290400003516 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 290400003517 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 290400003518 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 290400003519 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 290400003520 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 290400003521 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 290400003522 hydrogenase 4 subunit D; Validated; Region: PRK06525 290400003523 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 290400003524 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400003525 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 290400003526 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400003527 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 290400003528 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400003529 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 290400003530 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 290400003531 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 290400003532 pantothenate kinase; Reviewed; Region: PRK13318 290400003533 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 290400003534 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 290400003535 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 290400003536 helicase 45; Provisional; Region: PTZ00424 290400003537 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 290400003538 ATP binding site [chemical binding]; other site 290400003539 Mg++ binding site [ion binding]; other site 290400003540 motif III; other site 290400003541 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 290400003542 nucleotide binding region [chemical binding]; other site 290400003543 ATP-binding site [chemical binding]; other site 290400003544 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 290400003545 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 290400003546 G1 box; other site 290400003547 putative GEF interaction site [polypeptide binding]; other site 290400003548 GTP/Mg2+ binding site [chemical binding]; other site 290400003549 Switch I region; other site 290400003550 G2 box; other site 290400003551 G3 box; other site 290400003552 Switch II region; other site 290400003553 G4 box; other site 290400003554 G5 box; other site 290400003555 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 290400003556 SnoaL-like domain; Region: SnoaL_2; pfam12680 290400003557 Hint domain; Region: Hint_2; pfam13403 290400003558 short chain dehydrogenase; Provisional; Region: PRK08339 290400003559 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 290400003560 putative NAD(P) binding site [chemical binding]; other site 290400003561 putative active site [active] 290400003562 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400003563 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290400003564 Walker A/P-loop; other site 290400003565 ATP binding site [chemical binding]; other site 290400003566 Q-loop/lid; other site 290400003567 ABC transporter signature motif; other site 290400003568 Walker B; other site 290400003569 D-loop; other site 290400003570 H-loop/switch region; other site 290400003571 TOBE domain; Region: TOBE_2; pfam08402 290400003572 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 290400003573 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 290400003574 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 290400003575 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 290400003576 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 290400003577 Walker A motif; other site 290400003578 ATP binding site [chemical binding]; other site 290400003579 Walker B motif; other site 290400003580 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 290400003581 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290400003582 Di-iron ligands [ion binding]; other site 290400003583 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 290400003584 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 290400003585 P loop; other site 290400003586 GTP binding site [chemical binding]; other site 290400003587 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 290400003588 EamA-like transporter family; Region: EamA; pfam00892 290400003589 Intracellular septation protein A; Region: IspA; pfam04279 290400003590 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 290400003591 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 290400003592 RNA binding surface [nucleotide binding]; other site 290400003593 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 290400003594 active site 290400003595 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 290400003596 nucleoside/Zn binding site; other site 290400003597 dimer interface [polypeptide binding]; other site 290400003598 catalytic motif [active] 290400003599 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 290400003600 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 290400003601 amidase catalytic site [active] 290400003602 Zn binding residues [ion binding]; other site 290400003603 substrate binding site [chemical binding]; other site 290400003604 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 290400003605 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 290400003606 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 290400003607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400003608 Coenzyme A binding pocket [chemical binding]; other site 290400003609 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 290400003610 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 290400003611 Chromate transporter; Region: Chromate_transp; pfam02417 290400003612 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 290400003613 active site residue [active] 290400003614 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 290400003615 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 290400003616 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 290400003617 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 290400003618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003619 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 290400003620 dimerization interface [polypeptide binding]; other site 290400003621 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290400003622 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 290400003623 NAD(P) binding site [chemical binding]; other site 290400003624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400003625 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 290400003626 non-specific DNA binding site [nucleotide binding]; other site 290400003627 salt bridge; other site 290400003628 sequence-specific DNA binding site [nucleotide binding]; other site 290400003629 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290400003630 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 290400003631 active site 290400003632 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 290400003633 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 290400003634 active site 290400003635 putative substrate binding pocket [chemical binding]; other site 290400003636 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 290400003637 EamA-like transporter family; Region: EamA; pfam00892 290400003638 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 290400003639 ketol-acid reductoisomerase; Provisional; Region: PRK05479 290400003640 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 290400003641 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 290400003642 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400003643 AsnC family; Region: AsnC_trans_reg; pfam01037 290400003644 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400003645 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 290400003646 putative DNA binding site [nucleotide binding]; other site 290400003647 putative Zn2+ binding site [ion binding]; other site 290400003648 AsnC family; Region: AsnC_trans_reg; pfam01037 290400003649 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 290400003650 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400003651 catalytic residue [active] 290400003652 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 290400003653 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400003654 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 290400003655 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 290400003656 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400003657 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400003658 DNA-binding site [nucleotide binding]; DNA binding site 290400003659 FCD domain; Region: FCD; pfam07729 290400003660 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 290400003661 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 290400003662 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290400003663 DXD motif; other site 290400003664 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 290400003665 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 290400003666 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 290400003667 catalytic site [active] 290400003668 subunit interface [polypeptide binding]; other site 290400003669 Yqey-like protein; Region: YqeY; pfam09424 290400003670 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 290400003671 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 290400003672 Putative water exit pathway; other site 290400003673 Putative proton exit pathway; other site 290400003674 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 290400003675 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 290400003676 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 290400003677 Subunit I/II interface [polypeptide binding]; other site 290400003678 Low-spin heme (heme a) binding site [chemical binding]; other site 290400003679 D-pathway; other site 290400003680 Subunit I/III interface [polypeptide binding]; other site 290400003681 Subunit I/VIIa interface [polypeptide binding]; other site 290400003682 Subunit I/VIIc interface [polypeptide binding]; other site 290400003683 Subunit I/VIa interface [polypeptide binding]; other site 290400003684 Dimer interface; other site 290400003685 Putative water exit pathway; other site 290400003686 Binuclear center (heme a3/CuB) [ion binding]; other site 290400003687 K-pathway; other site 290400003688 Subunit I/Vb interface [polypeptide binding]; other site 290400003689 Putative proton exit pathway; other site 290400003690 Subunit I/VIb interface; other site 290400003691 Subunit I/VIc interface [polypeptide binding]; other site 290400003692 Electron transfer pathway; other site 290400003693 Subunit I/IV interface [polypeptide binding]; other site 290400003694 Subunit I/VIIIb interface [polypeptide binding]; other site 290400003695 Subunit I/VIIb interface [polypeptide binding]; other site 290400003696 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 290400003697 lipoate-protein ligase B; Provisional; Region: PRK14341 290400003698 LytTr DNA-binding domain; Region: LytTR; smart00850 290400003699 Predicted membrane protein (DUF2306); Region: DUF2306; cl02232 290400003700 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400003701 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 290400003702 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 290400003703 acyl-activating enzyme (AAE) consensus motif; other site 290400003704 putative AMP binding site [chemical binding]; other site 290400003705 putative active site [active] 290400003706 putative CoA binding site [chemical binding]; other site 290400003707 bile acid transporter; Region: bass; TIGR00841 290400003708 Sodium Bile acid symporter family; Region: SBF; cl17470 290400003709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 290400003710 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 290400003711 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 290400003712 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400003713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400003714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003715 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400003716 dimerization interface [polypeptide binding]; other site 290400003717 Ferritin-like; Region: Ferritin-like; pfam12902 290400003718 hypothetical protein; Provisional; Region: PRK05409 290400003719 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 290400003720 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400003721 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400003722 active site 290400003723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400003724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003725 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 290400003726 dimerization interface [polypeptide binding]; other site 290400003727 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400003728 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400003729 Walker A/P-loop; other site 290400003730 ATP binding site [chemical binding]; other site 290400003731 Q-loop/lid; other site 290400003732 ABC transporter signature motif; other site 290400003733 Walker B; other site 290400003734 D-loop; other site 290400003735 H-loop/switch region; other site 290400003736 TOBE domain; Region: TOBE_2; pfam08402 290400003737 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400003738 Uncharacterized conserved protein [Function unknown]; Region: COG5470 290400003739 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 290400003740 conserved gate region; other site 290400003741 putative PBP binding loops; other site 290400003742 ABC-ATPase subunit interface; other site 290400003743 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 290400003744 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 290400003745 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 290400003746 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400003747 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 290400003748 dimer interface [polypeptide binding]; other site 290400003749 conserved gate region; other site 290400003750 putative PBP binding loops; other site 290400003751 ABC-ATPase subunit interface; other site 290400003752 Hint domain; Region: Hint_2; pfam13403 290400003753 Predicted permeases [General function prediction only]; Region: COG0679 290400003754 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 290400003755 putative hydrolase; Provisional; Region: PRK02113 290400003756 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 290400003757 active site 290400003758 DNA polymerase III subunit delta'; Validated; Region: PRK07471 290400003759 DNA polymerase III subunit delta'; Validated; Region: PRK08485 290400003760 thymidylate kinase; Validated; Region: tmk; PRK00698 290400003761 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 290400003762 TMP-binding site; other site 290400003763 ATP-binding site [chemical binding]; other site 290400003764 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290400003765 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290400003766 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 290400003767 Sporulation related domain; Region: SPOR; pfam05036 290400003768 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400003769 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400003770 DNA binding site [nucleotide binding] 290400003771 domain linker motif; other site 290400003772 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 290400003773 ligand binding site [chemical binding]; other site 290400003774 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400003775 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 290400003776 dimer interface [polypeptide binding]; other site 290400003777 conserved gate region; other site 290400003778 putative PBP binding loops; other site 290400003779 ABC-ATPase subunit interface; other site 290400003780 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400003781 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 290400003782 dimer interface [polypeptide binding]; other site 290400003783 conserved gate region; other site 290400003784 putative PBP binding loops; other site 290400003785 ABC-ATPase subunit interface; other site 290400003786 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 290400003787 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400003788 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400003789 Walker A/P-loop; other site 290400003790 ATP binding site [chemical binding]; other site 290400003791 Q-loop/lid; other site 290400003792 ABC transporter signature motif; other site 290400003793 Walker B; other site 290400003794 D-loop; other site 290400003795 H-loop/switch region; other site 290400003796 TOBE domain; Region: TOBE_2; pfam08402 290400003797 Isochorismatase family; Region: Isochorismatase; pfam00857 290400003798 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 290400003799 catalytic triad [active] 290400003800 conserved cis-peptide bond; other site 290400003801 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290400003802 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 290400003803 Transposase domain (DUF772); Region: DUF772; pfam05598 290400003804 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290400003805 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 290400003806 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 290400003807 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 290400003808 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400003809 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 290400003810 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400003811 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 290400003812 TM-ABC transporter signature motif; other site 290400003813 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400003814 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 290400003815 TM-ABC transporter signature motif; other site 290400003816 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 290400003817 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400003818 Walker A/P-loop; other site 290400003819 ATP binding site [chemical binding]; other site 290400003820 Q-loop/lid; other site 290400003821 ABC transporter signature motif; other site 290400003822 Walker B; other site 290400003823 D-loop; other site 290400003824 H-loop/switch region; other site 290400003825 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400003826 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 290400003827 Amidase; Region: Amidase; cl11426 290400003828 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 290400003829 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 290400003830 putative ligand binding site [chemical binding]; other site 290400003831 cytosine deaminase; Validated; Region: PRK07572 290400003832 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 290400003833 active site 290400003834 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 290400003835 Transcriptional regulator; Region: Rrf2; cl17282 290400003836 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400003837 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400003838 WHG domain; Region: WHG; pfam13305 290400003839 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290400003840 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290400003841 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400003842 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 290400003843 OsmC-like protein; Region: OsmC; pfam02566 290400003844 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400003845 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290400003846 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290400003847 HlyD family secretion protein; Region: HlyD_3; pfam13437 290400003848 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400003849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400003850 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 290400003851 putative effector binding pocket; other site 290400003852 dimerization interface [polypeptide binding]; other site 290400003853 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400003854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400003855 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400003856 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 290400003857 SnoaL-like domain; Region: SnoaL_4; pfam13577 290400003858 short chain dehydrogenase; Provisional; Region: PRK06180 290400003859 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 290400003860 NADP binding site [chemical binding]; other site 290400003861 active site 290400003862 steroid binding site; other site 290400003863 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 290400003864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400003865 NAD(P) binding site [chemical binding]; other site 290400003866 active site 290400003867 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 290400003868 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 290400003869 active site 290400003870 FMN binding site [chemical binding]; other site 290400003871 substrate binding site [chemical binding]; other site 290400003872 homotetramer interface [polypeptide binding]; other site 290400003873 catalytic residue [active] 290400003874 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400003875 classical (c) SDRs; Region: SDR_c; cd05233 290400003876 NAD(P) binding site [chemical binding]; other site 290400003877 active site 290400003878 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400003879 MarR family; Region: MarR; pfam01047 290400003880 enoyl-CoA hydratase; Provisional; Region: PRK06688 290400003881 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 290400003882 substrate binding site [chemical binding]; other site 290400003883 oxyanion hole (OAH) forming residues; other site 290400003884 trimer interface [polypeptide binding]; other site 290400003885 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400003886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400003887 active site 290400003888 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400003889 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 290400003890 acyl-activating enzyme (AAE) consensus motif; other site 290400003891 AMP binding site [chemical binding]; other site 290400003892 active site 290400003893 CoA binding site [chemical binding]; other site 290400003894 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 290400003895 active site 290400003896 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 290400003897 homotrimer interaction site [polypeptide binding]; other site 290400003898 putative active site [active] 290400003899 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400003900 MarR family; Region: MarR_2; pfam12802 290400003901 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 290400003902 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290400003903 dimer interface [polypeptide binding]; other site 290400003904 PYR/PP interface [polypeptide binding]; other site 290400003905 TPP binding site [chemical binding]; other site 290400003906 substrate binding site [chemical binding]; other site 290400003907 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 290400003908 TPP-binding site; other site 290400003909 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 290400003910 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290400003911 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290400003912 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 290400003913 acyl-activating enzyme (AAE) consensus motif; other site 290400003914 putative AMP binding site [chemical binding]; other site 290400003915 putative active site [active] 290400003916 putative CoA binding site [chemical binding]; other site 290400003917 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 290400003918 lipid-transfer protein; Provisional; Region: PRK07855 290400003919 active site 290400003920 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 290400003921 DUF35 OB-fold domain; Region: DUF35; pfam01796 290400003922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400003923 NAD(P) binding site [chemical binding]; other site 290400003924 active site 290400003925 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 290400003926 DctM-like transporters; Region: DctM; pfam06808 290400003927 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400003928 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400003929 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400003930 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400003931 MarR family; Region: MarR; pfam01047 290400003932 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290400003933 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 290400003934 FMN-binding pocket [chemical binding]; other site 290400003935 flavin binding motif; other site 290400003936 phosphate binding motif [ion binding]; other site 290400003937 beta-alpha-beta structure motif; other site 290400003938 NAD binding pocket [chemical binding]; other site 290400003939 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 290400003940 catalytic loop [active] 290400003941 iron binding site [ion binding]; other site 290400003942 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 290400003943 iron-sulfur cluster [ion binding]; other site 290400003944 [2Fe-2S] cluster binding site [ion binding]; other site 290400003945 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 290400003946 putative alpha subunit interface [polypeptide binding]; other site 290400003947 putative active site [active] 290400003948 putative substrate binding site [chemical binding]; other site 290400003949 Fe binding site [ion binding]; other site 290400003950 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 290400003951 inter-subunit interface; other site 290400003952 short chain dehydrogenase; Provisional; Region: PRK07577 290400003953 classical (c) SDRs; Region: SDR_c; cd05233 290400003954 NAD(P) binding site [chemical binding]; other site 290400003955 active site 290400003956 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 290400003957 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400003958 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400003959 DNA binding site [nucleotide binding] 290400003960 domain linker motif; other site 290400003961 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 290400003962 putative dimerization interface [polypeptide binding]; other site 290400003963 putative ligand binding site [chemical binding]; other site 290400003964 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290400003965 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400003966 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400003967 DctM-like transporters; Region: DctM; pfam06808 290400003968 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400003969 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 290400003970 Ligand Binding Site [chemical binding]; other site 290400003971 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400003972 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400003973 Walker A/P-loop; other site 290400003974 ATP binding site [chemical binding]; other site 290400003975 Q-loop/lid; other site 290400003976 ABC transporter signature motif; other site 290400003977 Walker B; other site 290400003978 D-loop; other site 290400003979 H-loop/switch region; other site 290400003980 TOBE domain; Region: TOBE_2; pfam08402 290400003981 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400003982 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 290400003983 dimer interface [polypeptide binding]; other site 290400003984 conserved gate region; other site 290400003985 putative PBP binding loops; other site 290400003986 ABC-ATPase subunit interface; other site 290400003987 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400003988 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 290400003989 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400003990 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400003991 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 290400003992 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 290400003993 putative active site [active] 290400003994 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 290400003995 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290400003996 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400003997 DNA-binding site [nucleotide binding]; DNA binding site 290400003998 UTRA domain; Region: UTRA; pfam07702 290400003999 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 290400004000 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 290400004001 dimer interface [polypeptide binding]; other site 290400004002 active site 290400004003 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 290400004004 dimer interface [polypeptide binding]; other site 290400004005 active site 290400004006 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 290400004007 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 290400004008 active site 290400004009 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 290400004010 motif II; other site 290400004011 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400004012 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290400004013 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 290400004014 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 290400004015 dimer interface [polypeptide binding]; other site 290400004016 conserved gate region; other site 290400004017 putative PBP binding loops; other site 290400004018 ABC-ATPase subunit interface; other site 290400004019 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 290400004020 dimer interface [polypeptide binding]; other site 290400004021 conserved gate region; other site 290400004022 putative PBP binding loops; other site 290400004023 ABC-ATPase subunit interface; other site 290400004024 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400004025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400004026 Walker A/P-loop; other site 290400004027 ATP binding site [chemical binding]; other site 290400004028 Q-loop/lid; other site 290400004029 ABC transporter signature motif; other site 290400004030 Walker B; other site 290400004031 D-loop; other site 290400004032 H-loop/switch region; other site 290400004033 TOBE domain; Region: TOBE_2; pfam08402 290400004034 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 290400004035 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 290400004036 active site 290400004037 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 290400004038 Imelysin; Region: Peptidase_M75; cl09159 290400004039 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 290400004040 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 290400004041 Imelysin; Region: Peptidase_M75; pfam09375 290400004042 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 290400004043 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 290400004044 non-specific DNA interactions [nucleotide binding]; other site 290400004045 DNA binding site [nucleotide binding] 290400004046 sequence specific DNA binding site [nucleotide binding]; other site 290400004047 putative cAMP binding site [chemical binding]; other site 290400004048 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290400004049 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290400004050 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 290400004051 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400004052 ligand binding site [chemical binding]; other site 290400004053 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400004054 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400004055 TM-ABC transporter signature motif; other site 290400004056 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400004057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400004058 Walker A/P-loop; other site 290400004059 ATP binding site [chemical binding]; other site 290400004060 Q-loop/lid; other site 290400004061 ABC transporter signature motif; other site 290400004062 Walker B; other site 290400004063 D-loop; other site 290400004064 H-loop/switch region; other site 290400004065 Phosphotransferase enzyme family; Region: APH; pfam01636 290400004066 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 290400004067 active site 290400004068 ATP binding site [chemical binding]; other site 290400004069 substrate binding site [chemical binding]; other site 290400004070 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 290400004071 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 290400004072 inhibitor-cofactor binding pocket; inhibition site 290400004073 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400004074 catalytic residue [active] 290400004075 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 290400004076 PAS domain; Region: PAS_9; pfam13426 290400004077 putative active site [active] 290400004078 heme pocket [chemical binding]; other site 290400004079 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 290400004080 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290400004081 dimer interface [polypeptide binding]; other site 290400004082 putative CheW interface [polypeptide binding]; other site 290400004083 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400004084 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290400004085 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 290400004086 putative ligand binding site [chemical binding]; other site 290400004087 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 290400004088 TM-ABC transporter signature motif; other site 290400004089 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290400004090 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 290400004091 TM-ABC transporter signature motif; other site 290400004092 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400004093 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290400004094 Walker A/P-loop; other site 290400004095 ATP binding site [chemical binding]; other site 290400004096 Q-loop/lid; other site 290400004097 ABC transporter signature motif; other site 290400004098 Walker B; other site 290400004099 D-loop; other site 290400004100 H-loop/switch region; other site 290400004101 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290400004102 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290400004103 Walker A/P-loop; other site 290400004104 ATP binding site [chemical binding]; other site 290400004105 Q-loop/lid; other site 290400004106 ABC transporter signature motif; other site 290400004107 Walker B; other site 290400004108 D-loop; other site 290400004109 H-loop/switch region; other site 290400004110 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 290400004111 intersubunit interface [polypeptide binding]; other site 290400004112 active site 290400004113 Zn2+ binding site [ion binding]; other site 290400004114 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 290400004115 hypothetical protein; Provisional; Region: PRK02399 290400004116 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400004117 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 290400004118 dimer interface [polypeptide binding]; other site 290400004119 conserved gate region; other site 290400004120 putative PBP binding loops; other site 290400004121 ABC-ATPase subunit interface; other site 290400004122 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 290400004123 dimer interface [polypeptide binding]; other site 290400004124 conserved gate region; other site 290400004125 putative PBP binding loops; other site 290400004126 ABC-ATPase subunit interface; other site 290400004127 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400004128 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290400004129 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400004130 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400004131 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400004132 Walker A/P-loop; other site 290400004133 ATP binding site [chemical binding]; other site 290400004134 Q-loop/lid; other site 290400004135 ABC transporter signature motif; other site 290400004136 Walker B; other site 290400004137 D-loop; other site 290400004138 H-loop/switch region; other site 290400004139 TOBE domain; Region: TOBE_2; pfam08402 290400004140 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400004141 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400004142 DNA-binding site [nucleotide binding]; DNA binding site 290400004143 FCD domain; Region: FCD; pfam07729 290400004144 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290400004145 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 290400004146 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 290400004147 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 290400004148 motif II; other site 290400004149 Uncharacterized conserved protein [Function unknown]; Region: COG3347 290400004150 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 290400004151 intersubunit interface [polypeptide binding]; other site 290400004152 active site 290400004153 Zn2+ binding site [ion binding]; other site 290400004154 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290400004155 D-xylulose kinase; Region: XylB; TIGR01312 290400004156 nucleotide binding site [chemical binding]; other site 290400004157 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400004158 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400004159 DNA binding site [nucleotide binding] 290400004160 domain linker motif; other site 290400004161 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 290400004162 putative dimerization interface [polypeptide binding]; other site 290400004163 putative ligand binding site [chemical binding]; other site 290400004164 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 290400004165 histidinol dehydrogenase; Region: hisD; TIGR00069 290400004166 NAD binding site [chemical binding]; other site 290400004167 dimerization interface [polypeptide binding]; other site 290400004168 product binding site; other site 290400004169 substrate binding site [chemical binding]; other site 290400004170 zinc binding site [ion binding]; other site 290400004171 catalytic residues [active] 290400004172 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 290400004173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400004174 NAD(P) binding site [chemical binding]; other site 290400004175 active site 290400004176 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 290400004177 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290400004178 NAD(P) binding site [chemical binding]; other site 290400004179 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400004180 PYR/PP interface [polypeptide binding]; other site 290400004181 dimer interface [polypeptide binding]; other site 290400004182 TPP binding site [chemical binding]; other site 290400004183 sulfopyruvate decarboxylase, beta subunit; Region: sulfopy_beta; TIGR03846 290400004184 Thiamine pyrophosphate (TPP) family, ComE subfamily, TPP-binding module; composed of proteins similar to Methanococcus jannaschii sulfopyruvate decarboxylase beta subunit (ComE). M. jannaschii sulfopyruvate decarboxylase (ComDE) is a dodecamer of six...; Region: TPP_ComE; cd03372 290400004185 TPP-binding site; other site 290400004186 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290400004187 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 290400004188 phosphate binding site [ion binding]; other site 290400004189 hypothetical protein; Provisional; Region: PRK07475 290400004190 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400004191 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400004192 DNA-binding site [nucleotide binding]; DNA binding site 290400004193 FCD domain; Region: FCD; pfam07729 290400004194 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 290400004195 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400004196 PYR/PP interface [polypeptide binding]; other site 290400004197 dimer interface [polypeptide binding]; other site 290400004198 TPP binding site [chemical binding]; other site 290400004199 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400004200 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 290400004201 TPP-binding site [chemical binding]; other site 290400004202 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400004203 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 290400004204 dimerization interface [polypeptide binding]; other site 290400004205 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 290400004206 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 290400004207 metal binding site [ion binding]; metal-binding site 290400004208 substrate binding pocket [chemical binding]; other site 290400004209 MarR family; Region: MarR_2; cl17246 290400004210 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400004211 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 290400004212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400004213 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400004214 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400004215 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400004216 DctM-like transporters; Region: DctM; pfam06808 290400004217 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004218 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004219 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400004220 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 290400004221 intersubunit interface [polypeptide binding]; other site 290400004222 active site 290400004223 zinc binding site [ion binding]; other site 290400004224 Na+ binding site [ion binding]; other site 290400004225 KduI/IolB family; Region: KduI; pfam04962 290400004226 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400004227 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 290400004228 substrate binding site [chemical binding]; other site 290400004229 ATP binding site [chemical binding]; other site 290400004230 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 290400004231 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400004232 PYR/PP interface [polypeptide binding]; other site 290400004233 dimer interface [polypeptide binding]; other site 290400004234 TPP binding site [chemical binding]; other site 290400004235 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400004236 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 290400004237 TPP-binding site [chemical binding]; other site 290400004238 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004239 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004240 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400004241 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290400004242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400004243 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 290400004244 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004245 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004246 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400004247 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400004248 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400004249 DNA binding site [nucleotide binding] 290400004250 domain linker motif; other site 290400004251 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 290400004252 putative dimerization interface [polypeptide binding]; other site 290400004253 putative ligand binding site [chemical binding]; other site 290400004254 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 290400004255 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400004256 putative ligand binding site [chemical binding]; other site 290400004257 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400004258 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400004259 TM-ABC transporter signature motif; other site 290400004260 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400004261 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 290400004262 Walker A/P-loop; other site 290400004263 ATP binding site [chemical binding]; other site 290400004264 Q-loop/lid; other site 290400004265 ABC transporter signature motif; other site 290400004266 Walker B; other site 290400004267 D-loop; other site 290400004268 H-loop/switch region; other site 290400004269 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 290400004270 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 290400004271 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 290400004272 ligand binding site [chemical binding]; other site 290400004273 dimer interface [polypeptide binding]; other site 290400004274 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 290400004275 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 290400004276 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400004277 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 290400004278 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 290400004279 putative active site [active] 290400004280 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 290400004281 fumarylacetoacetase; Region: PLN02856 290400004282 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 290400004283 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400004284 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 290400004285 C-terminal domain interface [polypeptide binding]; other site 290400004286 GSH binding site (G-site) [chemical binding]; other site 290400004287 putative dimer interface [polypeptide binding]; other site 290400004288 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 290400004289 dimer interface [polypeptide binding]; other site 290400004290 N-terminal domain interface [polypeptide binding]; other site 290400004291 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 290400004292 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 290400004293 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 290400004294 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 290400004295 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400004296 active site 290400004297 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 290400004298 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 290400004299 4Fe-4S binding domain; Region: Fer4; pfam00037 290400004300 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 290400004301 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_2; cd02763 290400004302 putative [Fe4-S4] binding site [ion binding]; other site 290400004303 putative molybdopterin cofactor binding site [chemical binding]; other site 290400004304 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is...; Region: MopB_CT_2; cd02783 290400004305 putative molybdopterin cofactor binding site; other site 290400004306 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290400004307 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 290400004308 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290400004309 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 290400004310 alpha subunit interface [polypeptide binding]; other site 290400004311 active site 290400004312 substrate binding site [chemical binding]; other site 290400004313 Fe binding site [ion binding]; other site 290400004314 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290400004315 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 290400004316 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290400004317 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 290400004318 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400004319 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290400004320 DctM-like transporters; Region: DctM; pfam06808 290400004321 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400004322 L-aspartate dehydrogenase; Provisional; Region: PRK13303 290400004323 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290400004324 Domain of unknown function DUF108; Region: DUF108; pfam01958 290400004325 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400004326 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400004327 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400004328 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290400004329 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290400004330 inhibitor site; inhibition site 290400004331 active site 290400004332 dimer interface [polypeptide binding]; other site 290400004333 catalytic residue [active] 290400004334 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400004335 DNA binding site [nucleotide binding] 290400004336 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 290400004337 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400004338 putative ligand binding site [chemical binding]; other site 290400004339 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 290400004340 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 290400004341 putative di-iron ligands [ion binding]; other site 290400004342 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 290400004343 [2Fe-2S] cluster binding site [ion binding]; other site 290400004344 short chain dehydrogenase; Provisional; Region: PRK06198 290400004345 classical (c) SDRs; Region: SDR_c; cd05233 290400004346 NAD(P) binding site [chemical binding]; other site 290400004347 active site 290400004348 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400004349 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400004350 DNA binding site [nucleotide binding] 290400004351 domain linker motif; other site 290400004352 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 290400004353 dimerization interface [polypeptide binding]; other site 290400004354 ligand binding site [chemical binding]; other site 290400004355 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290400004356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400004357 NAD(P) binding site [chemical binding]; other site 290400004358 active site 290400004359 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004360 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004361 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400004362 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 290400004363 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 290400004364 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400004365 putative ligand binding site [chemical binding]; other site 290400004366 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400004367 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400004368 Walker A/P-loop; other site 290400004369 ATP binding site [chemical binding]; other site 290400004370 Q-loop/lid; other site 290400004371 ABC transporter signature motif; other site 290400004372 Walker B; other site 290400004373 D-loop; other site 290400004374 H-loop/switch region; other site 290400004375 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400004376 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400004377 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400004378 TM-ABC transporter signature motif; other site 290400004379 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400004380 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400004381 TM-ABC transporter signature motif; other site 290400004382 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004383 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004384 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004385 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004386 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400004387 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400004388 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 290400004389 homotrimer interaction site [polypeptide binding]; other site 290400004390 putative active site [active] 290400004391 NMT1/THI5 like; Region: NMT1; pfam09084 290400004392 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400004393 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400004394 Walker A/P-loop; other site 290400004395 ATP binding site [chemical binding]; other site 290400004396 Q-loop/lid; other site 290400004397 ABC transporter signature motif; other site 290400004398 Walker B; other site 290400004399 D-loop; other site 290400004400 H-loop/switch region; other site 290400004401 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400004402 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 290400004403 dimer interface [polypeptide binding]; other site 290400004404 conserved gate region; other site 290400004405 ABC-ATPase subunit interface; other site 290400004406 cytosine deaminase-like protein; Validated; Region: PRK07583 290400004407 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 290400004408 active site 290400004409 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400004410 FAD binding domain; Region: FAD_binding_4; pfam01565 290400004411 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290400004412 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400004413 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 290400004414 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400004415 Creatinine amidohydrolase; Region: Creatininase; pfam02633 290400004416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400004417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400004418 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 290400004419 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400004420 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400004421 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400004422 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400004423 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 290400004424 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 290400004425 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 290400004426 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 290400004427 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 290400004428 Ligand binding site; other site 290400004429 Putative Catalytic site; other site 290400004430 DXD motif; other site 290400004431 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290400004432 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290400004433 inhibitor site; inhibition site 290400004434 active site 290400004435 dimer interface [polypeptide binding]; other site 290400004436 catalytic residue [active] 290400004437 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290400004438 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 290400004439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400004440 active site 290400004441 dihydropyrimidinase; Provisional; Region: PRK13404 290400004442 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 290400004443 active site 290400004444 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 290400004445 Walker A motif; other site 290400004446 ATP binding site [chemical binding]; other site 290400004447 Walker B motif; other site 290400004448 arginine finger; other site 290400004449 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 290400004450 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 290400004451 metal ion-dependent adhesion site (MIDAS); other site 290400004452 choline dehydrogenase; Validated; Region: PRK02106 290400004453 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 290400004454 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290400004455 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 290400004456 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290400004457 NAD(P) binding site [chemical binding]; other site 290400004458 catalytic residues [active] 290400004459 Sulfatase; Region: Sulfatase; cl17466 290400004460 choline-sulfatase; Region: chol_sulfatase; TIGR03417 290400004461 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 290400004462 transcriptional regulator BetI; Validated; Region: PRK00767 290400004463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400004464 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 290400004465 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 290400004466 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 290400004467 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 290400004468 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 290400004469 dimer interface [polypeptide binding]; other site 290400004470 conserved gate region; other site 290400004471 putative PBP binding loops; other site 290400004472 ABC-ATPase subunit interface; other site 290400004473 Uncharacterized conserved protein [Function unknown]; Region: COG3791 290400004474 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 290400004475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400004476 Walker A/P-loop; other site 290400004477 ATP binding site [chemical binding]; other site 290400004478 Q-loop/lid; other site 290400004479 ABC transporter signature motif; other site 290400004480 Walker B; other site 290400004481 D-loop; other site 290400004482 H-loop/switch region; other site 290400004483 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 290400004484 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 290400004485 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 290400004486 active site 290400004487 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 290400004488 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400004489 active site 290400004490 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 290400004491 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 290400004492 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 290400004493 Zn2+ binding site [ion binding]; other site 290400004494 Mg2+ binding site [ion binding]; other site 290400004495 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 290400004496 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 290400004497 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 290400004498 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 290400004499 active site 290400004500 HIGH motif; other site 290400004501 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400004502 KMSK motif region; other site 290400004503 tRNA binding surface [nucleotide binding]; other site 290400004504 DALR anticodon binding domain; Region: DALR_1; smart00836 290400004505 anticodon binding site; other site 290400004506 Sporulation related domain; Region: SPOR; pfam05036 290400004507 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 290400004508 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 290400004509 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 290400004510 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 290400004511 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 290400004512 glutamine synthetase; Provisional; Region: glnA; PRK09469 290400004513 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 290400004514 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290400004515 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 290400004516 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290400004517 Uncharacterized conserved protein [Function unknown]; Region: COG0062 290400004518 putative carbohydrate kinase; Provisional; Region: PRK10565 290400004519 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 290400004520 putative substrate binding site [chemical binding]; other site 290400004521 putative ATP binding site [chemical binding]; other site 290400004522 Hint domain; Region: Hint_2; pfam13403 290400004523 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400004524 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 290400004525 dimerization interface [polypeptide binding]; other site 290400004526 putative DNA binding site [nucleotide binding]; other site 290400004527 putative Zn2+ binding site [ion binding]; other site 290400004528 AsnC family; Region: AsnC_trans_reg; pfam01037 290400004529 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 290400004530 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400004531 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 290400004532 putative DNA binding site [nucleotide binding]; other site 290400004533 putative Zn2+ binding site [ion binding]; other site 290400004534 AsnC family; Region: AsnC_trans_reg; pfam01037 290400004535 AzlC protein; Region: AzlC; cl00570 290400004536 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400004537 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400004538 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_5; cd08474 290400004539 putative effector binding pocket; other site 290400004540 putative dimerization interface [polypeptide binding]; other site 290400004541 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400004542 classical (c) SDRs; Region: SDR_c; cd05233 290400004543 NAD(P) binding site [chemical binding]; other site 290400004544 active site 290400004545 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400004546 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400004547 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 290400004548 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 290400004549 putative active site [active] 290400004550 putative FMN binding site [chemical binding]; other site 290400004551 putative substrate binding site [chemical binding]; other site 290400004552 putative catalytic residue [active] 290400004553 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290400004554 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 290400004555 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 290400004556 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 290400004557 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 290400004558 Response regulator receiver domain; Region: Response_reg; pfam00072 290400004559 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 290400004560 active site 290400004561 phosphorylation site [posttranslational modification] 290400004562 intermolecular recognition site; other site 290400004563 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 290400004564 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 290400004565 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290400004566 active site 290400004567 catalytic residues [active] 290400004568 DNA binding site [nucleotide binding] 290400004569 Int/Topo IB signature motif; other site 290400004570 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 290400004571 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400004572 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 290400004573 DNA binding residues [nucleotide binding] 290400004574 dimerization interface [polypeptide binding]; other site 290400004575 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 290400004576 conjugal transfer relaxase TraA; Provisional; Region: PRK13889 290400004577 MobA/MobL family; Region: MobA_MobL; pfam03389 290400004578 AAA domain; Region: AAA_30; pfam13604 290400004579 Family description; Region: UvrD_C_2; pfam13538 290400004580 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400004581 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400004582 integrase; Provisional; Region: PRK09692 290400004583 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 290400004584 active site 290400004585 DNA binding site [nucleotide binding] 290400004586 Int/Topo IB signature motif; other site 290400004587 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 290400004588 active site 290400004589 NTP binding site [chemical binding]; other site 290400004590 metal binding triad [ion binding]; metal-binding site 290400004591 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400004592 EamA-like transporter family; Region: EamA; pfam00892 290400004593 SnoaL-like domain; Region: SnoaL_2; pfam12680 290400004594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400004595 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400004596 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 290400004597 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400004598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400004599 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400004600 dimerization interface [polypeptide binding]; other site 290400004601 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 290400004602 putative hydrophobic ligand binding site [chemical binding]; other site 290400004603 protein interface [polypeptide binding]; other site 290400004604 gate; other site 290400004605 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290400004606 hydrophobic ligand binding site; other site 290400004607 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400004608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400004609 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 290400004610 active site 290400004611 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400004612 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400004613 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 290400004614 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 290400004615 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 290400004616 putative active site [active] 290400004617 putative PHP Thumb interface [polypeptide binding]; other site 290400004618 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 290400004619 generic binding surface II; other site 290400004620 generic binding surface I; other site 290400004621 DNA Polymerase Y-family; Region: PolY_like; cd03468 290400004622 active site 290400004623 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 290400004624 DNA binding site [nucleotide binding] 290400004625 Uncharacterized conserved protein [Function unknown]; Region: COG4544 290400004626 Heme NO binding associated; Region: HNOBA; pfam07701 290400004627 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 290400004628 cyclase homology domain; Region: CHD; cd07302 290400004629 nucleotidyl binding site; other site 290400004630 metal binding site [ion binding]; metal-binding site 290400004631 dimer interface [polypeptide binding]; other site 290400004632 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400004633 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400004634 DNA binding site [nucleotide binding] 290400004635 domain linker motif; other site 290400004636 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 290400004637 putative dimerization interface [polypeptide binding]; other site 290400004638 putative ligand binding site [chemical binding]; other site 290400004639 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290400004640 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400004641 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290400004642 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 290400004643 putative catalytic cysteine [active] 290400004644 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290400004645 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400004646 Subfamily of fatty acid CoA ligase (FACL) similar to Fum10p of Gibberella moniliformis; Region: FACL_fum10p_like; cd05926 290400004647 acyl-activating enzyme (AAE) consensus motif; other site 290400004648 acyl-activating enzyme (AAE) consensus motif; other site 290400004649 putative AMP binding site [chemical binding]; other site 290400004650 putative active site [active] 290400004651 putative CoA binding site [chemical binding]; other site 290400004652 Sulfatase; Region: Sulfatase; cl17466 290400004653 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 290400004654 Paraquat-inducible protein A; Region: PqiA; pfam04403 290400004655 Paraquat-inducible protein A; Region: PqiA; pfam04403 290400004656 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 290400004657 mce related protein; Region: MCE; pfam02470 290400004658 mce related protein; Region: MCE; pfam02470 290400004659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 290400004660 Protein of unknown function (DUF330); Region: DUF330; pfam03886 290400004661 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 290400004662 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 290400004663 ATP binding site [chemical binding]; other site 290400004664 putative Mg++ binding site [ion binding]; other site 290400004665 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 290400004666 nucleotide binding region [chemical binding]; other site 290400004667 ATP-binding site [chemical binding]; other site 290400004668 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 290400004669 RNA binding site [nucleotide binding]; other site 290400004670 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290400004671 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 290400004672 iron-sulfur cluster [ion binding]; other site 290400004673 [2Fe-2S] cluster binding site [ion binding]; other site 290400004674 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 290400004675 alpha subunit interface [polypeptide binding]; other site 290400004676 active site 290400004677 substrate binding site [chemical binding]; other site 290400004678 Fe binding site [ion binding]; other site 290400004679 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 290400004680 active site 290400004681 catalytic residues [active] 290400004682 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 290400004683 catalytic residues [active] 290400004684 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 290400004685 active site 290400004686 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290400004687 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 290400004688 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 290400004689 TPR motif; other site 290400004690 binding surface 290400004691 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 290400004692 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 290400004693 NAD binding site [chemical binding]; other site 290400004694 S-adenosyl-L-homocysteine hydrolase, NAD binding domain; Region: AdoHcyase_NAD; smart00997 290400004695 NAD binding site [chemical binding]; other site 290400004696 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 290400004697 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 290400004698 PUCC protein; Region: PUCC; pfam03209 290400004699 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 290400004700 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400004701 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 290400004702 dimerization interface [polypeptide binding]; other site 290400004703 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 290400004704 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 290400004705 dimer interface [polypeptide binding]; other site 290400004706 active site 290400004707 heme binding site [chemical binding]; other site 290400004708 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 290400004709 Domain of unknown function (DU1801); Region: DUF1801; cl17490 290400004710 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 290400004711 FAD binding domain; Region: FAD_binding_4; pfam01565 290400004712 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400004713 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 290400004714 BCCT family transporter; Region: BCCT; pfam02028 290400004715 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290400004716 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290400004717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400004718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400004719 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400004720 dimerization interface [polypeptide binding]; other site 290400004721 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400004722 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400004723 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400004724 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400004725 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400004726 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 290400004727 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 290400004728 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 290400004729 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 290400004730 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 290400004731 tetramer interface [polypeptide binding]; other site 290400004732 active site 290400004733 Mg2+/Mn2+ binding site [ion binding]; other site 290400004734 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 290400004735 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 290400004736 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 290400004737 active site 290400004738 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 290400004739 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 290400004740 phosphopeptide binding site; other site 290400004741 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 290400004742 active site 290400004743 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 290400004744 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 290400004745 phosphopeptide binding site; other site 290400004746 Protein kinase domain; Region: Pkinase; pfam00069 290400004747 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290400004748 active site 290400004749 ATP binding site [chemical binding]; other site 290400004750 substrate binding site [chemical binding]; other site 290400004751 activation loop (A-loop); other site 290400004752 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 290400004753 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290400004754 active site 290400004755 ATP binding site [chemical binding]; other site 290400004756 substrate binding site [chemical binding]; other site 290400004757 activation loop (A-loop); other site 290400004758 trigger factor; Provisional; Region: tig; PRK01490 290400004759 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 290400004760 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 290400004761 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400004762 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 290400004763 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 290400004764 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 290400004765 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 290400004766 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 290400004767 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 290400004768 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 290400004769 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 290400004770 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 290400004771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400004772 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 290400004773 NAD(P) binding site [chemical binding]; other site 290400004774 active site 290400004775 acyl carrier protein; Provisional; Region: acpP; PRK00982 290400004776 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 290400004777 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 290400004778 dimer interface [polypeptide binding]; other site 290400004779 active site 290400004780 YceG-like family; Region: YceG; pfam02618 290400004781 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 290400004782 dimerization interface [polypeptide binding]; other site 290400004783 Uncharacterized conserved protein [Function unknown]; Region: COG5323 290400004784 Terminase-like family; Region: Terminase_6; pfam03237 290400004785 Phage-related protein [Function unknown]; Region: COG4695 290400004786 Phage portal protein; Region: Phage_portal; pfam04860 290400004787 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 290400004788 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 290400004789 Phage capsid family; Region: Phage_capsid; pfam05065 290400004790 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 290400004791 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 290400004792 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 290400004793 Phage major tail protein 2; Region: Phage_tail_2; cl11463 290400004794 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 290400004795 phage conserved hypothetical protein; Region: phage_TIGR02216 290400004796 Phage-related minor tail protein [Function unknown]; Region: COG5281 290400004797 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 290400004798 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 290400004799 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 290400004800 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 290400004801 NlpC/P60 family; Region: NLPC_P60; cl17555 290400004802 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 290400004803 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 290400004804 Putative phage tail protein; Region: Phage-tail_3; pfam13550 290400004805 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 290400004806 serine acetyltransferase; Provisional; Region: cysE; PRK11132 290400004807 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 290400004808 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 290400004809 trimer interface [polypeptide binding]; other site 290400004810 active site 290400004811 substrate binding site [chemical binding]; other site 290400004812 CoA binding site [chemical binding]; other site 290400004813 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 290400004814 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 290400004815 G1 box; other site 290400004816 putative GEF interaction site [polypeptide binding]; other site 290400004817 GTP/Mg2+ binding site [chemical binding]; other site 290400004818 Switch I region; other site 290400004819 G2 box; other site 290400004820 G3 box; other site 290400004821 Switch II region; other site 290400004822 G4 box; other site 290400004823 G5 box; other site 290400004824 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 290400004825 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 290400004826 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290400004827 metal binding site 2 [ion binding]; metal-binding site 290400004828 putative DNA binding helix; other site 290400004829 metal binding site 1 [ion binding]; metal-binding site 290400004830 dimer interface [polypeptide binding]; other site 290400004831 structural Zn2+ binding site [ion binding]; other site 290400004832 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 290400004833 active site 1 [active] 290400004834 dimer interface [polypeptide binding]; other site 290400004835 active site 2 [active] 290400004836 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 290400004837 homotrimer interaction site [polypeptide binding]; other site 290400004838 putative active site [active] 290400004839 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 290400004840 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 290400004841 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 290400004842 dimer interface [polypeptide binding]; other site 290400004843 active site 290400004844 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 290400004845 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 290400004846 NAD binding site [chemical binding]; other site 290400004847 homotetramer interface [polypeptide binding]; other site 290400004848 homodimer interface [polypeptide binding]; other site 290400004849 substrate binding site [chemical binding]; other site 290400004850 active site 290400004851 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 290400004852 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 290400004853 motif II; other site 290400004854 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400004855 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 290400004856 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 290400004857 tetramer interface [polypeptide binding]; other site 290400004858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400004859 catalytic residue [active] 290400004860 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 290400004861 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400004862 putative substrate translocation pore; other site 290400004863 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 290400004864 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 290400004865 tetramer interface [polypeptide binding]; other site 290400004866 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 290400004867 TAP-like protein; Region: Abhydrolase_4; pfam08386 290400004868 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 290400004869 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 290400004870 NAD binding site [chemical binding]; other site 290400004871 catalytic Zn binding site [ion binding]; other site 290400004872 substrate binding site [chemical binding]; other site 290400004873 structural Zn binding site [ion binding]; other site 290400004874 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 290400004875 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290400004876 active site pocket [active] 290400004877 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 290400004878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 290400004879 DNA-binding site [nucleotide binding]; DNA binding site 290400004880 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 290400004881 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400004882 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400004883 ligand binding site [chemical binding]; other site 290400004884 Helix-turn-helix domain; Region: HTH_18; pfam12833 290400004885 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 290400004886 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 290400004887 DNA binding site [nucleotide binding] 290400004888 active site 290400004889 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 290400004890 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290400004891 minor groove reading motif; other site 290400004892 helix-hairpin-helix signature motif; other site 290400004893 substrate binding pocket [chemical binding]; other site 290400004894 active site 290400004895 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 290400004896 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 290400004897 homotrimer interaction site [polypeptide binding]; other site 290400004898 putative active site [active] 290400004899 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 290400004900 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400004901 substrate binding site [chemical binding]; other site 290400004902 ATP binding site [chemical binding]; other site 290400004903 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400004904 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 290400004905 ligand binding site [chemical binding]; other site 290400004906 flexible hinge region; other site 290400004907 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400004908 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 290400004909 ligand binding site [chemical binding]; other site 290400004910 flexible hinge region; other site 290400004911 CHASE2 domain; Region: CHASE2; pfam05226 290400004912 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 290400004913 cyclase homology domain; Region: CHD; cd07302 290400004914 nucleotidyl binding site; other site 290400004915 metal binding site [ion binding]; metal-binding site 290400004916 dimer interface [polypeptide binding]; other site 290400004917 FecR protein; Region: FecR; pfam04773 290400004918 Tetratricopeptide repeat; Region: TPR_16; pfam13432 290400004919 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 290400004920 Core-2/I-Branching enzyme; Region: Branch; pfam02485 290400004921 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 290400004922 nucleotide binding site/active site [active] 290400004923 HIT family signature motif; other site 290400004924 catalytic residue [active] 290400004925 Zinc-finger domain; Region: zf-CHCC; pfam10276 290400004926 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 290400004927 DNA polymerase I; Provisional; Region: PRK05755 290400004928 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 290400004929 active site 290400004930 metal binding site 1 [ion binding]; metal-binding site 290400004931 putative 5' ssDNA interaction site; other site 290400004932 metal binding site 3; metal-binding site 290400004933 metal binding site 2 [ion binding]; metal-binding site 290400004934 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 290400004935 putative DNA binding site [nucleotide binding]; other site 290400004936 putative metal binding site [ion binding]; other site 290400004937 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 290400004938 active site 290400004939 catalytic site [active] 290400004940 substrate binding site [chemical binding]; other site 290400004941 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 290400004942 active site 290400004943 DNA binding site [nucleotide binding] 290400004944 catalytic site [active] 290400004945 Protein of unknown function (DUF419); Region: DUF419; pfam04237 290400004946 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 290400004947 pseudouridine synthase; Region: TIGR00093 290400004948 active site 290400004949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 290400004950 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 290400004951 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 290400004952 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 290400004953 E3 interaction surface; other site 290400004954 lipoyl attachment site [posttranslational modification]; other site 290400004955 e3 binding domain; Region: E3_binding; pfam02817 290400004956 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 290400004957 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 290400004958 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 290400004959 E3 interaction surface; other site 290400004960 lipoyl attachment site [posttranslational modification]; other site 290400004961 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 290400004962 alpha subunit interface [polypeptide binding]; other site 290400004963 TPP binding site [chemical binding]; other site 290400004964 heterodimer interface [polypeptide binding]; other site 290400004965 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290400004966 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 290400004967 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 290400004968 tetramer interface [polypeptide binding]; other site 290400004969 TPP-binding site [chemical binding]; other site 290400004970 heterodimer interface [polypeptide binding]; other site 290400004971 phosphorylation loop region [posttranslational modification] 290400004972 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 290400004973 Septum formation initiator; Region: DivIC; pfam04977 290400004974 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 290400004975 catalytic residue [active] 290400004976 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 290400004977 Phosphoglycerate kinase; Region: PGK; pfam00162 290400004978 substrate binding site [chemical binding]; other site 290400004979 hinge regions; other site 290400004980 ADP binding site [chemical binding]; other site 290400004981 catalytic site [active] 290400004982 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 290400004983 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290400004984 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290400004985 Cupin domain; Region: Cupin_2; cl17218 290400004986 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290400004987 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 290400004988 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290400004989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 290400004990 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 290400004991 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 290400004992 TPP-binding site [chemical binding]; other site 290400004993 dimer interface [polypeptide binding]; other site 290400004994 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 290400004995 PYR/PP interface [polypeptide binding]; other site 290400004996 dimer interface [polypeptide binding]; other site 290400004997 TPP binding site [chemical binding]; other site 290400004998 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290400004999 Cell division protein ZapA; Region: ZapA; pfam05164 290400005000 classical (c) SDRs; Region: SDR_c; cd05233 290400005001 NAD(P) binding site [chemical binding]; other site 290400005002 active site 290400005003 BioY family; Region: BioY; pfam02632 290400005004 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; cl02048 290400005005 amidophosphoribosyltransferase; Provisional; Region: PRK09123 290400005006 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 290400005007 active site 290400005008 tetramer interface [polypeptide binding]; other site 290400005009 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400005010 active site 290400005011 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400005012 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 290400005013 DNA binding site [nucleotide binding] 290400005014 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400005015 Colicin V production protein; Region: Colicin_V; pfam02674 290400005016 DNA repair protein RadA; Provisional; Region: PRK11823 290400005017 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 290400005018 Walker A motif/ATP binding site; other site 290400005019 ATP binding site [chemical binding]; other site 290400005020 Walker B motif; other site 290400005021 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 290400005022 Autotransporter beta-domain; Region: Autotransporter; smart00869 290400005023 Paraquat-inducible protein A; Region: PqiA; pfam04403 290400005024 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 290400005025 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 290400005026 catalytic triad [active] 290400005027 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 290400005028 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 290400005029 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 290400005030 putative MFS family transporter protein; Provisional; Region: PRK03633 290400005031 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 290400005032 putative substrate translocation pore; other site 290400005033 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 290400005034 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 290400005035 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400005036 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400005037 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290400005038 von Willebrand factor type A domain; Region: VWA_2; pfam13519 290400005039 metal ion-dependent adhesion site (MIDAS); other site 290400005040 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 290400005041 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290400005042 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 290400005043 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 290400005044 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 290400005045 active site 290400005046 putative substrate binding region [chemical binding]; other site 290400005047 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400005048 Cytochrome P450; Region: p450; cl12078 290400005049 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400005050 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400005051 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 290400005052 putative FMN binding site [chemical binding]; other site 290400005053 putative dimer interface [polypeptide binding]; other site 290400005054 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290400005055 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 290400005056 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290400005057 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 290400005058 active site 290400005059 phosphorylation site [posttranslational modification] 290400005060 intermolecular recognition site; other site 290400005061 dimerization interface [polypeptide binding]; other site 290400005062 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 290400005063 Walker A motif; other site 290400005064 ATP binding site [chemical binding]; other site 290400005065 Walker B motif; other site 290400005066 arginine finger; other site 290400005067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290400005068 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 290400005069 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 290400005070 dimer interface [polypeptide binding]; other site 290400005071 phosphorylation site [posttranslational modification] 290400005072 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 290400005073 ATP binding site [chemical binding]; other site 290400005074 G-X-G motif; other site 290400005075 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 290400005076 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 290400005077 triosephosphate isomerase; Provisional; Region: PRK14565 290400005078 substrate binding site [chemical binding]; other site 290400005079 dimer interface [polypeptide binding]; other site 290400005080 catalytic triad [active] 290400005081 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 290400005082 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 290400005083 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 290400005084 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 290400005085 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 290400005086 Walker A/P-loop; other site 290400005087 ATP binding site [chemical binding]; other site 290400005088 Q-loop/lid; other site 290400005089 ABC transporter signature motif; other site 290400005090 Walker B; other site 290400005091 D-loop; other site 290400005092 H-loop/switch region; other site 290400005093 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 290400005094 Permease; Region: Permease; pfam02405 290400005095 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 290400005096 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 290400005097 active site 290400005098 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400005099 dimer interface [polypeptide binding]; other site 290400005100 substrate binding site [chemical binding]; other site 290400005101 catalytic residues [active] 290400005102 replicative DNA helicase; Provisional; Region: PRK09165 290400005103 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 290400005104 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 290400005105 Walker A motif; other site 290400005106 ATP binding site [chemical binding]; other site 290400005107 Walker B motif; other site 290400005108 DNA binding loops [nucleotide binding] 290400005109 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400005110 active site 290400005111 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 290400005112 active site 290400005113 substrate binding pocket [chemical binding]; other site 290400005114 dimer interface [polypeptide binding]; other site 290400005115 UreD urease accessory protein; Region: UreD; pfam01774 290400005116 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 290400005117 alpha-gamma subunit interface [polypeptide binding]; other site 290400005118 beta-gamma subunit interface [polypeptide binding]; other site 290400005119 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 290400005120 gamma-beta subunit interface [polypeptide binding]; other site 290400005121 alpha-beta subunit interface [polypeptide binding]; other site 290400005122 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 290400005123 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 290400005124 Uncharacterized conserved protein [Function unknown]; Region: COG2128 290400005125 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 290400005126 urease subunit alpha; Reviewed; Region: ureC; PRK13207 290400005127 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 290400005128 subunit interactions [polypeptide binding]; other site 290400005129 active site 290400005130 flap region; other site 290400005131 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 290400005132 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 290400005133 dimer interface [polypeptide binding]; other site 290400005134 catalytic residues [active] 290400005135 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 290400005136 UreF; Region: UreF; pfam01730 290400005137 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400005138 MoxR-like ATPases [General function prediction only]; Region: COG0714 290400005139 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 290400005140 Walker A motif; other site 290400005141 ATP binding site [chemical binding]; other site 290400005142 Walker B motif; other site 290400005143 arginine finger; other site 290400005144 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 290400005145 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 290400005146 metal ion-dependent adhesion site (MIDAS); other site 290400005147 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 290400005148 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290400005149 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290400005150 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 290400005151 putative MPT binding site; other site 290400005152 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290400005153 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 290400005154 catalytic loop [active] 290400005155 iron binding site [ion binding]; other site 290400005156 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400005157 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400005158 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 290400005159 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400005160 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400005161 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400005162 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 290400005163 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 290400005164 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290400005165 putative CheW interface [polypeptide binding]; other site 290400005166 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 290400005167 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 290400005168 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 290400005169 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290400005170 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 290400005171 FAD binding pocket [chemical binding]; other site 290400005172 FAD binding motif [chemical binding]; other site 290400005173 phosphate binding motif [ion binding]; other site 290400005174 beta-alpha-beta structure motif; other site 290400005175 NAD binding pocket [chemical binding]; other site 290400005176 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 290400005177 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 290400005178 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 290400005179 Active Sites [active] 290400005180 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 290400005181 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290400005182 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290400005183 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 290400005184 siroheme synthase; Provisional; Region: cysG; PRK10637 290400005185 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 290400005186 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 290400005187 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290400005188 active site 290400005189 SAM binding site [chemical binding]; other site 290400005190 homodimer interface [polypeptide binding]; other site 290400005191 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400005192 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 290400005193 putative DNA binding site [nucleotide binding]; other site 290400005194 putative Zn2+ binding site [ion binding]; other site 290400005195 AsnC family; Region: AsnC_trans_reg; pfam01037 290400005196 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290400005197 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 290400005198 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290400005199 putative catalytic site [active] 290400005200 putative metal binding site [ion binding]; other site 290400005201 putative phosphate binding site [ion binding]; other site 290400005202 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400005203 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290400005204 active site 290400005205 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 290400005206 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 290400005207 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 290400005208 trimer interface [polypeptide binding]; other site 290400005209 active site 290400005210 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 290400005211 trimer interface [polypeptide binding]; other site 290400005212 active site 290400005213 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 290400005214 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290400005215 DNA binding residues [nucleotide binding] 290400005216 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 290400005217 IHF dimer interface [polypeptide binding]; other site 290400005218 IHF - DNA interface [nucleotide binding]; other site 290400005219 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 290400005220 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 290400005221 dimer interface [polypeptide binding]; other site 290400005222 active site 290400005223 CoA binding pocket [chemical binding]; other site 290400005224 putative phosphate acyltransferase; Provisional; Region: PRK05331 290400005225 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 290400005226 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 290400005227 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 290400005228 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 290400005229 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 290400005230 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 290400005231 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400005232 active site 290400005233 KMSKS motif; other site 290400005234 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 290400005235 RNA binding surface [nucleotide binding]; other site 290400005236 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 290400005237 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 290400005238 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 290400005239 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 290400005240 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 290400005241 dimer interface [polypeptide binding]; other site 290400005242 phosphorylation site [posttranslational modification] 290400005243 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 290400005244 ATP binding site [chemical binding]; other site 290400005245 Mg2+ binding site [ion binding]; other site 290400005246 G-X-G motif; other site 290400005247 enolase; Provisional; Region: eno; PRK00077 290400005248 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 290400005249 dimer interface [polypeptide binding]; other site 290400005250 metal binding site [ion binding]; metal-binding site 290400005251 substrate binding pocket [chemical binding]; other site 290400005252 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 290400005253 metal binding site 2 [ion binding]; metal-binding site 290400005254 putative DNA binding helix; other site 290400005255 metal binding site 1 [ion binding]; metal-binding site 290400005256 dimer interface [polypeptide binding]; other site 290400005257 structural Zn2+ binding site [ion binding]; other site 290400005258 Protein of unknown function (DUF533); Region: DUF533; pfam04391 290400005259 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 290400005260 putative metal binding site [ion binding]; other site 290400005261 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400005262 EamA-like transporter family; Region: EamA; pfam00892 290400005263 EamA-like transporter family; Region: EamA; pfam00892 290400005264 hypothetical protein; Validated; Region: PRK00029 290400005265 Uncharacterized conserved protein [Function unknown]; Region: COG0397 290400005266 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 290400005267 active site 290400005268 tetramer interface [polypeptide binding]; other site 290400005269 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 290400005270 peptide chain release factor 1; Validated; Region: prfA; PRK00591 290400005271 This domain is found in peptide chain release factors; Region: PCRF; smart00937 290400005272 RF-1 domain; Region: RF-1; pfam00472 290400005273 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 290400005274 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 290400005275 S-adenosylmethionine binding site [chemical binding]; other site 290400005276 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 290400005277 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 290400005278 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 290400005279 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 290400005280 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 290400005281 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 290400005282 SurA N-terminal domain; Region: SurA_N; pfam09312 290400005283 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 290400005284 Organic solvent tolerance protein; Region: OstA_C; pfam04453 290400005285 Predicted permeases [General function prediction only]; Region: COG0795 290400005286 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290400005287 Predicted permeases [General function prediction only]; Region: COG0795 290400005288 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 290400005289 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 290400005290 multifunctional aminopeptidase A; Provisional; Region: PRK00913 290400005291 interface (dimer of trimers) [polypeptide binding]; other site 290400005292 Substrate-binding/catalytic site; other site 290400005293 Zn-binding sites [ion binding]; other site 290400005294 DNA polymerase III subunit chi; Validated; Region: PRK05728 290400005295 Predicted aspartyl protease [General function prediction only]; Region: COG3577 290400005296 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 290400005297 catalytic motif [active] 290400005298 Catalytic residue [active] 290400005299 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 290400005300 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 290400005301 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400005302 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400005303 ABC transporter; Region: ABC_tran_2; pfam12848 290400005304 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400005305 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 290400005306 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 290400005307 active site 290400005308 multimer interface [polypeptide binding]; other site 290400005309 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 290400005310 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 290400005311 TfoX C-terminal domain; Region: TfoX_C; pfam04994 290400005312 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 290400005313 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400005314 catalytic residue [active] 290400005315 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400005316 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400005317 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290400005318 active site 290400005319 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290400005320 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 290400005321 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 290400005322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400005323 HAMP domain; Region: HAMP; pfam00672 290400005324 dimerization interface [polypeptide binding]; other site 290400005325 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 290400005326 dimer interface [polypeptide binding]; other site 290400005327 phosphorylation site [posttranslational modification] 290400005328 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 290400005329 ATP binding site [chemical binding]; other site 290400005330 Mg2+ binding site [ion binding]; other site 290400005331 G-X-G motif; other site 290400005332 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 290400005333 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 290400005334 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 290400005335 dimerization interface [polypeptide binding]; other site 290400005336 putative ATP binding site [chemical binding]; other site 290400005337 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 290400005338 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 290400005339 active site 290400005340 substrate binding site [chemical binding]; other site 290400005341 cosubstrate binding site; other site 290400005342 catalytic site [active] 290400005343 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 290400005344 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 290400005345 catalytic site [active] 290400005346 putative active site [active] 290400005347 putative substrate binding site [chemical binding]; other site 290400005348 HRDC domain; Region: HRDC; pfam00570 290400005349 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 290400005350 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 290400005351 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 290400005352 dimer interface [polypeptide binding]; other site 290400005353 active site 290400005354 citrylCoA binding site [chemical binding]; other site 290400005355 NADH binding [chemical binding]; other site 290400005356 cationic pore residues; other site 290400005357 oxalacetate/citrate binding site [chemical binding]; other site 290400005358 coenzyme A binding site [chemical binding]; other site 290400005359 catalytic triad [active] 290400005360 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 290400005361 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290400005362 HIGH motif; other site 290400005363 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290400005364 active site 290400005365 KMSKS motif; other site 290400005366 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 290400005367 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 290400005368 Competence protein; Region: Competence; pfam03772 290400005369 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 290400005370 malate synthase G; Provisional; Region: PRK02999 290400005371 active site 290400005372 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 290400005373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 290400005374 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 290400005375 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 290400005376 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 290400005377 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 290400005378 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 290400005379 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 290400005380 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 290400005381 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400005382 catalytic residue [active] 290400005383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290400005384 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400005385 Coenzyme A binding pocket [chemical binding]; other site 290400005386 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290400005387 catalytic triad [active] 290400005388 putative GTP cyclohydrolase; Provisional; Region: PRK13674 290400005389 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 290400005390 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 290400005391 HI0933-like protein; Region: HI0933_like; pfam03486 290400005392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400005393 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 290400005394 HSP70 interaction site [polypeptide binding]; other site 290400005395 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 290400005396 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 290400005397 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 290400005398 GatB domain; Region: GatB_Yqey; smart00845 290400005399 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 290400005400 intracellular protease, PfpI family; Region: PfpI; TIGR01382 290400005401 proposed catalytic triad [active] 290400005402 conserved cys residue [active] 290400005403 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400005404 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400005405 catalytic residue [active] 290400005406 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400005407 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400005408 catalytic residue [active] 290400005409 Protein of unknown function (DUF1624); Region: DUF1624; pfam07786 290400005410 aminopeptidase N; Provisional; Region: pepN; PRK14015 290400005411 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 290400005412 Zn binding site [ion binding]; other site 290400005413 DNA photolyase; Region: DNA_photolyase; pfam00875 290400005414 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 290400005415 LexA repressor; Validated; Region: PRK00215 290400005416 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 290400005417 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 290400005418 Catalytic site [active] 290400005419 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 290400005420 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 290400005421 dimer interface [polypeptide binding]; other site 290400005422 putative functional site; other site 290400005423 putative MPT binding site; other site 290400005424 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 290400005425 trimer interface [polypeptide binding]; other site 290400005426 dimer interface [polypeptide binding]; other site 290400005427 putative active site [active] 290400005428 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 290400005429 active site 290400005430 ribulose/triose binding site [chemical binding]; other site 290400005431 phosphate binding site [ion binding]; other site 290400005432 substrate (anthranilate) binding pocket [chemical binding]; other site 290400005433 product (indole) binding pocket [chemical binding]; other site 290400005434 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 290400005435 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290400005436 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290400005437 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 290400005438 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 290400005439 glutamine binding [chemical binding]; other site 290400005440 catalytic triad [active] 290400005441 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 290400005442 NodB motif; other site 290400005443 putative active site [active] 290400005444 putative catalytic site [active] 290400005445 Zn binding site [ion binding]; other site 290400005446 anthranilate synthase component I; Provisional; Region: PRK13573 290400005447 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 290400005448 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 290400005449 SurA N-terminal domain; Region: SurA_N_3; cl07813 290400005450 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 290400005451 hypothetical protein; Provisional; Region: PRK07550 290400005452 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 290400005453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400005454 homodimer interface [polypeptide binding]; other site 290400005455 catalytic residue [active] 290400005456 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 290400005457 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 290400005458 dimer interface [polypeptide binding]; other site 290400005459 ssDNA binding site [nucleotide binding]; other site 290400005460 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290400005461 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 290400005462 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400005463 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400005464 catalytic residue [active] 290400005465 N-acetylglutamate synthase; Validated; Region: PRK05279 290400005466 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290400005467 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 290400005468 [2Fe-2S] cluster binding site [ion binding]; other site 290400005469 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 290400005470 alpha subunit interface [polypeptide binding]; other site 290400005471 active site 290400005472 substrate binding site [chemical binding]; other site 290400005473 Fe binding site [ion binding]; other site 290400005474 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 290400005475 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400005476 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 290400005477 DNA binding residues [nucleotide binding] 290400005478 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 290400005479 Ca2+ binding site [ion binding]; other site 290400005480 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 290400005481 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 290400005482 putative valine binding site [chemical binding]; other site 290400005483 dimer interface [polypeptide binding]; other site 290400005484 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 290400005485 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 290400005486 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400005487 PYR/PP interface [polypeptide binding]; other site 290400005488 dimer interface [polypeptide binding]; other site 290400005489 TPP binding site [chemical binding]; other site 290400005490 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400005491 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 290400005492 TPP-binding site [chemical binding]; other site 290400005493 dimer interface [polypeptide binding]; other site 290400005494 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 290400005495 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 290400005496 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400005497 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 290400005498 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400005499 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400005500 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 290400005501 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400005502 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 290400005503 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 290400005504 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 290400005505 RDD family; Region: RDD; pfam06271 290400005506 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 290400005507 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 290400005508 putative hydrophobic ligand binding site [chemical binding]; other site 290400005509 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290400005510 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 290400005511 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 290400005512 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 290400005513 substrate binding site [chemical binding]; other site 290400005514 oxyanion hole (OAH) forming residues; other site 290400005515 trimer interface [polypeptide binding]; other site 290400005516 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 290400005517 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400005518 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400005519 active site 290400005520 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 290400005521 carboxylate-amine ligase; Provisional; Region: PRK13515 290400005522 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 290400005523 EF-hand domain pair; Region: EF_hand_5; pfam13499 290400005524 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 290400005525 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 290400005526 tetrameric interface [polypeptide binding]; other site 290400005527 NAD binding site [chemical binding]; other site 290400005528 catalytic residues [active] 290400005529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400005530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400005531 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400005532 dimerization interface [polypeptide binding]; other site 290400005533 FOG: CBS domain [General function prediction only]; Region: COG0517 290400005534 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 290400005535 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 290400005536 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 290400005537 active site 290400005538 (T/H)XGH motif; other site 290400005539 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 290400005540 active site 290400005541 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 290400005542 active site 290400005543 ABC transporter ATPase component; Reviewed; Region: PRK11147 290400005544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400005545 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400005546 Protein of unknown function, DUF606; Region: DUF606; pfam04657 290400005547 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 290400005548 CoenzymeA binding site [chemical binding]; other site 290400005549 subunit interaction site [polypeptide binding]; other site 290400005550 PHB binding site; other site 290400005551 SnoaL-like domain; Region: SnoaL_2; pfam12680 290400005552 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 290400005553 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 290400005554 ATP binding site [chemical binding]; other site 290400005555 Mg2+ binding site [ion binding]; other site 290400005556 G-X-G motif; other site 290400005557 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 290400005558 anchoring element; other site 290400005559 dimer interface [polypeptide binding]; other site 290400005560 ATP binding site [chemical binding]; other site 290400005561 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 290400005562 active site 290400005563 metal binding site [ion binding]; metal-binding site 290400005564 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 290400005565 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400005566 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 290400005567 putative substrate translocation pore; other site 290400005568 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 290400005569 High-affinity nickel-transport protein; Region: NicO; cl00964 290400005570 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 290400005571 multidrug efflux protein; Reviewed; Region: PRK01766 290400005572 cation binding site [ion binding]; other site 290400005573 hypothetical protein; Validated; Region: PRK09104 290400005574 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 290400005575 metal binding site [ion binding]; metal-binding site 290400005576 putative dimer interface [polypeptide binding]; other site 290400005577 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 290400005578 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 290400005579 substrate-cofactor binding pocket; other site 290400005580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400005581 catalytic residue [active] 290400005582 Helix-turn-helix domain; Region: HTH_25; pfam13413 290400005583 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 290400005584 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290400005585 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 290400005586 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 290400005587 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 290400005588 active site residue [active] 290400005589 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400005590 FAD binding domain; Region: FAD_binding_4; pfam01565 290400005591 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 290400005592 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400005593 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400005594 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400005595 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290400005596 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400005597 DNA-binding site [nucleotide binding]; DNA binding site 290400005598 UTRA domain; Region: UTRA; pfam07702 290400005599 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 290400005600 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 290400005601 active site 290400005602 dimer interface [polypeptide binding]; other site 290400005603 non-prolyl cis peptide bond; other site 290400005604 insertion regions; other site 290400005605 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 290400005606 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400005607 active site 290400005608 catalytic tetrad [active] 290400005609 Glucokinase; Region: Glucokinase; cl17310 290400005610 glucokinase, proteobacterial type; Region: glk; TIGR00749 290400005611 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 290400005612 beta-galactosidase; Region: BGL; TIGR03356 290400005613 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400005614 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400005615 DNA binding site [nucleotide binding] 290400005616 domain linker motif; other site 290400005617 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 290400005618 ligand binding site [chemical binding]; other site 290400005619 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400005620 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400005621 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 290400005622 dimer interface [polypeptide binding]; other site 290400005623 conserved gate region; other site 290400005624 putative PBP binding loops; other site 290400005625 ABC-ATPase subunit interface; other site 290400005626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400005627 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 290400005628 putative PBP binding loops; other site 290400005629 dimer interface [polypeptide binding]; other site 290400005630 ABC-ATPase subunit interface; other site 290400005631 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 290400005632 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290400005633 active site 290400005634 catalytic site [active] 290400005635 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 290400005636 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400005637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400005638 Walker A/P-loop; other site 290400005639 ATP binding site [chemical binding]; other site 290400005640 Q-loop/lid; other site 290400005641 ABC transporter signature motif; other site 290400005642 Walker B; other site 290400005643 D-loop; other site 290400005644 H-loop/switch region; other site 290400005645 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400005646 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 290400005647 substrate binding site [chemical binding]; other site 290400005648 ATP binding site [chemical binding]; other site 290400005649 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400005650 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 290400005651 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 290400005652 phosphogluconate dehydratase; Validated; Region: PRK09054 290400005653 6-phosphogluconate dehydratase; Region: edd; TIGR01196 290400005654 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 290400005655 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290400005656 active site 290400005657 intersubunit interface [polypeptide binding]; other site 290400005658 catalytic residue [active] 290400005659 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 290400005660 aspartate aminotransferase; Provisional; Region: PRK05764 290400005661 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 290400005662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400005663 homodimer interface [polypeptide binding]; other site 290400005664 catalytic residue [active] 290400005665 Protein of unknown function (DUF419); Region: DUF419; pfam04237 290400005666 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 290400005667 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400005668 active site 290400005669 HIGH motif; other site 290400005670 nucleotide binding site [chemical binding]; other site 290400005671 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 290400005672 KMSKS motif; other site 290400005673 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 290400005674 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 290400005675 active site 290400005676 catalytic residues [active] 290400005677 metal binding site [ion binding]; metal-binding site 290400005678 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290400005679 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400005680 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 290400005681 S-adenosylmethionine binding site [chemical binding]; other site 290400005682 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 290400005683 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400005684 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 290400005685 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 290400005686 minor groove reading motif; other site 290400005687 helix-hairpin-helix signature motif; other site 290400005688 substrate binding pocket [chemical binding]; other site 290400005689 active site 290400005690 putative hydrolase; Provisional; Region: PRK11460 290400005691 Predicted esterase [General function prediction only]; Region: COG0400 290400005692 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290400005693 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 290400005694 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 290400005695 active site 290400005696 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 290400005697 agmatinase; Region: agmatinase; TIGR01230 290400005698 oligomer interface [polypeptide binding]; other site 290400005699 putative active site [active] 290400005700 Mn binding site [ion binding]; other site 290400005701 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 290400005702 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 290400005703 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 290400005704 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 290400005705 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 290400005706 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 290400005707 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 290400005708 putative active site [active] 290400005709 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 290400005710 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 290400005711 active site 290400005712 dimer interface [polypeptide binding]; other site 290400005713 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 290400005714 dimer interface [polypeptide binding]; other site 290400005715 active site 290400005716 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 290400005717 active site 290400005718 phosphoglycolate phosphatase; Provisional; Region: PRK13222 290400005719 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 290400005720 active site 290400005721 motif I; other site 290400005722 motif II; other site 290400005723 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 290400005724 motif II; other site 290400005725 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 290400005726 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 290400005727 catalytic loop [active] 290400005728 iron binding site [ion binding]; other site 290400005729 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 290400005730 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 290400005731 substrate binding pocket [chemical binding]; other site 290400005732 dimer interface [polypeptide binding]; other site 290400005733 inhibitor binding site; inhibition site 290400005734 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 290400005735 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 290400005736 FAD binding site [chemical binding]; other site 290400005737 Virulence factor; Region: Virulence_fact; pfam13769 290400005738 exopolyphosphatase; Region: exo_poly_only; TIGR03706 290400005739 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 290400005740 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 290400005741 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 290400005742 S-adenosylmethionine binding site [chemical binding]; other site 290400005743 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 290400005744 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290400005745 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 290400005746 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 290400005747 active site 290400005748 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 290400005749 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 290400005750 S-adenosylmethionine binding site [chemical binding]; other site 290400005751 PAS fold; Region: PAS; pfam00989 290400005752 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 290400005753 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 290400005754 dimer interface [polypeptide binding]; other site 290400005755 phosphorylation site [posttranslational modification] 290400005756 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 290400005757 ATP binding site [chemical binding]; other site 290400005758 Mg2+ binding site [ion binding]; other site 290400005759 G-X-G motif; other site 290400005760 Response regulator receiver domain; Region: Response_reg; pfam00072 290400005761 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 290400005762 active site 290400005763 phosphorylation site [posttranslational modification] 290400005764 intermolecular recognition site; other site 290400005765 dimerization interface [polypeptide binding]; other site 290400005766 recombinase A; Provisional; Region: recA; PRK09354 290400005767 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 290400005768 hexamer interface [polypeptide binding]; other site 290400005769 Walker A motif; other site 290400005770 ATP binding site [chemical binding]; other site 290400005771 Walker B motif; other site 290400005772 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 290400005773 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 290400005774 motif 1; other site 290400005775 active site 290400005776 motif 2; other site 290400005777 motif 3; other site 290400005778 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290400005779 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 290400005780 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 290400005781 DNA photolyase; Region: DNA_photolyase; pfam00875 290400005782 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 290400005783 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 290400005784 S-adenosylmethionine binding site [chemical binding]; other site 290400005785 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 290400005786 putative active site pocket [active] 290400005787 dimerization interface [polypeptide binding]; other site 290400005788 putative catalytic residue [active] 290400005789 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 290400005790 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 290400005791 dimer interface [polypeptide binding]; other site 290400005792 ADP-ribose binding site [chemical binding]; other site 290400005793 active site 290400005794 nudix motif; other site 290400005795 metal binding site [ion binding]; metal-binding site 290400005796 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 290400005797 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 290400005798 dimer interface [polypeptide binding]; other site 290400005799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400005800 catalytic residue [active] 290400005801 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 290400005802 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 290400005803 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290400005804 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 290400005805 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 290400005806 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 290400005807 active site 290400005808 DNA binding site [nucleotide binding] 290400005809 Int/Topo IB signature motif; other site 290400005810 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 290400005811 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 290400005812 Beta-lactamase; Region: Beta-lactamase; pfam00144 290400005813 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290400005814 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400005815 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 290400005816 Asp-box motif; other site 290400005817 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290400005818 AAA domain; Region: AAA_33; pfam13671 290400005819 G1 box; other site 290400005820 GTP/Mg2+ binding site [chemical binding]; other site 290400005821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290400005822 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290400005823 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290400005824 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 290400005825 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 290400005826 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 290400005827 dimerization interface [polypeptide binding]; other site 290400005828 putative DNA binding site [nucleotide binding]; other site 290400005829 putative Zn2+ binding site [ion binding]; other site 290400005830 AsnC family; Region: AsnC_trans_reg; pfam01037 290400005831 H+ Antiporter protein; Region: 2A0121; TIGR00900 290400005832 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 290400005833 putative substrate translocation pore; other site 290400005834 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 290400005835 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400005836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400005837 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 290400005838 dimerization interface [polypeptide binding]; other site 290400005839 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 290400005840 dimer interface [polypeptide binding]; other site 290400005841 phosphorylation site [posttranslational modification] 290400005842 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 290400005843 ATP binding site [chemical binding]; other site 290400005844 Mg2+ binding site [ion binding]; other site 290400005845 G-X-G motif; other site 290400005846 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400005847 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 290400005848 active site 290400005849 phosphorylation site [posttranslational modification] 290400005850 intermolecular recognition site; other site 290400005851 dimerization interface [polypeptide binding]; other site 290400005852 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 290400005853 DNA binding site [nucleotide binding] 290400005854 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 290400005855 dimer interface [polypeptide binding]; other site 290400005856 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 290400005857 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 290400005858 CcmE; Region: CcmE; cl00994 290400005859 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 290400005860 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400005861 putative metal binding site [ion binding]; other site 290400005862 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 290400005863 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400005864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400005865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400005866 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 290400005867 dimerization interface [polypeptide binding]; other site 290400005868 hypothetical protein; Provisional; Region: PRK08317 290400005869 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 290400005870 S-adenosylmethionine binding site [chemical binding]; other site 290400005871 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 290400005872 YadA-like C-terminal region; Region: YadA; pfam03895 290400005873 Haemagglutinin; Region: HIM; pfam05662 290400005874 YadA-like C-terminal region; Region: YadA; pfam03895 290400005875 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 290400005876 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 290400005877 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400005878 Sensors of blue-light using FAD; Region: BLUF; pfam04940 290400005879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400005880 metal binding site [ion binding]; metal-binding site 290400005881 active site 290400005882 I-site; other site 290400005883 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 290400005884 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400005885 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400005886 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400005887 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400005888 DctM-like transporters; Region: DctM; pfam06808 290400005889 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400005890 Putative cyclase; Region: Cyclase; pfam04199 290400005891 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400005892 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400005893 OsmC-like protein; Region: OsmC; pfam02566 290400005894 GAF domain; Region: GAF_2; pfam13185 290400005895 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 290400005896 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400005897 Walker A/P-loop; other site 290400005898 ATP binding site [chemical binding]; other site 290400005899 Q-loop/lid; other site 290400005900 ABC transporter signature motif; other site 290400005901 Walker B; other site 290400005902 D-loop; other site 290400005903 H-loop/switch region; other site 290400005904 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 290400005905 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400005906 Walker A/P-loop; other site 290400005907 ATP binding site [chemical binding]; other site 290400005908 Q-loop/lid; other site 290400005909 ABC transporter signature motif; other site 290400005910 Walker B; other site 290400005911 D-loop; other site 290400005912 H-loop/switch region; other site 290400005913 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400005914 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 290400005915 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 290400005916 dimer interface [polypeptide binding]; other site 290400005917 ABC-ATPase subunit interface; other site 290400005918 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400005919 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 290400005920 dimer interface [polypeptide binding]; other site 290400005921 conserved gate region; other site 290400005922 putative PBP binding loops; other site 290400005923 ABC-ATPase subunit interface; other site 290400005924 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 290400005925 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 290400005926 non-specific DNA binding site [nucleotide binding]; other site 290400005927 salt bridge; other site 290400005928 sequence-specific DNA binding site [nucleotide binding]; other site 290400005929 Cupin domain; Region: Cupin_2; pfam07883 290400005930 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_7; cd08512 290400005931 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290400005932 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400005933 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400005934 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 290400005935 active site 290400005936 RibD C-terminal domain; Region: RibD_C; cl17279 290400005937 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290400005938 Helix-turn-helix domain; Region: HTH_18; pfam12833 290400005939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400005940 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 290400005941 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 290400005942 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 290400005943 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400005944 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 290400005945 substrate binding site [chemical binding]; other site 290400005946 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400005947 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 290400005948 dimer interface [polypeptide binding]; other site 290400005949 conserved gate region; other site 290400005950 putative PBP binding loops; other site 290400005951 ABC-ATPase subunit interface; other site 290400005952 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400005953 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 290400005954 dimer interface [polypeptide binding]; other site 290400005955 conserved gate region; other site 290400005956 putative PBP binding loops; other site 290400005957 ABC-ATPase subunit interface; other site 290400005958 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400005959 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400005960 Walker A/P-loop; other site 290400005961 ATP binding site [chemical binding]; other site 290400005962 Q-loop/lid; other site 290400005963 ABC transporter signature motif; other site 290400005964 Walker B; other site 290400005965 D-loop; other site 290400005966 H-loop/switch region; other site 290400005967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290400005968 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400005969 Walker A/P-loop; other site 290400005970 ATP binding site [chemical binding]; other site 290400005971 Q-loop/lid; other site 290400005972 ABC transporter signature motif; other site 290400005973 Walker B; other site 290400005974 D-loop; other site 290400005975 H-loop/switch region; other site 290400005976 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400005977 N-terminal catalytic domain of endoplasmic reticulum(ER)/cytosolic class II alpha-mannosidases; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_ER_cytosolic; cd10789 290400005978 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 290400005979 active site 290400005980 catalytic site [active] 290400005981 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; pfam09261 290400005982 Glycosyl hydrolases family 38 C-terminal domain; Region: Glyco_hydro_38C; pfam07748 290400005983 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400005984 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 290400005985 ligand binding site [chemical binding]; other site 290400005986 flexible hinge region; other site 290400005987 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290400005988 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400005989 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400005990 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290400005991 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290400005992 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 290400005993 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 290400005994 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 290400005995 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 290400005996 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 290400005997 active site 290400005998 homotetramer interface [polypeptide binding]; other site 290400005999 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290400006000 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400006001 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400006002 PRC-barrel domain; Region: PRC; pfam05239 290400006003 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 290400006004 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 290400006005 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 290400006006 FeS/SAM binding site; other site 290400006007 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 290400006008 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 290400006009 Fe-S cluster binding site [ion binding]; other site 290400006010 active site 290400006011 Response regulator receiver domain; Region: Response_reg; pfam00072 290400006012 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 290400006013 active site 290400006014 phosphorylation site [posttranslational modification] 290400006015 intermolecular recognition site; other site 290400006016 dimerization interface [polypeptide binding]; other site 290400006017 PAS domain S-box; Region: sensory_box; TIGR00229 290400006018 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 290400006019 putative active site [active] 290400006020 heme pocket [chemical binding]; other site 290400006021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 290400006022 HWE histidine kinase; Region: HWE_HK; smart00911 290400006023 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290400006024 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290400006025 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290400006026 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 290400006027 active site 290400006028 dimer interfaces [polypeptide binding]; other site 290400006029 catalytic residues [active] 290400006030 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290400006031 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400006032 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 290400006033 ABC-ATPase subunit interface; other site 290400006034 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400006035 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 290400006036 dimer interface [polypeptide binding]; other site 290400006037 conserved gate region; other site 290400006038 putative PBP binding loops; other site 290400006039 ABC-ATPase subunit interface; other site 290400006040 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400006041 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400006042 Walker A/P-loop; other site 290400006043 ATP binding site [chemical binding]; other site 290400006044 Q-loop/lid; other site 290400006045 ABC transporter signature motif; other site 290400006046 Walker B; other site 290400006047 D-loop; other site 290400006048 H-loop/switch region; other site 290400006049 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 290400006050 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 290400006051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400006052 catalytic residue [active] 290400006053 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 290400006054 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 290400006055 intersubunit interface [polypeptide binding]; other site 290400006056 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 290400006057 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 290400006058 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290400006059 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 290400006060 ABC-ATPase subunit interface; other site 290400006061 dimer interface [polypeptide binding]; other site 290400006062 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 290400006063 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 290400006064 ABC-ATPase subunit interface; other site 290400006065 dimer interface [polypeptide binding]; other site 290400006066 putative PBP binding regions; other site 290400006067 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 290400006068 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 290400006069 kynureninase; Region: kynureninase; TIGR01814 290400006070 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400006071 catalytic residue [active] 290400006072 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290400006073 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 290400006074 metal-binding site [ion binding] 290400006075 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290400006076 Soluble P-type ATPase [General function prediction only]; Region: COG4087 290400006077 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 290400006078 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 290400006079 DNA binding residues [nucleotide binding] 290400006080 dimer interface [polypeptide binding]; other site 290400006081 copper binding site [ion binding]; other site 290400006082 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 290400006083 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 290400006084 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 290400006085 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 290400006086 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290400006087 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290400006088 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 290400006089 putative hydrophobic ligand binding site [chemical binding]; other site 290400006090 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 290400006091 Ligand binding site; other site 290400006092 metal-binding site 290400006093 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 290400006094 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 290400006095 XdhC Rossmann domain; Region: XdhC_C; pfam13478 290400006096 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 290400006097 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 290400006098 metal ion-dependent adhesion site (MIDAS); other site 290400006099 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290400006100 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 290400006101 Walker A motif; other site 290400006102 ATP binding site [chemical binding]; other site 290400006103 Walker B motif; other site 290400006104 arginine finger; other site 290400006105 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 290400006106 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400006107 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400006108 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290400006109 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 290400006110 catalytic loop [active] 290400006111 iron binding site [ion binding]; other site 290400006112 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400006113 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 290400006114 FAD binding domain; Region: FAD_binding_4; pfam01565 290400006115 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 290400006116 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 290400006117 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 290400006118 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 290400006119 LytTr DNA-binding domain; Region: LytTR; smart00850 290400006120 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 290400006121 dimerization interface [polypeptide binding]; other site 290400006122 putative DNA binding site [nucleotide binding]; other site 290400006123 putative Zn2+ binding site [ion binding]; other site 290400006124 Predicted deacylase [General function prediction only]; Region: COG3608 290400006125 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 290400006126 putative active site [active] 290400006127 Zn binding site [ion binding]; other site 290400006128 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 290400006129 amphipathic channel; other site 290400006130 Asn-Pro-Ala signature motifs; other site 290400006131 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 290400006132 ArsC family; Region: ArsC; pfam03960 290400006133 catalytic residues [active] 290400006134 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 290400006135 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 290400006136 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 290400006137 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 290400006138 metal binding site [ion binding]; metal-binding site 290400006139 substrate binding pocket [chemical binding]; other site 290400006140 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400006141 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400006142 short chain dehydrogenase; Provisional; Region: PRK06500 290400006143 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 290400006144 NAD binding site [chemical binding]; other site 290400006145 homotetramer interface [polypeptide binding]; other site 290400006146 homodimer interface [polypeptide binding]; other site 290400006147 active site 290400006148 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400006149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400006150 DNA-binding site [nucleotide binding]; DNA binding site 290400006151 FCD domain; Region: FCD; pfam07729 290400006152 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 290400006153 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 290400006154 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400006155 substrate binding site [chemical binding]; other site 290400006156 ATP binding site [chemical binding]; other site 290400006157 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 290400006158 Amidohydrolase; Region: Amidohydro_2; pfam04909 290400006159 active site 290400006160 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 290400006161 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400006162 active site 290400006163 catalytic tetrad [active] 290400006164 BtpA family; Region: BtpA; cl00440 290400006165 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 290400006166 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 290400006167 oligomer interface [polypeptide binding]; other site 290400006168 active site 290400006169 metal binding site [ion binding]; metal-binding site 290400006170 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 290400006171 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 290400006172 N- and C-terminal domain interface [polypeptide binding]; other site 290400006173 putative active site [active] 290400006174 MgATP binding site [chemical binding]; other site 290400006175 catalytic site [active] 290400006176 metal binding site [ion binding]; metal-binding site 290400006177 putative xylulose binding site [chemical binding]; other site 290400006178 putative homodimer interface [polypeptide binding]; other site 290400006179 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400006180 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 290400006181 ABC-ATPase subunit interface; other site 290400006182 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400006183 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 290400006184 dimer interface [polypeptide binding]; other site 290400006185 conserved gate region; other site 290400006186 putative PBP binding loops; other site 290400006187 ABC-ATPase subunit interface; other site 290400006188 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400006189 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400006190 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400006191 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400006192 Walker A/P-loop; other site 290400006193 ATP binding site [chemical binding]; other site 290400006194 Q-loop/lid; other site 290400006195 ABC transporter signature motif; other site 290400006196 Walker B; other site 290400006197 D-loop; other site 290400006198 H-loop/switch region; other site 290400006199 TOBE domain; Region: TOBE_2; pfam08402 290400006200 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 290400006201 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400006202 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 290400006203 substrate binding site [chemical binding]; other site 290400006204 dimer interface [polypeptide binding]; other site 290400006205 ATP binding site [chemical binding]; other site 290400006206 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 290400006207 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 290400006208 siderophore binding site; other site 290400006209 FecCD transport family; Region: FecCD; pfam01032 290400006210 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 290400006211 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290400006212 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 290400006213 putative PBP binding regions; other site 290400006214 ABC-ATPase subunit interface; other site 290400006215 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290400006216 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290400006217 Walker A/P-loop; other site 290400006218 ATP binding site [chemical binding]; other site 290400006219 Q-loop/lid; other site 290400006220 ABC transporter signature motif; other site 290400006221 Walker B; other site 290400006222 D-loop; other site 290400006223 H-loop/switch region; other site 290400006224 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 290400006225 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 290400006226 FAD binding pocket [chemical binding]; other site 290400006227 FAD binding motif [chemical binding]; other site 290400006228 phosphate binding motif [ion binding]; other site 290400006229 NAD binding pocket [chemical binding]; other site 290400006230 TonB C terminal; Region: TonB_2; pfam13103 290400006231 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 290400006232 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 290400006233 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 290400006234 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 290400006235 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 290400006236 N-terminal plug; other site 290400006237 ligand-binding site [chemical binding]; other site 290400006238 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 290400006239 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 290400006240 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 290400006241 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 290400006242 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 290400006243 putative hemin binding site; other site 290400006244 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290400006245 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 290400006246 ABC-ATPase subunit interface; other site 290400006247 dimer interface [polypeptide binding]; other site 290400006248 putative PBP binding regions; other site 290400006249 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 290400006250 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290400006251 Walker A/P-loop; other site 290400006252 ATP binding site [chemical binding]; other site 290400006253 Q-loop/lid; other site 290400006254 ABC transporter signature motif; other site 290400006255 Walker B; other site 290400006256 D-loop; other site 290400006257 H-loop/switch region; other site 290400006258 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 290400006259 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 290400006260 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 290400006261 FMN binding site [chemical binding]; other site 290400006262 active site 290400006263 catalytic residues [active] 290400006264 substrate binding site [chemical binding]; other site 290400006265 CAAX protease self-immunity; Region: Abi; pfam02517 290400006266 CAAX protease self-immunity; Region: Abi; pfam02517 290400006267 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 290400006268 methionine sulfoxide reductase A; Provisional; Region: PRK14054 290400006269 methionine sulfoxide reductase B; Provisional; Region: PRK00222 290400006270 SelR domain; Region: SelR; pfam01641 290400006271 Peptidase M15; Region: Peptidase_M15_3; cl01194 290400006272 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 290400006273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 290400006274 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400006275 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290400006276 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 290400006277 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 290400006278 trimer interface [polypeptide binding]; other site 290400006279 active site 290400006280 UDP-GlcNAc binding site [chemical binding]; other site 290400006281 lipid binding site [chemical binding]; lipid-binding site 290400006282 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 290400006283 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 290400006284 dimer interface [polypeptide binding]; other site 290400006285 active site 290400006286 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 290400006287 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 290400006288 Domain of unknown function DUF87; Region: DUF87; pfam01935 290400006289 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 290400006290 nucleotide binding site/active site [active] 290400006291 HIT family signature motif; other site 290400006292 catalytic residue [active] 290400006293 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 290400006294 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 290400006295 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 290400006296 enoyl-CoA hydratase; Provisional; Region: PRK08140 290400006297 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 290400006298 substrate binding site [chemical binding]; other site 290400006299 oxyanion hole (OAH) forming residues; other site 290400006300 trimer interface [polypeptide binding]; other site 290400006301 hypothetical protein; Provisional; Region: PRK14851 290400006302 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400006303 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 290400006304 putative DNA binding site [nucleotide binding]; other site 290400006305 putative Zn2+ binding site [ion binding]; other site 290400006306 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 290400006307 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 290400006308 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290400006309 TM-ABC transporter signature motif; other site 290400006310 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 290400006311 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400006312 TM-ABC transporter signature motif; other site 290400006313 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290400006314 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290400006315 Walker A/P-loop; other site 290400006316 ATP binding site [chemical binding]; other site 290400006317 Q-loop/lid; other site 290400006318 ABC transporter signature motif; other site 290400006319 Walker B; other site 290400006320 D-loop; other site 290400006321 H-loop/switch region; other site 290400006322 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400006323 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290400006324 Walker A/P-loop; other site 290400006325 ATP binding site [chemical binding]; other site 290400006326 Q-loop/lid; other site 290400006327 ABC transporter signature motif; other site 290400006328 Walker B; other site 290400006329 D-loop; other site 290400006330 H-loop/switch region; other site 290400006331 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 290400006332 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 290400006333 putative ligand binding site [chemical binding]; other site 290400006334 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 290400006335 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 290400006336 GTP-binding protein Der; Reviewed; Region: PRK00093 290400006337 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 290400006338 G1 box; other site 290400006339 GTP/Mg2+ binding site [chemical binding]; other site 290400006340 Switch I region; other site 290400006341 G2 box; other site 290400006342 Switch II region; other site 290400006343 G3 box; other site 290400006344 G4 box; other site 290400006345 G5 box; other site 290400006346 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 290400006347 G1 box; other site 290400006348 GTP/Mg2+ binding site [chemical binding]; other site 290400006349 Switch I region; other site 290400006350 G2 box; other site 290400006351 G3 box; other site 290400006352 Switch II region; other site 290400006353 G4 box; other site 290400006354 G5 box; other site 290400006355 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 290400006356 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 290400006357 putative GSH binding site [chemical binding]; other site 290400006358 catalytic residues [active] 290400006359 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 290400006360 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 290400006361 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 290400006362 dimerization interface [polypeptide binding]; other site 290400006363 ATP binding site [chemical binding]; other site 290400006364 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 290400006365 dimerization interface [polypeptide binding]; other site 290400006366 ATP binding site [chemical binding]; other site 290400006367 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 290400006368 Coenzyme A binding pocket [chemical binding]; other site 290400006369 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400006370 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400006371 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 290400006372 putative effector binding pocket; other site 290400006373 dimerization interface [polypeptide binding]; other site 290400006374 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 290400006375 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 290400006376 dimer interface [polypeptide binding]; other site 290400006377 PYR/PP interface [polypeptide binding]; other site 290400006378 TPP binding site [chemical binding]; other site 290400006379 substrate binding site [chemical binding]; other site 290400006380 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 290400006381 TPP-binding site [chemical binding]; other site 290400006382 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 290400006383 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400006384 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 290400006385 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 290400006386 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 290400006387 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 290400006388 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 290400006389 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400006390 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 290400006391 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 290400006392 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 290400006393 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 290400006394 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400006395 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290400006396 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 290400006397 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 290400006398 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 290400006399 T4-like virus tail tube protein gp19; Region: Phage_T4_gp19; pfam06841 290400006400 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 290400006401 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 290400006402 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400006403 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 290400006404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400006405 Walker A/P-loop; other site 290400006406 ATP binding site [chemical binding]; other site 290400006407 Q-loop/lid; other site 290400006408 ABC transporter signature motif; other site 290400006409 Walker B; other site 290400006410 D-loop; other site 290400006411 H-loop/switch region; other site 290400006412 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400006413 Protein export membrane protein; Region: SecD_SecF; cl14618 290400006414 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 290400006415 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400006416 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400006417 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 290400006418 HlyD family secretion protein; Region: HlyD_3; pfam13437 290400006419 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 290400006420 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 290400006421 Trp docking motif [polypeptide binding]; other site 290400006422 active site 290400006423 PQQ-like domain; Region: PQQ_2; pfam13360 290400006424 PQQ-like domain; Region: PQQ_2; pfam13360 290400006425 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 290400006426 putative active site [active] 290400006427 CsbD-like; Region: CsbD; cl17424 290400006428 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 290400006429 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 290400006430 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290400006431 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 290400006432 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290400006433 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 290400006434 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 290400006435 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400006436 ligand binding site [chemical binding]; other site 290400006437 flexible hinge region; other site 290400006438 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 290400006439 putative switch regulator; other site 290400006440 non-specific DNA interactions [nucleotide binding]; other site 290400006441 DNA binding site [nucleotide binding] 290400006442 sequence specific DNA binding site [nucleotide binding]; other site 290400006443 putative cAMP binding site [chemical binding]; other site 290400006444 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 290400006445 dimerization interface [polypeptide binding]; other site 290400006446 metal binding site [ion binding]; metal-binding site 290400006447 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 290400006448 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 290400006449 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290400006450 putative catalytic site [active] 290400006451 putative metal binding site [ion binding]; other site 290400006452 putative phosphate binding site [ion binding]; other site 290400006453 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 290400006454 Domain of unknown function DUF20; Region: UPF0118; pfam01594 290400006455 Predicted membrane protein [Function unknown]; Region: COG2261 290400006456 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 290400006457 ribonuclease E; Reviewed; Region: rne; PRK10811 290400006458 Predicted membrane protein [Function unknown]; Region: COG2323 290400006459 GMP synthase; Reviewed; Region: guaA; PRK00074 290400006460 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 290400006461 AMP/PPi binding site [chemical binding]; other site 290400006462 candidate oxyanion hole; other site 290400006463 catalytic triad [active] 290400006464 potential glutamine specificity residues [chemical binding]; other site 290400006465 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 290400006466 ATP Binding subdomain [chemical binding]; other site 290400006467 Ligand Binding sites [chemical binding]; other site 290400006468 Dimerization subdomain; other site 290400006469 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 290400006470 Helix-turn-helix domain; Region: HTH_38; pfam13936 290400006471 lipoyl synthase; Provisional; Region: PRK05481 290400006472 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 290400006473 FeS/SAM binding site; other site 290400006474 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290400006475 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290400006476 dimer interface [polypeptide binding]; other site 290400006477 putative CheW interface [polypeptide binding]; other site 290400006478 Cytochrome c; Region: Cytochrom_C; pfam00034 290400006479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 290400006480 Cytochrome c; Region: Cytochrom_C; pfam00034 290400006481 Cytochrome C' Region: Cytochrom_C_2; pfam01322 290400006482 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 290400006483 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400006484 active site 290400006485 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 290400006486 putative coenzyme Q binding site [chemical binding]; other site 290400006487 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 290400006488 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 290400006489 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 290400006490 tetramer interfaces [polypeptide binding]; other site 290400006491 binuclear metal-binding site [ion binding]; other site 290400006492 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 290400006493 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 290400006494 substrate binding site; other site 290400006495 dimer interface; other site 290400006496 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 290400006497 homotrimer interaction site [polypeptide binding]; other site 290400006498 zinc binding site [ion binding]; other site 290400006499 CDP-binding sites; other site 290400006500 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 290400006501 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 290400006502 FMN binding site [chemical binding]; other site 290400006503 active site 290400006504 catalytic residues [active] 290400006505 substrate binding site [chemical binding]; other site 290400006506 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 290400006507 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 290400006508 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 290400006509 dimer interface [polypeptide binding]; other site 290400006510 phosphorylation site [posttranslational modification] 290400006511 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 290400006512 ATP binding site [chemical binding]; other site 290400006513 Mg2+ binding site [ion binding]; other site 290400006514 G-X-G motif; other site 290400006515 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 290400006516 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 290400006517 active site 290400006518 phosphorylation site [posttranslational modification] 290400006519 intermolecular recognition site; other site 290400006520 dimerization interface [polypeptide binding]; other site 290400006521 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 290400006522 Walker A motif; other site 290400006523 ATP binding site [chemical binding]; other site 290400006524 Walker B motif; other site 290400006525 arginine finger; other site 290400006526 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 290400006527 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 290400006528 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 290400006529 dimerization interface [polypeptide binding]; other site 290400006530 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 290400006531 dimer interface [polypeptide binding]; other site 290400006532 phosphorylation site [posttranslational modification] 290400006533 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 290400006534 ATP binding site [chemical binding]; other site 290400006535 Mg2+ binding site [ion binding]; other site 290400006536 G-X-G motif; other site 290400006537 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290400006538 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 290400006539 active site 290400006540 phosphorylation site [posttranslational modification] 290400006541 intermolecular recognition site; other site 290400006542 dimerization interface [polypeptide binding]; other site 290400006543 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 290400006544 Walker A motif; other site 290400006545 ATP binding site [chemical binding]; other site 290400006546 Walker B motif; other site 290400006547 arginine finger; other site 290400006548 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290400006549 Tetratricopeptide repeat; Region: TPR_12; pfam13424 290400006550 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 290400006551 TrkA-N domain; Region: TrkA_N; pfam02254 290400006552 TrkA-C domain; Region: TrkA_C; pfam02080 290400006553 TrkA-N domain; Region: TrkA_N; pfam02254 290400006554 TrkA-C domain; Region: TrkA_C; pfam02080 290400006555 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 290400006556 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 290400006557 bacterial Hfq-like; Region: Hfq; cd01716 290400006558 hexamer interface [polypeptide binding]; other site 290400006559 Sm1 motif; other site 290400006560 RNA binding site [nucleotide binding]; other site 290400006561 Sm2 motif; other site 290400006562 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 290400006563 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 290400006564 HflX GTPase family; Region: HflX; cd01878 290400006565 G1 box; other site 290400006566 GTP/Mg2+ binding site [chemical binding]; other site 290400006567 Switch I region; other site 290400006568 G2 box; other site 290400006569 G3 box; other site 290400006570 Switch II region; other site 290400006571 G4 box; other site 290400006572 G5 box; other site 290400006573 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 290400006574 GAF domain; Region: GAF; pfam01590 290400006575 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 290400006576 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 290400006577 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 290400006578 Walker A/P-loop; other site 290400006579 ATP binding site [chemical binding]; other site 290400006580 Q-loop/lid; other site 290400006581 ABC transporter signature motif; other site 290400006582 Walker B; other site 290400006583 D-loop; other site 290400006584 H-loop/switch region; other site 290400006585 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 290400006586 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 290400006587 ABC-ATPase subunit interface; other site 290400006588 dimer interface [polypeptide binding]; other site 290400006589 putative PBP binding regions; other site 290400006590 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 290400006591 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 290400006592 intersubunit interface [polypeptide binding]; other site 290400006593 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 290400006594 dimer interface [polypeptide binding]; other site 290400006595 [2Fe-2S] cluster binding site [ion binding]; other site 290400006596 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 290400006597 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290400006598 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 290400006599 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 290400006600 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 290400006601 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 290400006602 Rrf2 family protein; Region: rrf2_super; TIGR00738 290400006603 Transcriptional regulator; Region: Rrf2; pfam02082 290400006604 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 290400006605 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 290400006606 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 290400006607 TPR motif; other site 290400006608 binding surface 290400006609 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 290400006610 active site 290400006611 Uncharacterized conserved protein [Function unknown]; Region: COG1944 290400006612 YcaO-like family; Region: YcaO; pfam02624 290400006613 TfuA-like protein; Region: TfuA; pfam07812 290400006614 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290400006615 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290400006616 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290400006617 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290400006618 Walker A/P-loop; other site 290400006619 ATP binding site [chemical binding]; other site 290400006620 Q-loop/lid; other site 290400006621 ABC transporter signature motif; other site 290400006622 Walker B; other site 290400006623 D-loop; other site 290400006624 H-loop/switch region; other site 290400006625 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400006626 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290400006627 Walker A/P-loop; other site 290400006628 ATP binding site [chemical binding]; other site 290400006629 Q-loop/lid; other site 290400006630 ABC transporter signature motif; other site 290400006631 Walker B; other site 290400006632 D-loop; other site 290400006633 H-loop/switch region; other site 290400006634 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 290400006635 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400006636 TM-ABC transporter signature motif; other site 290400006637 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400006638 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 290400006639 TM-ABC transporter signature motif; other site 290400006640 NIPSNAP; Region: NIPSNAP; pfam07978 290400006641 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 290400006642 classical (c) SDRs; Region: SDR_c; cd05233 290400006643 NAD(P) binding site [chemical binding]; other site 290400006644 active site 290400006645 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 290400006646 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400006647 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400006648 NAD(P) binding site [chemical binding]; other site 290400006649 active site 290400006650 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400006651 Cytochrome P450; Region: p450; cl12078 290400006652 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400006653 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 290400006654 dimerization interface [polypeptide binding]; other site 290400006655 putative DNA binding site [nucleotide binding]; other site 290400006656 putative Zn2+ binding site [ion binding]; other site 290400006657 Amidohydrolase; Region: Amidohydro_2; pfam04909 290400006658 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 290400006659 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 290400006660 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 290400006661 active site 290400006662 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400006663 fatty acid (omega-1)-hydroxylase/midchain alkane hydroxylase; Region: PLN02169 290400006664 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 290400006665 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290400006666 putative NAD(P) binding site [chemical binding]; other site 290400006667 putative active site [active] 290400006668 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 290400006669 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 290400006670 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 290400006671 Uncharacterized conserved protein [Function unknown]; Region: COG3743 290400006672 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 290400006673 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400006674 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400006675 GTPase CgtA; Reviewed; Region: obgE; PRK12299 290400006676 GTP1/OBG; Region: GTP1_OBG; pfam01018 290400006677 Obg GTPase; Region: Obg; cd01898 290400006678 G1 box; other site 290400006679 GTP/Mg2+ binding site [chemical binding]; other site 290400006680 Switch I region; other site 290400006681 G2 box; other site 290400006682 G3 box; other site 290400006683 Switch II region; other site 290400006684 G4 box; other site 290400006685 G5 box; other site 290400006686 gamma-glutamyl kinase; Provisional; Region: PRK05429 290400006687 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 290400006688 nucleotide binding site [chemical binding]; other site 290400006689 homotetrameric interface [polypeptide binding]; other site 290400006690 putative phosphate binding site [ion binding]; other site 290400006691 putative allosteric binding site; other site 290400006692 PUA domain; Region: PUA; pfam01472 290400006693 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 290400006694 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 290400006695 putative catalytic cysteine [active] 290400006696 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 290400006697 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 290400006698 homodimer interface [polypeptide binding]; other site 290400006699 substrate-cofactor binding pocket; other site 290400006700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400006701 catalytic residue [active] 290400006702 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 290400006703 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 290400006704 dimer interface [polypeptide binding]; other site 290400006705 phosphorylation site [posttranslational modification] 290400006706 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 290400006707 ATP binding site [chemical binding]; other site 290400006708 Mg2+ binding site [ion binding]; other site 290400006709 G-X-G motif; other site 290400006710 PBP superfamily domain; Region: PBP_like_2; pfam12849 290400006711 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 290400006712 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 290400006713 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 290400006714 dimer interface [polypeptide binding]; other site 290400006715 conserved gate region; other site 290400006716 putative PBP binding loops; other site 290400006717 ABC-ATPase subunit interface; other site 290400006718 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 290400006719 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 290400006720 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 290400006721 dimer interface [polypeptide binding]; other site 290400006722 conserved gate region; other site 290400006723 putative PBP binding loops; other site 290400006724 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 290400006725 ABC-ATPase subunit interface; other site 290400006726 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 290400006727 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 290400006728 Walker A/P-loop; other site 290400006729 ATP binding site [chemical binding]; other site 290400006730 Q-loop/lid; other site 290400006731 ABC transporter signature motif; other site 290400006732 Walker B; other site 290400006733 D-loop; other site 290400006734 H-loop/switch region; other site 290400006735 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 290400006736 PhoU domain; Region: PhoU; pfam01895 290400006737 PhoU domain; Region: PhoU; pfam01895 290400006738 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 290400006739 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 290400006740 active site 290400006741 phosphorylation site [posttranslational modification] 290400006742 intermolecular recognition site; other site 290400006743 dimerization interface [polypeptide binding]; other site 290400006744 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 290400006745 DNA binding site [nucleotide binding] 290400006746 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 290400006747 Amidohydrolase; Region: Amidohydro_2; pfam04909 290400006748 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 290400006749 homotrimer interaction site [polypeptide binding]; other site 290400006750 putative active site [active] 290400006751 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 290400006752 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 290400006753 acyl-activating enzyme (AAE) consensus motif; other site 290400006754 putative AMP binding site [chemical binding]; other site 290400006755 putative active site [active] 290400006756 putative CoA binding site [chemical binding]; other site 290400006757 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 290400006758 active site residue [active] 290400006759 Dehydroquinase class II; Region: DHquinase_II; pfam01220 290400006760 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 290400006761 trimer interface [polypeptide binding]; other site 290400006762 active site 290400006763 dimer interface [polypeptide binding]; other site 290400006764 Autoinducer binding domain; Region: Autoind_bind; pfam03472 290400006765 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 290400006766 DNA binding residues [nucleotide binding] 290400006767 dimerization interface [polypeptide binding]; other site 290400006768 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 290400006769 putative hydrophobic ligand binding site [chemical binding]; other site 290400006770 HTH domain; Region: HTH_11; pfam08279 290400006771 elongation factor Ts; Provisional; Region: tsf; PRK09377 290400006772 UBA/TS-N domain; Region: UBA; pfam00627 290400006773 Elongation factor TS; Region: EF_TS; pfam00889 290400006774 Elongation factor TS; Region: EF_TS; pfam00889 290400006775 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 290400006776 rRNA interaction site [nucleotide binding]; other site 290400006777 S8 interaction site; other site 290400006778 putative laminin-1 binding site; other site 290400006779 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400006780 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 290400006781 substrate binding site [chemical binding]; other site 290400006782 ATP binding site [chemical binding]; other site 290400006783 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 290400006784 Uncharacterized conserved protein [Function unknown]; Region: COG2928 290400006785 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290400006786 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 290400006787 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 290400006788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400006789 NAD(P) binding site [chemical binding]; other site 290400006790 active site 290400006791 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 290400006792 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 290400006793 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 290400006794 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 290400006795 active site 290400006796 nucleophile elbow; other site 290400006797 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400006798 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 290400006799 non-specific DNA binding site [nucleotide binding]; other site 290400006800 salt bridge; other site 290400006801 sequence-specific DNA binding site [nucleotide binding]; other site 290400006802 Cupin domain; Region: Cupin_2; pfam07883 290400006803 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 290400006804 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400006805 acyl-activating enzyme (AAE) consensus motif; other site 290400006806 AMP binding site [chemical binding]; other site 290400006807 active site 290400006808 CoA binding site [chemical binding]; other site 290400006809 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 290400006810 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 290400006811 catalytic residues [active] 290400006812 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 290400006813 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 290400006814 putative substrate translocation pore; other site 290400006815 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_23; cd04682 290400006816 nudix motif; other site 290400006817 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 290400006818 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 290400006819 catalytic residues [active] 290400006820 Peptidase M15; Region: Peptidase_M15_3; cl01194 290400006821 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 290400006822 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 290400006823 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 290400006824 ATP binding site [chemical binding]; other site 290400006825 putative Mg++ binding site [ion binding]; other site 290400006826 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 290400006827 nucleotide binding region [chemical binding]; other site 290400006828 ATP-binding site [chemical binding]; other site 290400006829 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 290400006830 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 290400006831 dimer interface [polypeptide binding]; other site 290400006832 allosteric magnesium binding site [ion binding]; other site 290400006833 active site 290400006834 aspartate-rich active site metal binding site; other site 290400006835 Schiff base residues; other site 290400006836 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 290400006837 putative amphipathic alpha helix; other site 290400006838 Domain of unknown function DUF302; Region: DUF302; pfam03625 290400006839 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 290400006840 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 290400006841 active site 290400006842 hypothetical protein; Provisional; Region: PRK07483 290400006843 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 290400006844 inhibitor-cofactor binding pocket; inhibition site 290400006845 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400006846 catalytic residue [active] 290400006847 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 290400006848 Ligand Binding Site [chemical binding]; other site 290400006849 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 290400006850 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400006851 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 290400006852 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290400006853 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 290400006854 hypothetical protein; Provisional; Region: PRK07079 290400006855 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 290400006856 metal binding site [ion binding]; metal-binding site 290400006857 putative dimer interface [polypeptide binding]; other site 290400006858 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 290400006859 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 290400006860 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 290400006861 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 290400006862 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 290400006863 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 290400006864 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290400006865 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 290400006866 putative acyl-acceptor binding pocket; other site 290400006867 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 290400006868 agmatinase; Region: agmatinase; TIGR01230 290400006869 oligomer interface [polypeptide binding]; other site 290400006870 putative active site [active] 290400006871 Mn binding site [ion binding]; other site 290400006872 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 290400006873 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 290400006874 Predicted membrane protein [Function unknown]; Region: COG4325 290400006875 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290400006876 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 290400006877 metal binding site [ion binding]; metal-binding site 290400006878 putative dimer interface [polypeptide binding]; other site 290400006879 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 290400006880 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 290400006881 homodimer interface [polypeptide binding]; other site 290400006882 metal binding site [ion binding]; metal-binding site 290400006883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 290400006884 homodimer interface [polypeptide binding]; other site 290400006885 active site 290400006886 putative chemical substrate binding site [chemical binding]; other site 290400006887 metal binding site [ion binding]; metal-binding site 290400006888 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400006889 EamA-like transporter family; Region: EamA; pfam00892 290400006890 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 290400006891 EamA-like transporter family; Region: EamA; pfam00892 290400006892 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290400006893 EamA-like transporter family; Region: EamA; pfam00892 290400006894 Homoserine O-succinyltransferase; Region: HTS; pfam04204 290400006895 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 290400006896 proposed active site lysine [active] 290400006897 conserved cys residue [active] 290400006898 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400006899 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 290400006900 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400006901 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400006902 WHG domain; Region: WHG; pfam13305 290400006903 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 290400006904 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 290400006905 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400006906 catalytic residue [active] 290400006907 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 290400006908 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 290400006909 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 290400006910 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 290400006911 Walker A/P-loop; other site 290400006912 ATP binding site [chemical binding]; other site 290400006913 Q-loop/lid; other site 290400006914 ABC transporter signature motif; other site 290400006915 Walker B; other site 290400006916 D-loop; other site 290400006917 H-loop/switch region; other site 290400006918 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400006919 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 290400006920 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400006921 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 290400006922 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 290400006923 putative ABC transporter; Region: ycf24; CHL00085 290400006924 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 290400006925 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 290400006926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400006927 catalytic residue [active] 290400006928 Predicted transcriptional regulator [Transcription]; Region: COG1959 290400006929 Transcriptional regulator; Region: Rrf2; cl17282 290400006930 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 290400006931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290400006932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290400006933 dimer interface [polypeptide binding]; other site 290400006934 putative CheW interface [polypeptide binding]; other site 290400006935 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 290400006936 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 290400006937 isocitrate dehydrogenase; Validated; Region: PRK08299 290400006938 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400006939 classical (c) SDRs; Region: SDR_c; cd05233 290400006940 NAD(P) binding site [chemical binding]; other site 290400006941 active site 290400006942 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 290400006943 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 290400006944 putative active site [active] 290400006945 putative dimer interface [polypeptide binding]; other site 290400006946 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400006947 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 290400006948 AsnC family; Region: AsnC_trans_reg; pfam01037 290400006949 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 290400006950 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 290400006951 NADP binding site [chemical binding]; other site 290400006952 dimer interface [polypeptide binding]; other site 290400006953 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 290400006954 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400006955 DinB family; Region: DinB; cl17821 290400006956 DinB superfamily; Region: DinB_2; pfam12867 290400006957 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 290400006958 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 290400006959 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 290400006960 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290400006961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400006962 DNA-binding site [nucleotide binding]; DNA binding site 290400006963 FCD domain; Region: FCD; pfam07729 290400006964 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 290400006965 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290400006966 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 290400006967 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400006968 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400006969 DNA-binding site [nucleotide binding]; DNA binding site 290400006970 Stringent starvation protein B; Region: SspB; pfam04386 290400006971 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 290400006972 S-adenosylmethionine binding site [chemical binding]; other site 290400006973 fumarate hydratase; Reviewed; Region: fumC; PRK00485 290400006974 Class II fumarases; Region: Fumarase_classII; cd01362 290400006975 active site 290400006976 tetramer interface [polypeptide binding]; other site 290400006977 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 290400006978 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400006979 Cytochrome P450; Region: p450; cl12078 290400006980 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 290400006981 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 290400006982 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 290400006983 CPxP motif; other site 290400006984 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400006985 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400006986 Walker A/P-loop; other site 290400006987 ATP binding site [chemical binding]; other site 290400006988 Q-loop/lid; other site 290400006989 ABC transporter signature motif; other site 290400006990 Walker B; other site 290400006991 D-loop; other site 290400006992 H-loop/switch region; other site 290400006993 TOBE domain; Region: TOBE_2; pfam08402 290400006994 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400006995 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 290400006996 dimer interface [polypeptide binding]; other site 290400006997 conserved gate region; other site 290400006998 putative PBP binding loops; other site 290400006999 ABC-ATPase subunit interface; other site 290400007000 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 290400007001 dimer interface [polypeptide binding]; other site 290400007002 conserved gate region; other site 290400007003 putative PBP binding loops; other site 290400007004 ABC-ATPase subunit interface; other site 290400007005 SnoaL-like domain; Region: SnoaL_2; pfam12680 290400007006 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400007007 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400007008 TM-ABC transporter signature motif; other site 290400007009 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400007010 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400007011 Walker A/P-loop; other site 290400007012 ATP binding site [chemical binding]; other site 290400007013 Q-loop/lid; other site 290400007014 ABC transporter signature motif; other site 290400007015 Walker B; other site 290400007016 D-loop; other site 290400007017 H-loop/switch region; other site 290400007018 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400007019 Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_methylthioribose_binding_like; cd06305 290400007020 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400007021 putative ligand binding site [chemical binding]; other site 290400007022 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 290400007023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 290400007024 nucleotide binding site [chemical binding]; other site 290400007025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400007026 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400007027 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 290400007028 putative effector binding pocket; other site 290400007029 dimerization interface [polypeptide binding]; other site 290400007030 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 290400007031 EamA-like transporter family; Region: EamA; pfam00892 290400007032 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 290400007033 CGNR zinc finger; Region: zf-CGNR; pfam11706 290400007034 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 290400007035 dimerization interface [polypeptide binding]; other site 290400007036 putative DNA binding site [nucleotide binding]; other site 290400007037 putative Zn2+ binding site [ion binding]; other site 290400007038 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 290400007039 putative hydrophobic ligand binding site [chemical binding]; other site 290400007040 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400007041 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400007042 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 290400007043 Predicted transcriptional regulator [Transcription]; Region: COG1959 290400007044 Transcriptional regulator; Region: Rrf2; pfam02082 290400007045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 290400007046 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400007047 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400007048 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 290400007049 C-terminal domain interface [polypeptide binding]; other site 290400007050 GSH binding site (G-site) [chemical binding]; other site 290400007051 dimer interface [polypeptide binding]; other site 290400007052 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 290400007053 N-terminal domain interface [polypeptide binding]; other site 290400007054 dimer interface [polypeptide binding]; other site 290400007055 substrate binding pocket (H-site) [chemical binding]; other site 290400007056 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 290400007057 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 290400007058 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400007059 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400007060 WHG domain; Region: WHG; pfam13305 290400007061 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 290400007062 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 290400007063 23S rRNA interface [nucleotide binding]; other site 290400007064 L3 interface [polypeptide binding]; other site 290400007065 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 290400007066 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 290400007067 CoenzymeA binding site [chemical binding]; other site 290400007068 subunit interaction site [polypeptide binding]; other site 290400007069 PHB binding site; other site 290400007070 enoyl-CoA hydratase; Validated; Region: PRK08139 290400007071 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 290400007072 substrate binding site [chemical binding]; other site 290400007073 oxyanion hole (OAH) forming residues; other site 290400007074 trimer interface [polypeptide binding]; other site 290400007075 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 290400007076 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 290400007077 active site 290400007078 Zn binding site [ion binding]; other site 290400007079 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 290400007080 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 290400007081 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 290400007082 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 290400007083 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 290400007084 thiamine phosphate binding site [chemical binding]; other site 290400007085 active site 290400007086 pyrophosphate binding site [ion binding]; other site 290400007087 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 290400007088 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 290400007089 putative acyl-acceptor binding pocket; other site 290400007090 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 290400007091 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 290400007092 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 290400007093 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 290400007094 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 290400007095 trimer interface [polypeptide binding]; other site 290400007096 putative metal binding site [ion binding]; other site 290400007097 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 290400007098 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 290400007099 catalytic site [active] 290400007100 G-X2-G-X-G-K; other site 290400007101 hypothetical protein; Provisional; Region: PRK11820 290400007102 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 290400007103 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 290400007104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 290400007105 PAS domain; Region: PAS_5; pfam07310 290400007106 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 290400007107 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290400007108 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290400007109 conserved cys residue [active] 290400007110 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400007111 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400007112 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 290400007113 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290400007114 metal binding triad; other site 290400007115 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 290400007116 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 290400007117 metal binding triad; other site 290400007118 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 290400007119 putative deacylase active site [active] 290400007120 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 290400007121 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 290400007122 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 290400007123 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 290400007124 active site 290400007125 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 290400007126 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 290400007127 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 290400007128 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 290400007129 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290400007130 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290400007131 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 290400007132 Surface antigen; Region: Bac_surface_Ag; pfam01103 290400007133 zinc metallopeptidase RseP; Provisional; Region: PRK10779 290400007134 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 290400007135 active site 290400007136 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 290400007137 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 290400007138 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 290400007139 putative substrate binding region [chemical binding]; other site 290400007140 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 290400007141 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 290400007142 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 290400007143 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 290400007144 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 290400007145 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 290400007146 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 290400007147 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 290400007148 catalytic residue [active] 290400007149 putative FPP diphosphate binding site; other site 290400007150 putative FPP binding hydrophobic cleft; other site 290400007151 dimer interface [polypeptide binding]; other site 290400007152 putative IPP diphosphate binding site; other site 290400007153 ribosome recycling factor; Reviewed; Region: frr; PRK00083 290400007154 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 290400007155 hinge region; other site 290400007156 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400007157 atypical (a) SDRs, subgroup 1; Region: SDR_a1; cd05265 290400007158 putative NAD(P) binding site [chemical binding]; other site 290400007159 active site 290400007160 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 290400007161 putative nucleotide binding site [chemical binding]; other site 290400007162 uridine monophosphate binding site [chemical binding]; other site 290400007163 homohexameric interface [polypeptide binding]; other site 290400007164 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 290400007165 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 290400007166 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 290400007167 Walker A motif; other site 290400007168 ATP binding site [chemical binding]; other site 290400007169 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290400007170 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400007171 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 290400007172 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290400007173 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400007174 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 290400007175 dimer interface [polypeptide binding]; other site 290400007176 conserved gate region; other site 290400007177 putative PBP binding loops; other site 290400007178 ABC-ATPase subunit interface; other site 290400007179 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400007180 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400007181 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290400007182 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400007183 Walker A/P-loop; other site 290400007184 ATP binding site [chemical binding]; other site 290400007185 Q-loop/lid; other site 290400007186 ABC transporter signature motif; other site 290400007187 Walker B; other site 290400007188 D-loop; other site 290400007189 H-loop/switch region; other site 290400007190 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400007191 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 290400007192 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400007193 Walker A/P-loop; other site 290400007194 ATP binding site [chemical binding]; other site 290400007195 Q-loop/lid; other site 290400007196 ABC transporter signature motif; other site 290400007197 Walker B; other site 290400007198 D-loop; other site 290400007199 H-loop/switch region; other site 290400007200 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290400007201 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 290400007202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400007203 Walker A/P-loop; other site 290400007204 ATP binding site [chemical binding]; other site 290400007205 Q-loop/lid; other site 290400007206 ABC transporter signature motif; other site 290400007207 Walker B; other site 290400007208 D-loop; other site 290400007209 H-loop/switch region; other site 290400007210 TOBE domain; Region: TOBE; cl01440 290400007211 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 290400007212 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 290400007213 dimer interface [polypeptide binding]; other site 290400007214 conserved gate region; other site 290400007215 putative PBP binding loops; other site 290400007216 ABC-ATPase subunit interface; other site 290400007217 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 290400007218 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290400007219 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 290400007220 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 290400007221 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 290400007222 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290400007223 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 290400007224 active site 290400007225 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 290400007226 TSCPD domain; Region: TSCPD; pfam12637 290400007227 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 290400007228 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290400007229 DNA-binding site [nucleotide binding]; DNA binding site 290400007230 RNA-binding motif; other site 290400007231 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290400007232 DNA-binding site [nucleotide binding]; DNA binding site 290400007233 RNA-binding motif; other site 290400007234 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 290400007235 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 290400007236 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 290400007237 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 290400007238 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 290400007239 NAD binding site [chemical binding]; other site 290400007240 homotetramer interface [polypeptide binding]; other site 290400007241 homodimer interface [polypeptide binding]; other site 290400007242 substrate binding site [chemical binding]; other site 290400007243 active site 290400007244 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400007245 active site 290400007246 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 290400007247 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400007248 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400007249 ABC transporter signature motif; other site 290400007250 Walker B; other site 290400007251 D-loop; other site 290400007252 H-loop/switch region; other site 290400007253 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400007254 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400007255 ABC transporter signature motif; other site 290400007256 Walker B; other site 290400007257 D-loop; other site 290400007258 H-loop/switch region; other site 290400007259 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400007260 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400007261 TM-ABC transporter signature motif; other site 290400007262 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400007263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400007264 Walker A/P-loop; other site 290400007265 ATP binding site [chemical binding]; other site 290400007266 Q-loop/lid; other site 290400007267 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290400007268 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 290400007269 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400007270 Zn binding site [ion binding]; other site 290400007271 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 290400007272 Domain of unknown function DUF21; Region: DUF21; pfam01595 290400007273 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 290400007274 Transporter associated domain; Region: CorC_HlyC; smart01091 290400007275 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 290400007276 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 290400007277 active site 290400007278 DNA binding site [nucleotide binding] 290400007279 Int/Topo IB signature motif; other site 290400007280 shikimate kinase; Provisional; Region: PRK13946 290400007281 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 290400007282 ADP binding site [chemical binding]; other site 290400007283 magnesium binding site [ion binding]; other site 290400007284 putative shikimate binding site; other site 290400007285 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 290400007286 active site 290400007287 dimer interface [polypeptide binding]; other site 290400007288 metal binding site [ion binding]; metal-binding site 290400007289 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400007290 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400007291 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400007292 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290400007293 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400007294 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 290400007295 Ligand binding site; other site 290400007296 metal-binding site 290400007297 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 290400007298 Hint domain; Region: Hint_2; pfam13403 290400007299 Predicted membrane protein [Function unknown]; Region: COG1238 290400007300 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 290400007301 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 290400007302 DNA gyrase subunit A; Validated; Region: PRK05560 290400007303 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 290400007304 CAP-like domain; other site 290400007305 active site 290400007306 primary dimer interface [polypeptide binding]; other site 290400007307 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290400007308 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290400007309 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290400007310 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 290400007311 Predicted membrane protein [Function unknown]; Region: COG2259 290400007312 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 290400007313 Glucose inhibited division protein A; Region: GIDA; pfam01134 290400007314 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 290400007315 S-adenosylmethionine binding site [chemical binding]; other site 290400007316 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 290400007317 active site 290400007318 HIGH motif; other site 290400007319 nucleotide binding site [chemical binding]; other site 290400007320 active site 290400007321 KMSKS motif; other site 290400007322 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 290400007323 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 290400007324 trimerization site [polypeptide binding]; other site 290400007325 active site 290400007326 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 290400007327 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 290400007328 generic binding surface II; other site 290400007329 ssDNA binding site; other site 290400007330 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 290400007331 ATP binding site [chemical binding]; other site 290400007332 putative Mg++ binding site [ion binding]; other site 290400007333 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 290400007334 nucleotide binding region [chemical binding]; other site 290400007335 ATP-binding site [chemical binding]; other site 290400007336 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 290400007337 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 290400007338 nucleotide binding pocket [chemical binding]; other site 290400007339 K-X-D-G motif; other site 290400007340 catalytic site [active] 290400007341 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 290400007342 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 290400007343 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 290400007344 Dimer interface [polypeptide binding]; other site 290400007345 BRCT sequence motif; other site 290400007346 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400007347 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 290400007348 active site 290400007349 phosphorylation site [posttranslational modification] 290400007350 intermolecular recognition site; other site 290400007351 dimerization interface [polypeptide binding]; other site 290400007352 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 290400007353 DNA binding site [nucleotide binding] 290400007354 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 290400007355 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 290400007356 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 290400007357 Ligand Binding Site [chemical binding]; other site 290400007358 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400007359 EamA-like transporter family; Region: EamA; pfam00892 290400007360 EamA-like transporter family; Region: EamA; cl17759 290400007361 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290400007362 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400007363 Coenzyme A binding pocket [chemical binding]; other site 290400007364 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290400007365 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 290400007366 DNA binding residues [nucleotide binding] 290400007367 putative dimer interface [polypeptide binding]; other site 290400007368 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290400007369 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 290400007370 putative NAD(P) binding site [chemical binding]; other site 290400007371 homodimer interface [polypeptide binding]; other site 290400007372 Pirin-related protein [General function prediction only]; Region: COG1741 290400007373 Pirin; Region: Pirin; pfam02678 290400007374 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290400007375 Predicted membrane protein [Function unknown]; Region: COG3671 290400007376 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 290400007377 catalytic core [active] 290400007378 Bacterial DNA-binding protein; Region: Bac_DNA_binding; pfam00216 290400007379 IHF dimer interface [polypeptide binding]; other site 290400007380 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 290400007381 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 290400007382 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 290400007383 Found in ATP-dependent protease La (LON); Region: LON; smart00464 290400007384 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 290400007385 Walker A motif; other site 290400007386 ATP binding site [chemical binding]; other site 290400007387 Walker B motif; other site 290400007388 arginine finger; other site 290400007389 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 290400007390 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 290400007391 hydrophobic ligand binding site; other site 290400007392 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 290400007393 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 290400007394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400007395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400007396 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 290400007397 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 290400007398 S-adenosylmethionine binding site [chemical binding]; other site 290400007399 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 290400007400 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 290400007401 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 290400007402 TfoX N-terminal domain; Region: TfoX_N; pfam04993 290400007403 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290400007404 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290400007405 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 290400007406 dinuclear metal binding motif [ion binding]; other site 290400007407 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 290400007408 Peptidase family M23; Region: Peptidase_M23; pfam01551 290400007409 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 290400007410 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 290400007411 amidase; Provisional; Region: PRK07486 290400007412 Amidase; Region: Amidase; cl11426 290400007413 peptide chain release factor 2; Validated; Region: prfB; PRK00578 290400007414 This domain is found in peptide chain release factors; Region: PCRF; smart00937 290400007415 RF-1 domain; Region: RF-1; pfam00472 290400007416 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 290400007417 Transglycosylase; Region: Transgly; pfam00912 290400007418 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290400007419 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400007420 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 290400007421 S-adenosylmethionine binding site [chemical binding]; other site 290400007422 AMIN domain; Region: AMIN; pfam11741 290400007423 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 290400007424 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 290400007425 active site 290400007426 metal binding site [ion binding]; metal-binding site 290400007427 hypothetical protein; Provisional; Region: PRK08960 290400007428 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 290400007429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007430 homodimer interface [polypeptide binding]; other site 290400007431 catalytic residue [active] 290400007432 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 290400007433 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 290400007434 catalytic residues [active] 290400007435 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 290400007436 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 290400007437 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 290400007438 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 290400007439 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 290400007440 active site 290400007441 phosphorylation site [posttranslational modification] 290400007442 intermolecular recognition site; other site 290400007443 dimerization interface [polypeptide binding]; other site 290400007444 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 290400007445 Walker A motif; other site 290400007446 ATP binding site [chemical binding]; other site 290400007447 Walker B motif; other site 290400007448 arginine finger; other site 290400007449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 290400007450 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 290400007451 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 290400007452 dimer interface [polypeptide binding]; other site 290400007453 phosphorylation site [posttranslational modification] 290400007454 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 290400007455 ATP binding site [chemical binding]; other site 290400007456 Mg2+ binding site [ion binding]; other site 290400007457 G-X-G motif; other site 290400007458 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 290400007459 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 290400007460 putative active site [active] 290400007461 catalytic triad [active] 290400007462 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 290400007463 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 290400007464 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 290400007465 ATP binding site [chemical binding]; other site 290400007466 active site 290400007467 substrate binding site [chemical binding]; other site 290400007468 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 290400007469 methionine synthase I; Validated; Region: PRK07534 290400007470 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 290400007471 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 290400007472 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 290400007473 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 290400007474 FeS/SAM binding site; other site 290400007475 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 290400007476 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 290400007477 B12 binding site [chemical binding]; other site 290400007478 cobalt ligand [ion binding]; other site 290400007479 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400007480 Coenzyme A binding pocket [chemical binding]; other site 290400007481 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 290400007482 EamA-like transporter family; Region: EamA; pfam00892 290400007483 EamA-like transporter family; Region: EamA; cl17759 290400007484 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 290400007485 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 290400007486 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 290400007487 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 290400007488 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 290400007489 catalytic loop [active] 290400007490 iron binding site [ion binding]; other site 290400007491 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 290400007492 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 290400007493 [4Fe-4S] binding site [ion binding]; other site 290400007494 molybdopterin cofactor binding site; other site 290400007495 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 290400007496 molybdopterin cofactor binding site; other site 290400007497 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 290400007498 putative dimer interface [polypeptide binding]; other site 290400007499 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 290400007500 SLBB domain; Region: SLBB; pfam10531 290400007501 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 290400007502 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 290400007503 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 290400007504 putative dimer interface [polypeptide binding]; other site 290400007505 [2Fe-2S] cluster binding site [ion binding]; other site 290400007506 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400007507 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400007508 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 290400007509 dimerization interface [polypeptide binding]; other site 290400007510 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 290400007511 CheB methylesterase; Region: CheB_methylest; pfam01339 290400007512 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 290400007513 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 290400007514 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 290400007515 Protein of unknown function (DUF904); Region: DUF904; pfam06005 290400007516 PAS domain; Region: PAS_10; pfam13596 290400007517 PAS fold; Region: PAS_3; pfam08447 290400007518 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 290400007519 putative active site [active] 290400007520 heme pocket [chemical binding]; other site 290400007521 PAS fold; Region: PAS_3; pfam08447 290400007522 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 290400007523 heme pocket [chemical binding]; other site 290400007524 putative active site [active] 290400007525 5-oxoprolinase; Region: PLN02666 290400007526 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 290400007527 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 290400007528 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 290400007529 DctM-like transporters; Region: DctM; pfam06808 290400007530 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400007531 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400007532 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400007533 hypothetical protein; Provisional; Region: PRK05463 290400007534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400007535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400007536 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 290400007537 dimerization interface [polypeptide binding]; other site 290400007538 AAA domain; Region: AAA_23; pfam13476 290400007539 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 290400007540 active site 290400007541 metal binding site [ion binding]; metal-binding site 290400007542 DNA binding site [nucleotide binding] 290400007543 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 290400007544 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400007545 substrate binding site [chemical binding]; other site 290400007546 ATP binding site [chemical binding]; other site 290400007547 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 290400007548 PAS fold; Region: PAS_3; pfam08447 290400007549 putative active site [active] 290400007550 heme pocket [chemical binding]; other site 290400007551 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400007552 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400007553 metal binding site [ion binding]; metal-binding site 290400007554 active site 290400007555 I-site; other site 290400007556 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 290400007557 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 290400007558 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 290400007559 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 290400007560 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 290400007561 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 290400007562 DJ-1 family protein; Region: not_thiJ; TIGR01383 290400007563 conserved cys residue [active] 290400007564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 290400007565 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 290400007566 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290400007567 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 290400007568 conserved cys residue [active] 290400007569 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 290400007570 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400007571 active site 290400007572 catalytic tetrad [active] 290400007573 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400007574 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400007575 Walker A/P-loop; other site 290400007576 ATP binding site [chemical binding]; other site 290400007577 Q-loop/lid; other site 290400007578 ABC transporter signature motif; other site 290400007579 Walker B; other site 290400007580 D-loop; other site 290400007581 H-loop/switch region; other site 290400007582 TOBE domain; Region: TOBE_2; pfam08402 290400007583 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 290400007584 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 290400007585 active sites [active] 290400007586 tetramer interface [polypeptide binding]; other site 290400007587 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 290400007588 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400007589 active site 290400007590 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400007591 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 290400007592 dimer interface [polypeptide binding]; other site 290400007593 conserved gate region; other site 290400007594 putative PBP binding loops; other site 290400007595 ABC-ATPase subunit interface; other site 290400007596 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 290400007597 dimer interface [polypeptide binding]; other site 290400007598 conserved gate region; other site 290400007599 putative PBP binding loops; other site 290400007600 ABC-ATPase subunit interface; other site 290400007601 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400007602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400007603 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 290400007604 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 290400007605 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 290400007606 L-rhamnose isomerase; Provisional; Region: PRK01076 290400007607 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 290400007608 short chain dehydrogenase; Validated; Region: PRK08324 290400007609 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 290400007610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400007611 NAD(P) binding site [chemical binding]; other site 290400007612 active site 290400007613 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 290400007614 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 290400007615 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 290400007616 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 290400007617 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 290400007618 ligand binding site [chemical binding]; other site 290400007619 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400007620 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400007621 Walker A/P-loop; other site 290400007622 ATP binding site [chemical binding]; other site 290400007623 Q-loop/lid; other site 290400007624 ABC transporter signature motif; other site 290400007625 Walker B; other site 290400007626 D-loop; other site 290400007627 H-loop/switch region; other site 290400007628 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400007629 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400007630 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400007631 TM-ABC transporter signature motif; other site 290400007632 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400007633 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400007634 TM-ABC transporter signature motif; other site 290400007635 Domain of unknown function (DUF718); Region: DUF718; pfam05336 290400007636 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 290400007637 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 290400007638 N- and C-terminal domain interface [polypeptide binding]; other site 290400007639 putative active site [active] 290400007640 putative MgATP binding site [chemical binding]; other site 290400007641 putative catalytic site [active] 290400007642 metal binding site [ion binding]; metal-binding site 290400007643 putative carbohydrate binding site [chemical binding]; other site 290400007644 PAS domain; Region: PAS_9; pfam13426 290400007645 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 290400007646 putative active site [active] 290400007647 heme pocket [chemical binding]; other site 290400007648 PAS fold; Region: PAS_7; pfam12860 290400007649 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400007650 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400007651 metal binding site [ion binding]; metal-binding site 290400007652 active site 290400007653 I-site; other site 290400007654 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 290400007655 hypothetical protein; Provisional; Region: PRK11171 290400007656 Cupin domain; Region: Cupin_2; pfam07883 290400007657 Cupin domain; Region: Cupin_2; pfam07883 290400007658 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 290400007659 homodimer interface [polypeptide binding]; other site 290400007660 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007661 catalytic residue [active] 290400007662 serine racemase; Region: PLN02970 290400007663 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 290400007664 tetramer interface [polypeptide binding]; other site 290400007665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007666 catalytic residue [active] 290400007667 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 290400007668 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 290400007669 dimer interface [polypeptide binding]; other site 290400007670 active site 290400007671 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 290400007672 substrate binding site [chemical binding]; other site 290400007673 catalytic residue [active] 290400007674 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 290400007675 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 290400007676 xanthine permease; Region: pbuX; TIGR03173 290400007677 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 290400007678 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 290400007679 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 290400007680 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 290400007681 active site 290400007682 catalytic site [active] 290400007683 tetramer interface [polypeptide binding]; other site 290400007684 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 290400007685 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 290400007686 active site 290400007687 homotetramer interface [polypeptide binding]; other site 290400007688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400007689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400007690 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 290400007691 putative effector binding pocket; other site 290400007692 dimerization interface [polypeptide binding]; other site 290400007693 Protein of unknown function (DUF989); Region: DUF989; pfam06181 290400007694 Predicted membrane protein [Function unknown]; Region: COG3748 290400007695 Cytochrome c; Region: Cytochrom_C; pfam00034 290400007696 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400007697 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400007698 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 290400007699 active site 290400007700 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 290400007701 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 290400007702 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290400007703 classical (c) SDRs; Region: SDR_c; cd05233 290400007704 NAD(P) binding site [chemical binding]; other site 290400007705 active site 290400007706 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400007707 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 290400007708 acyl-activating enzyme (AAE) consensus motif; other site 290400007709 AMP binding site [chemical binding]; other site 290400007710 active site 290400007711 CoA binding site [chemical binding]; other site 290400007712 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 290400007713 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400007714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400007715 NAD(P) binding site [chemical binding]; other site 290400007716 active site 290400007717 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 290400007718 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400007719 haloalkane dehalogenase; Provisional; Region: PRK03592 290400007720 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 290400007721 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 290400007722 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290400007723 putative NAD(P) binding site [chemical binding]; other site 290400007724 Transposase; Region: HTH_Tnp_1; pfam01527 290400007725 HTH-like domain; Region: HTH_21; pfam13276 290400007726 Integrase core domain; Region: rve; pfam00665 290400007727 haloalkane dehalogenase; Provisional; Region: PRK03592 290400007728 MAPEG family; Region: MAPEG; pfam01124 290400007729 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400007730 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 290400007731 hydrophobic ligand binding site; other site 290400007732 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 290400007733 putative hydrophobic ligand binding site [chemical binding]; other site 290400007734 protein interface [polypeptide binding]; other site 290400007735 gate; other site 290400007736 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400007737 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400007738 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400007739 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 290400007740 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 290400007741 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 290400007742 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 290400007743 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400007744 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400007745 Walker A/P-loop; other site 290400007746 ATP binding site [chemical binding]; other site 290400007747 Q-loop/lid; other site 290400007748 ABC transporter signature motif; other site 290400007749 Walker B; other site 290400007750 D-loop; other site 290400007751 H-loop/switch region; other site 290400007752 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 290400007753 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 290400007754 Putative phosphatase (DUF442); Region: DUF442; cl17385 290400007755 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400007756 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 290400007757 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 290400007758 aconitate hydratase; Validated; Region: PRK09277 290400007759 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 290400007760 substrate binding site [chemical binding]; other site 290400007761 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 290400007762 ligand binding site [chemical binding]; other site 290400007763 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 290400007764 substrate binding site [chemical binding]; other site 290400007765 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 290400007766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400007767 Walker A/P-loop; other site 290400007768 ATP binding site [chemical binding]; other site 290400007769 ABC transporter signature motif; other site 290400007770 Walker B; other site 290400007771 D-loop; other site 290400007772 H-loop/switch region; other site 290400007773 CcmB protein; Region: CcmB; cl17444 290400007774 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 290400007775 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 290400007776 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 290400007777 catalytic residues [active] 290400007778 central insert; other site 290400007779 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400007780 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 290400007781 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 290400007782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400007783 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 290400007784 non-specific DNA binding site [nucleotide binding]; other site 290400007785 salt bridge; other site 290400007786 sequence-specific DNA binding site [nucleotide binding]; other site 290400007787 aspartate aminotransferase; Provisional; Region: PRK05764 290400007788 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 290400007789 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007790 homodimer interface [polypeptide binding]; other site 290400007791 catalytic residue [active] 290400007792 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400007793 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 290400007794 dimer interface [polypeptide binding]; other site 290400007795 conserved gate region; other site 290400007796 ABC-ATPase subunit interface; other site 290400007797 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 290400007798 S-adenosylmethionine binding site [chemical binding]; other site 290400007799 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cl03381 290400007800 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 290400007801 adenylosuccinate lyase; Provisional; Region: PRK07492 290400007802 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 290400007803 tetramer interface [polypeptide binding]; other site 290400007804 active site 290400007805 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 290400007806 FliG C-terminal domain; Region: FliG_C; pfam01706 290400007807 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 290400007808 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 290400007809 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 290400007810 ATP-dependent DNA ligase; Validated; Region: PRK09247 290400007811 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 290400007812 active site 290400007813 DNA binding site [nucleotide binding] 290400007814 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 290400007815 DNA binding site [nucleotide binding] 290400007816 LCCL domain; Region: LCCL; pfam03815 290400007817 LCCL domain; Region: LCCL; pfam03815 290400007818 Peptidase C26; Region: Peptidase_C26; pfam07722 290400007819 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 290400007820 catalytic triad [active] 290400007821 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400007822 Cytochrome P450; Region: p450; cl12078 290400007823 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 290400007824 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 290400007825 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400007826 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 290400007827 putative substrate binding site [chemical binding]; other site 290400007828 putative ATP binding site [chemical binding]; other site 290400007829 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 290400007830 putative active site [active] 290400007831 dimerization interface [polypeptide binding]; other site 290400007832 putative tRNAtyr binding site [nucleotide binding]; other site 290400007833 Uncharacterized conserved protein [Function unknown]; Region: COG2308 290400007834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 290400007835 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 290400007836 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 290400007837 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 290400007838 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290400007839 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 290400007840 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 290400007841 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400007842 hypothetical protein; Provisional; Region: PRK06753 290400007843 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 290400007844 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290400007845 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 290400007846 Walker A motif; other site 290400007847 ATP binding site [chemical binding]; other site 290400007848 Walker B motif; other site 290400007849 arginine finger; other site 290400007850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400007851 Coenzyme A binding pocket [chemical binding]; other site 290400007852 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 290400007853 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 290400007854 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 290400007855 PIN domain; Region: PIN_3; pfam13470 290400007856 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 290400007857 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 290400007858 putative RNA binding site [nucleotide binding]; other site 290400007859 Methyltransferase domain; Region: Methyltransf_26; pfam13659 290400007860 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 290400007861 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 290400007862 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 290400007863 Na binding site [ion binding]; other site 290400007864 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400007865 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 290400007866 dimer interface [polypeptide binding]; other site 290400007867 phosphorylation site [posttranslational modification] 290400007868 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 290400007869 ATP binding site [chemical binding]; other site 290400007870 Mg2+ binding site [ion binding]; other site 290400007871 G-X-G motif; other site 290400007872 Response regulator receiver domain; Region: Response_reg; pfam00072 290400007873 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 290400007874 active site 290400007875 phosphorylation site [posttranslational modification] 290400007876 intermolecular recognition site; other site 290400007877 dimerization interface [polypeptide binding]; other site 290400007878 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 290400007879 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400007880 non-specific DNA binding site [nucleotide binding]; other site 290400007881 salt bridge; other site 290400007882 sequence-specific DNA binding site [nucleotide binding]; other site 290400007883 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 290400007884 NMT1/THI5 like; Region: NMT1; pfam09084 290400007885 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400007886 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 290400007887 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400007888 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 290400007889 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400007890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290400007891 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400007892 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400007893 Walker A/P-loop; other site 290400007894 ATP binding site [chemical binding]; other site 290400007895 Q-loop/lid; other site 290400007896 ABC transporter signature motif; other site 290400007897 Walker B; other site 290400007898 D-loop; other site 290400007899 H-loop/switch region; other site 290400007900 phenylhydantoinase; Validated; Region: PRK08323 290400007901 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 290400007902 tetramer interface [polypeptide binding]; other site 290400007903 active site 290400007904 allantoate amidohydrolase; Reviewed; Region: PRK12893 290400007905 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 290400007906 active site 290400007907 metal binding site [ion binding]; metal-binding site 290400007908 dimer interface [polypeptide binding]; other site 290400007909 Cupin domain; Region: Cupin_2; cl17218 290400007910 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 290400007911 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 290400007912 inhibitor-cofactor binding pocket; inhibition site 290400007913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007914 catalytic residue [active] 290400007915 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 290400007916 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400007917 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 290400007918 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 290400007919 dimer interface [polypeptide binding]; other site 290400007920 putative metal binding site [ion binding]; other site 290400007921 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 290400007922 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 290400007923 homodimer interface [polypeptide binding]; other site 290400007924 active site 290400007925 FMN binding site [chemical binding]; other site 290400007926 substrate binding site [chemical binding]; other site 290400007927 4Fe-4S binding domain; Region: Fer4_6; pfam12837 290400007928 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 290400007929 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400007930 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 290400007931 carboxyltransferase (CT) interaction site; other site 290400007932 biotinylation site [posttranslational modification]; other site 290400007933 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 290400007934 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400007935 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290400007936 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290400007937 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 290400007938 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 290400007939 mce related protein; Region: MCE; pfam02470 290400007940 NADH dehydrogenase; Validated; Region: PRK08183 290400007941 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 290400007942 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 290400007943 homodimer interface [polypeptide binding]; other site 290400007944 substrate-cofactor binding pocket; other site 290400007945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400007946 catalytic residue [active] 290400007947 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 290400007948 MgtE intracellular N domain; Region: MgtE_N; smart00924 290400007949 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 290400007950 Divalent cation transporter; Region: MgtE; pfam01769 290400007951 guanine deaminase; Provisional; Region: PRK09228 290400007952 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 290400007953 active site 290400007954 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 290400007955 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 290400007956 active site 290400007957 substrate binding site [chemical binding]; other site 290400007958 metal binding site [ion binding]; metal-binding site 290400007959 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 290400007960 dihydropteroate synthase; Region: DHPS; TIGR01496 290400007961 substrate binding pocket [chemical binding]; other site 290400007962 dimer interface [polypeptide binding]; other site 290400007963 inhibitor binding site; inhibition site 290400007964 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400007965 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400007966 Dihydroneopterin aldolase; Region: FolB; smart00905 290400007967 active site 290400007968 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 290400007969 nucleotide binding site [chemical binding]; other site 290400007970 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 290400007971 pyruvate phosphate dikinase; Provisional; Region: PRK09279 290400007972 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 290400007973 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290400007974 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290400007975 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 290400007976 DALR anticodon binding domain; Region: DALR_1; pfam05746 290400007977 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 290400007978 motif 1; other site 290400007979 dimer interface [polypeptide binding]; other site 290400007980 active site 290400007981 motif 2; other site 290400007982 motif 3; other site 290400007983 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400007984 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 290400007985 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290400007986 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 290400007987 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 290400007988 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 290400007989 threonine dehydratase; Provisional; Region: PRK08246 290400007990 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 290400007991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400007992 catalytic residue [active] 290400007993 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 290400007994 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 290400007995 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 290400007996 metal ion-dependent adhesion site (MIDAS); other site 290400007997 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400007998 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400007999 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 290400008000 active site 290400008001 Domain of unknown function (DUF427); Region: DUF427; pfam04248 290400008002 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 290400008003 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 290400008004 Cl- selectivity filter; other site 290400008005 Cl- binding residues [ion binding]; other site 290400008006 pore gating glutamate residue; other site 290400008007 dimer interface [polypeptide binding]; other site 290400008008 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 290400008009 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290400008010 Walker A/P-loop; other site 290400008011 ATP binding site [chemical binding]; other site 290400008012 Q-loop/lid; other site 290400008013 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 290400008014 ABC transporter signature motif; other site 290400008015 Walker B; other site 290400008016 D-loop; other site 290400008017 H-loop/switch region; other site 290400008018 Outer membrane lipoprotein; Region: YfiO; pfam13525 290400008019 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 290400008020 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 290400008021 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 290400008022 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 290400008023 nucleotide binding site [chemical binding]; other site 290400008024 SulA interaction site; other site 290400008025 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 290400008026 Cell division protein FtsA; Region: FtsA; smart00842 290400008027 Cell division protein FtsA; Region: FtsA; pfam14450 290400008028 Cell division protein FtsQ; Region: FtsQ; pfam03799 290400008029 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 290400008030 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 290400008031 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290400008032 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 290400008033 FAD binding domain; Region: FAD_binding_4; pfam01565 290400008034 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 290400008035 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 290400008036 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 290400008037 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 290400008038 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290400008039 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290400008040 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290400008041 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 290400008042 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 290400008043 active site 290400008044 homodimer interface [polypeptide binding]; other site 290400008045 cell division protein FtsW; Region: ftsW; TIGR02614 290400008046 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 290400008047 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400008048 active site 290400008049 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 290400008050 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290400008051 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290400008052 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 290400008053 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 290400008054 Mg++ binding site [ion binding]; other site 290400008055 putative catalytic motif [active] 290400008056 putative substrate binding site [chemical binding]; other site 290400008057 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 290400008058 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290400008059 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290400008060 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290400008061 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 290400008062 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 290400008063 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 290400008064 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 290400008065 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 290400008066 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290400008067 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290400008068 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 290400008069 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 290400008070 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 290400008071 S-adenosylmethionine binding site [chemical binding]; other site 290400008072 cell division protein MraZ; Reviewed; Region: PRK00326 290400008073 MraZ protein; Region: MraZ; pfam02381 290400008074 Domain of unknown function DUF59; Region: DUF59; pfam01883 290400008075 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 290400008076 H+ Antiporter protein; Region: 2A0121; TIGR00900 290400008077 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 290400008078 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400008079 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 290400008080 putative DNA binding site [nucleotide binding]; other site 290400008081 putative Zn2+ binding site [ion binding]; other site 290400008082 AsnC family; Region: AsnC_trans_reg; pfam01037 290400008083 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400008084 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 290400008085 Part of AAA domain; Region: AAA_19; pfam13245 290400008086 Family description; Region: UvrD_C_2; pfam13538 290400008087 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290400008088 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 290400008089 phosphate binding site [ion binding]; other site 290400008090 Sensors of blue-light using FAD; Region: BLUF; smart01034 290400008091 pyruvate carboxylase; Reviewed; Region: PRK12999 290400008092 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400008093 ATP-grasp domain; Region: ATP-grasp_4; cl17255 290400008094 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290400008095 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 290400008096 active site 290400008097 catalytic residues [active] 290400008098 metal binding site [ion binding]; metal-binding site 290400008099 homodimer binding site [polypeptide binding]; other site 290400008100 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 290400008101 carboxyltransferase (CT) interaction site; other site 290400008102 biotinylation site [posttranslational modification]; other site 290400008103 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290400008104 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 290400008105 active site 290400008106 metal binding site [ion binding]; metal-binding site 290400008107 hexamer interface [polypeptide binding]; other site 290400008108 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400008109 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400008110 ligand binding site [chemical binding]; other site 290400008111 Stf0 sulphotransferase; Region: Sulphotransf; pfam09037 290400008112 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 290400008113 putative active site pocket [active] 290400008114 4-fold oligomerization interface [polypeptide binding]; other site 290400008115 metal binding residues [ion binding]; metal-binding site 290400008116 3-fold/trimer interface [polypeptide binding]; other site 290400008117 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 290400008118 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 290400008119 putative active site [active] 290400008120 oxyanion strand; other site 290400008121 catalytic triad [active] 290400008122 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 290400008123 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 290400008124 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290400008125 catalytic residues [active] 290400008126 Domain of unknown function DUF302; Region: DUF302; pfam03625 290400008127 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 290400008128 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 290400008129 substrate binding site [chemical binding]; other site 290400008130 glutamase interaction surface [polypeptide binding]; other site 290400008131 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 290400008132 metal binding site [ion binding]; metal-binding site 290400008133 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 290400008134 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 290400008135 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 290400008136 Ribosomal protein L34e; Region: Ribosomal_L34e; cl00955 290400008137 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 290400008138 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 290400008139 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 290400008140 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 290400008141 putative active site [active] 290400008142 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 290400008143 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 290400008144 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 290400008145 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400008146 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400008147 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400008148 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290400008149 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400008150 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 290400008151 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 290400008152 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 290400008153 Walker A motif; other site 290400008154 ATP binding site [chemical binding]; other site 290400008155 Walker B motif; other site 290400008156 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290400008157 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 290400008158 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 290400008159 oligomer interface [polypeptide binding]; other site 290400008160 active site residues [active] 290400008161 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 290400008162 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 290400008163 Phosphotransferase enzyme family; Region: APH; pfam01636 290400008164 putative active site [active] 290400008165 putative substrate binding site [chemical binding]; other site 290400008166 ATP binding site [chemical binding]; other site 290400008167 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400008168 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400008169 active site 290400008170 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 290400008171 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 290400008172 FMN binding site [chemical binding]; other site 290400008173 substrate binding site [chemical binding]; other site 290400008174 putative catalytic residue [active] 290400008175 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 290400008176 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400008177 FAD binding site [chemical binding]; other site 290400008178 substrate binding pocket [chemical binding]; other site 290400008179 catalytic base [active] 290400008180 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 290400008181 putative catalytic site [active] 290400008182 putative phosphate binding site [ion binding]; other site 290400008183 active site 290400008184 metal binding site A [ion binding]; metal-binding site 290400008185 DNA binding site [nucleotide binding] 290400008186 putative AP binding site [nucleotide binding]; other site 290400008187 putative metal binding site B [ion binding]; other site 290400008188 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 290400008189 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 290400008190 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 290400008191 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290400008192 LCCL domain; Region: LCCL; pfam03815 290400008193 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 290400008194 Ligand Binding Site [chemical binding]; other site 290400008195 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400008196 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 290400008197 MltA-interacting protein MipA; Region: MipA; cl01504 290400008198 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400008199 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 290400008200 dimer interface [polypeptide binding]; other site 290400008201 conserved gate region; other site 290400008202 putative PBP binding loops; other site 290400008203 ABC-ATPase subunit interface; other site 290400008204 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290400008205 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400008206 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 290400008207 dimer interface [polypeptide binding]; other site 290400008208 conserved gate region; other site 290400008209 ABC-ATPase subunit interface; other site 290400008210 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400008211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400008212 Walker A/P-loop; other site 290400008213 ATP binding site [chemical binding]; other site 290400008214 Q-loop/lid; other site 290400008215 ABC transporter signature motif; other site 290400008216 Walker B; other site 290400008217 D-loop; other site 290400008218 H-loop/switch region; other site 290400008219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400008220 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400008221 Walker A/P-loop; other site 290400008222 ATP binding site [chemical binding]; other site 290400008223 Q-loop/lid; other site 290400008224 ABC transporter signature motif; other site 290400008225 Walker B; other site 290400008226 D-loop; other site 290400008227 H-loop/switch region; other site 290400008228 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400008229 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 290400008230 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 290400008231 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 290400008232 hypothetical protein; Validated; Region: PRK08238 290400008233 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290400008234 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 290400008235 GtrA-like protein; Region: GtrA; pfam04138 290400008236 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400008237 FAD binding domain; Region: FAD_binding_4; pfam01565 290400008238 short chain dehydrogenase; Provisional; Region: PRK07102 290400008239 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 290400008240 NAD(P) binding site [chemical binding]; other site 290400008241 active site 290400008242 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 290400008243 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 290400008244 active site 290400008245 phosphorylation site [posttranslational modification] 290400008246 intermolecular recognition site; other site 290400008247 dimerization interface [polypeptide binding]; other site 290400008248 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 290400008249 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 290400008250 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 290400008251 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 290400008252 putative CheA interaction surface; other site 290400008253 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 290400008254 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 290400008255 putative binding surface; other site 290400008256 active site 290400008257 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 290400008258 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 290400008259 ATP binding site [chemical binding]; other site 290400008260 Mg2+ binding site [ion binding]; other site 290400008261 G-X-G motif; other site 290400008262 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 290400008263 Response regulator receiver domain; Region: Response_reg; pfam00072 290400008264 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 290400008265 active site 290400008266 phosphorylation site [posttranslational modification] 290400008267 intermolecular recognition site; other site 290400008268 dimerization interface [polypeptide binding]; other site 290400008269 STAS domain; Region: STAS_2; pfam13466 290400008270 CheB methylesterase; Region: CheB_methylest; pfam01339 290400008271 CheD chemotactic sensory transduction; Region: CheD; cl00810 290400008272 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 290400008273 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400008274 PYR/PP interface [polypeptide binding]; other site 290400008275 dimer interface [polypeptide binding]; other site 290400008276 TPP binding site [chemical binding]; other site 290400008277 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400008278 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 290400008279 TPP-binding site [chemical binding]; other site 290400008280 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 290400008281 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 290400008282 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 290400008283 inhibitor-cofactor binding pocket; inhibition site 290400008284 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400008285 catalytic residue [active] 290400008286 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400008287 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400008288 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 290400008289 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290400008290 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400008291 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 290400008292 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400008293 DNA-binding site [nucleotide binding]; DNA binding site 290400008294 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 290400008295 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400008296 homodimer interface [polypeptide binding]; other site 290400008297 catalytic residue [active] 290400008298 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 290400008299 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 290400008300 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400008301 catalytic residue [active] 290400008302 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 290400008303 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 290400008304 homodimer interface [polypeptide binding]; other site 290400008305 substrate-cofactor binding pocket; other site 290400008306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400008307 catalytic residue [active] 290400008308 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 290400008309 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 290400008310 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 290400008311 active site 290400008312 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 290400008313 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 290400008314 active site 290400008315 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 290400008316 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400008317 DNA-binding site [nucleotide binding]; DNA binding site 290400008318 UTRA domain; Region: UTRA; pfam07702 290400008319 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 290400008320 additional DNA contacts [nucleotide binding]; other site 290400008321 mismatch recognition site; other site 290400008322 active site 290400008323 zinc binding site [ion binding]; other site 290400008324 DNA intercalation site [nucleotide binding]; other site 290400008325 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290400008326 cofactor binding site; other site 290400008327 DNA binding site [nucleotide binding] 290400008328 substrate interaction site [chemical binding]; other site 290400008329 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290400008330 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 290400008331 Z1 domain; Region: Z1; pfam10593 290400008332 Helix-turn-helix domain; Region: HTH_17; cl17695 290400008333 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 290400008334 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 290400008335 active site 290400008336 catalytic residues [active] 290400008337 DNA binding site [nucleotide binding] 290400008338 Int/Topo IB signature motif; other site 290400008339 Domain of unknown function (DUF329); Region: DUF329; pfam03884 290400008340 Transglycosylase SLT domain; Region: SLT_2; pfam13406 290400008341 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 290400008342 N-acetyl-D-glucosamine binding site [chemical binding]; other site 290400008343 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400008344 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 290400008345 Maf-like protein; Region: Maf; pfam02545 290400008346 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 290400008347 active site 290400008348 dimer interface [polypeptide binding]; other site 290400008349 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 290400008350 rRNA binding site [nucleotide binding]; other site 290400008351 predicted 30S ribosome binding site; other site 290400008352 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 290400008353 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290400008354 putative active site [active] 290400008355 catalytic triad [active] 290400008356 putative dimer interface [polypeptide binding]; other site 290400008357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400008358 Coenzyme A binding pocket [chemical binding]; other site 290400008359 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; cd00531 290400008360 D-cysteine desulfhydrase; Validated; Region: PRK03910 290400008361 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 290400008362 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400008363 catalytic residue [active] 290400008364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400008365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400008366 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 290400008367 dimerization interface [polypeptide binding]; other site 290400008368 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290400008369 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 290400008370 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400008371 DctM-like transporters; Region: DctM; pfam06808 290400008372 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400008373 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 290400008374 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290400008375 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 290400008376 Low molecular weight phosphatase family; Region: LMWPc; cd00115 290400008377 active site 290400008378 hypothetical protein; Provisional; Region: PRK02853 290400008379 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 290400008380 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 290400008381 NAD binding site [chemical binding]; other site 290400008382 dimerization interface [polypeptide binding]; other site 290400008383 product binding site; other site 290400008384 substrate binding site [chemical binding]; other site 290400008385 zinc binding site [ion binding]; other site 290400008386 catalytic residues [active] 290400008387 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400008388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400008389 Coenzyme A binding pocket [chemical binding]; other site 290400008390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400008391 Coenzyme A binding pocket [chemical binding]; other site 290400008392 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 290400008393 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 290400008394 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 290400008395 hinge; other site 290400008396 active site 290400008397 Restriction endonuclease NotI; Region: NotI; pfam12183 290400008398 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 290400008399 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290400008400 cofactor binding site; other site 290400008401 DNA binding site [nucleotide binding] 290400008402 substrate interaction site [chemical binding]; other site 290400008403 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 290400008404 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 290400008405 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 290400008406 catalytic residues [active] 290400008407 catalytic nucleophile [active] 290400008408 Presynaptic Site I dimer interface [polypeptide binding]; other site 290400008409 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 290400008410 Synaptic Flat tetramer interface [polypeptide binding]; other site 290400008411 Synaptic Site I dimer interface [polypeptide binding]; other site 290400008412 DNA binding site [nucleotide binding] 290400008413 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 290400008414 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 290400008415 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 290400008416 active site 290400008417 Int/Topo IB signature motif; other site 290400008418 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400008419 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400008420 DNA binding site [nucleotide binding] 290400008421 domain linker motif; other site 290400008422 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290400008423 dimerization interface [polypeptide binding]; other site 290400008424 ligand binding site [chemical binding]; other site 290400008425 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400008426 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400008427 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 290400008428 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 290400008429 putative PBP binding loops; other site 290400008430 dimer interface [polypeptide binding]; other site 290400008431 ABC-ATPase subunit interface; other site 290400008432 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400008433 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 290400008434 dimer interface [polypeptide binding]; other site 290400008435 conserved gate region; other site 290400008436 putative PBP binding loops; other site 290400008437 ABC-ATPase subunit interface; other site 290400008438 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400008439 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400008440 Walker A/P-loop; other site 290400008441 ATP binding site [chemical binding]; other site 290400008442 Q-loop/lid; other site 290400008443 ABC transporter signature motif; other site 290400008444 Walker B; other site 290400008445 D-loop; other site 290400008446 H-loop/switch region; other site 290400008447 TOBE domain; Region: TOBE_2; pfam08402 290400008448 sorbitol dehydrogenase; Provisional; Region: PRK07067 290400008449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400008450 NAD(P) binding site [chemical binding]; other site 290400008451 active site 290400008452 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 290400008453 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 290400008454 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 290400008455 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400008456 salicylate hydroxylase; Provisional; Region: PRK08163 290400008457 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400008458 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400008459 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 290400008460 Cupin domain; Region: Cupin_2; pfam07883 290400008461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 290400008462 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 290400008463 AMP-binding domain protein; Validated; Region: PRK07529 290400008464 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400008465 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 290400008466 acyl-activating enzyme (AAE) consensus motif; other site 290400008467 putative AMP binding site [chemical binding]; other site 290400008468 putative active site [active] 290400008469 putative CoA binding site [chemical binding]; other site 290400008470 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 290400008471 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 290400008472 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400008473 Walker A/P-loop; other site 290400008474 ATP binding site [chemical binding]; other site 290400008475 Q-loop/lid; other site 290400008476 ABC transporter signature motif; other site 290400008477 Walker B; other site 290400008478 D-loop; other site 290400008479 H-loop/switch region; other site 290400008480 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400008481 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400008482 DNA-binding site [nucleotide binding]; DNA binding site 290400008483 FCD domain; Region: FCD; pfam07729 290400008484 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 290400008485 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 290400008486 catalytic triad [active] 290400008487 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400008488 Cytochrome P450; Region: p450; cl12078 290400008489 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 290400008490 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 290400008491 PAS fold; Region: PAS_4; pfam08448 290400008492 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400008493 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400008494 metal binding site [ion binding]; metal-binding site 290400008495 active site 290400008496 I-site; other site 290400008497 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 290400008498 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 290400008499 active site 290400008500 SAM binding site [chemical binding]; other site 290400008501 homodimer interface [polypeptide binding]; other site 290400008502 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290400008503 active site 290400008504 SAM binding site [chemical binding]; other site 290400008505 homodimer interface [polypeptide binding]; other site 290400008506 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 290400008507 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 290400008508 conserved cys residue [active] 290400008509 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 290400008510 active site 290400008511 SAM binding site [chemical binding]; other site 290400008512 homodimer interface [polypeptide binding]; other site 290400008513 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 290400008514 active site 290400008515 putative homodimer interface [polypeptide binding]; other site 290400008516 SAM binding site [chemical binding]; other site 290400008517 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 290400008518 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 290400008519 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 290400008520 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 290400008521 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 290400008522 active site 290400008523 SAM binding site [chemical binding]; other site 290400008524 homodimer interface [polypeptide binding]; other site 290400008525 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 290400008526 active site 290400008527 SAM binding site [chemical binding]; other site 290400008528 homodimer interface [polypeptide binding]; other site 290400008529 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 290400008530 Precorrin-8X methylmutase; Region: CbiC; pfam02570 290400008531 precorrin-3B synthase; Region: CobG; TIGR02435 290400008532 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290400008533 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 290400008534 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 290400008535 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 290400008536 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 290400008537 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 290400008538 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 290400008539 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 290400008540 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 290400008541 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 290400008542 homodimer interface [polypeptide binding]; other site 290400008543 Walker A motif; other site 290400008544 ATP binding site [chemical binding]; other site 290400008545 hydroxycobalamin binding site [chemical binding]; other site 290400008546 Walker B motif; other site 290400008547 Cupin domain; Region: Cupin_2; cl17218 290400008548 cobyric acid synthase; Provisional; Region: PRK00784 290400008549 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 290400008550 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 290400008551 catalytic triad [active] 290400008552 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 290400008553 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 290400008554 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 290400008555 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 290400008556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400008557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400008558 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 290400008559 dimerization interface [polypeptide binding]; other site 290400008560 DctM-like transporters; Region: DctM; pfam06808 290400008561 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400008562 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400008563 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400008564 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 290400008565 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 290400008566 putative active site [active] 290400008567 putative catalytic site [active] 290400008568 Cupin domain; Region: Cupin_2; pfam07883 290400008569 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 290400008570 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400008571 C-terminal domain interface [polypeptide binding]; other site 290400008572 GSH binding site (G-site) [chemical binding]; other site 290400008573 dimer interface [polypeptide binding]; other site 290400008574 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 290400008575 dimer interface [polypeptide binding]; other site 290400008576 substrate binding pocket (H-site) [chemical binding]; other site 290400008577 N-terminal domain interface [polypeptide binding]; other site 290400008578 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400008579 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400008580 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400008581 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290400008582 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 290400008583 catalytic loop [active] 290400008584 iron binding site [ion binding]; other site 290400008585 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400008586 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 290400008587 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 290400008588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400008589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400008590 OsmC-like protein; Region: OsmC; pfam02566 290400008591 Putative cyclase; Region: Cyclase; pfam04199 290400008592 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400008593 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 290400008594 putative C-terminal domain interface [polypeptide binding]; other site 290400008595 putative GSH binding site (G-site) [chemical binding]; other site 290400008596 putative dimer interface [polypeptide binding]; other site 290400008597 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 290400008598 N-terminal domain interface [polypeptide binding]; other site 290400008599 dimer interface [polypeptide binding]; other site 290400008600 substrate binding pocket (H-site) [chemical binding]; other site 290400008601 hypothetical protein; Provisional; Region: PRK07236 290400008602 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400008603 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400008604 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400008605 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 290400008606 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 290400008607 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 290400008608 gating phenylalanine in ion channel; other site 290400008609 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 290400008610 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 290400008611 active site 290400008612 metal binding site [ion binding]; metal-binding site 290400008613 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 290400008614 Protein of unknown function (DUF952); Region: DUF952; pfam06108 290400008615 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 290400008616 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 290400008617 quinone interaction residues [chemical binding]; other site 290400008618 active site 290400008619 catalytic residues [active] 290400008620 FMN binding site [chemical binding]; other site 290400008621 substrate binding site [chemical binding]; other site 290400008622 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 290400008623 ArsC family; Region: ArsC; pfam03960 290400008624 catalytic residues [active] 290400008625 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 290400008626 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 290400008627 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 290400008628 CoenzymeA binding site [chemical binding]; other site 290400008629 subunit interaction site [polypeptide binding]; other site 290400008630 PHB binding site; other site 290400008631 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 290400008632 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 290400008633 CoenzymeA binding site [chemical binding]; other site 290400008634 subunit interaction site [polypeptide binding]; other site 290400008635 PHB binding site; other site 290400008636 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 290400008637 DNA binding residues [nucleotide binding] 290400008638 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290400008639 putative dimer interface [polypeptide binding]; other site 290400008640 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 290400008641 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 290400008642 DNA binding residues [nucleotide binding] 290400008643 putative dimer interface [polypeptide binding]; other site 290400008644 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 290400008645 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 290400008646 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 290400008647 FAD binding site [chemical binding]; other site 290400008648 substrate binding site [chemical binding]; other site 290400008649 catalytic residues [active] 290400008650 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 290400008651 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400008652 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 290400008653 putative C-terminal domain interface [polypeptide binding]; other site 290400008654 putative GSH binding site (G-site) [chemical binding]; other site 290400008655 putative dimer interface [polypeptide binding]; other site 290400008656 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 290400008657 N-terminal domain interface [polypeptide binding]; other site 290400008658 dimer interface [polypeptide binding]; other site 290400008659 substrate binding pocket (H-site) [chemical binding]; other site 290400008660 Haemolytic domain; Region: Haemolytic; cl00506 290400008661 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 290400008662 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 290400008663 dimer interface [polypeptide binding]; other site 290400008664 active site 290400008665 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 290400008666 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 290400008667 substrate binding site [chemical binding]; other site 290400008668 oxyanion hole (OAH) forming residues; other site 290400008669 trimer interface [polypeptide binding]; other site 290400008670 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290400008671 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400008672 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400008673 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 290400008674 acyl-CoA synthetase; Validated; Region: PRK08162 290400008675 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 290400008676 acyl-activating enzyme (AAE) consensus motif; other site 290400008677 putative active site [active] 290400008678 AMP binding site [chemical binding]; other site 290400008679 putative CoA binding site [chemical binding]; other site 290400008680 Sporulation related domain; Region: SPOR; pfam05036 290400008681 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400008682 active site 290400008683 adenosine deaminase; Provisional; Region: PRK09358 290400008684 active site 290400008685 phosphopentomutase; Provisional; Region: PRK05362 290400008686 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 290400008687 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 290400008688 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290400008689 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290400008690 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 290400008691 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 290400008692 active site 290400008693 catalytic motif [active] 290400008694 Zn binding site [ion binding]; other site 290400008695 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400008696 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 290400008697 ATP binding site [chemical binding]; other site 290400008698 Mg2+ binding site [ion binding]; other site 290400008699 G-X-G motif; other site 290400008700 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290400008701 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 290400008702 active site 290400008703 phosphorylation site [posttranslational modification] 290400008704 intermolecular recognition site; other site 290400008705 dimerization interface [polypeptide binding]; other site 290400008706 malic enzyme; Reviewed; Region: PRK12862 290400008707 Malic enzyme, N-terminal domain; Region: malic; pfam00390 290400008708 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 290400008709 putative NAD(P) binding site [chemical binding]; other site 290400008710 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 290400008711 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 290400008712 ATP-NAD kinase; Region: NAD_kinase; pfam01513 290400008713 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 290400008714 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 290400008715 dimer interface [polypeptide binding]; other site 290400008716 active site 290400008717 glycine-pyridoxal phosphate binding site [chemical binding]; other site 290400008718 folate binding site [chemical binding]; other site 290400008719 yiaA/B two helix domain; Region: YiaAB; cl01759 290400008720 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 290400008721 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400008722 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400008723 WHG domain; Region: WHG; pfam13305 290400008724 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 290400008725 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 290400008726 putative di-iron ligands [ion binding]; other site 290400008727 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400008728 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400008729 homoserine dehydrogenase; Provisional; Region: PRK06349 290400008730 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 290400008731 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 290400008732 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 290400008733 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 290400008734 putative active site [active] 290400008735 putative metal binding site [ion binding]; other site 290400008736 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 290400008737 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 290400008738 putative active site [active] 290400008739 Isochorismatase family; Region: Isochorismatase; pfam00857 290400008740 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 290400008741 catalytic triad [active] 290400008742 conserved cis-peptide bond; other site 290400008743 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 290400008744 DHH family; Region: DHH; pfam01368 290400008745 DHHA1 domain; Region: DHHA1; pfam02272 290400008746 Transposase domain (DUF772); Region: DUF772; pfam05598 290400008747 Integrase core domain; Region: rve; pfam00665 290400008748 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 290400008749 Bacterial TniB protein; Region: TniB; pfam05621 290400008750 AAA domain; Region: AAA_22; pfam13401 290400008751 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 290400008752 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 290400008753 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 290400008754 putative active site [active] 290400008755 Integrase core domain; Region: rve; pfam00665 290400008756 Domain of unknown function (DUF4150); Region: DUF4150; pfam13665 290400008757 Uncharacterized protein conserved in bacteria (DUF2169); Region: DUF2169; pfam09937 290400008758 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 290400008759 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 290400008760 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 290400008761 Protein of unknown function (DUF796); Region: DUF796; pfam05638 290400008762 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 290400008763 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 290400008764 Walker A motif; other site 290400008765 ATP binding site [chemical binding]; other site 290400008766 Walker B motif; other site 290400008767 arginine finger; other site 290400008768 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 290400008769 Walker A motif; other site 290400008770 ATP binding site [chemical binding]; other site 290400008771 Walker B motif; other site 290400008772 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 290400008773 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 290400008774 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 290400008775 Protein of unknown function (DUF770); Region: DUF770; pfam05591 290400008776 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 290400008777 Protein of unknown function (DUF877); Region: DUF877; pfam05943 290400008778 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 290400008779 Protein of unknown function (DUF877); Region: DUF877; pfam05943 290400008780 Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]; Region: ImpE; COG4455 290400008781 ImpE protein; Region: ImpE; pfam07024 290400008782 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 290400008783 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 290400008784 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 290400008785 type VI secretion protein, VC_A0111 family; Region: VI_chp_1; TIGR03347 290400008786 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 290400008787 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 290400008788 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 290400008789 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400008790 ligand binding site [chemical binding]; other site 290400008791 type VI secretion protein IcmF; Region: VI_IcmF; TIGR03348 290400008792 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 290400008793 G1 box; other site 290400008794 GTP/Mg2+ binding site [chemical binding]; other site 290400008795 G2 box; other site 290400008796 G3 box; other site 290400008797 Switch II region; other site 290400008798 G4 box; other site 290400008799 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 290400008800 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 290400008801 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; pfam09867 290400008802 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 290400008803 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 290400008804 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 290400008805 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 290400008806 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 290400008807 active site 290400008808 phosphorylation site [posttranslational modification] 290400008809 intermolecular recognition site; other site 290400008810 dimerization interface [polypeptide binding]; other site 290400008811 ANTAR domain; Region: ANTAR; pfam03861 290400008812 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290400008813 NMT1-like family; Region: NMT1_2; pfam13379 290400008814 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 290400008815 NMT1-like family; Region: NMT1_2; pfam13379 290400008816 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 290400008817 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400008818 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 290400008819 dimer interface [polypeptide binding]; other site 290400008820 conserved gate region; other site 290400008821 putative PBP binding loops; other site 290400008822 ABC-ATPase subunit interface; other site 290400008823 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400008824 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400008825 Walker A/P-loop; other site 290400008826 ATP binding site [chemical binding]; other site 290400008827 Q-loop/lid; other site 290400008828 ABC transporter signature motif; other site 290400008829 Walker B; other site 290400008830 D-loop; other site 290400008831 H-loop/switch region; other site 290400008832 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400008833 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 290400008834 Walker A/P-loop; other site 290400008835 ATP binding site [chemical binding]; other site 290400008836 Q-loop/lid; other site 290400008837 ABC transporter signature motif; other site 290400008838 Walker B; other site 290400008839 D-loop; other site 290400008840 H-loop/switch region; other site 290400008841 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 290400008842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400008843 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290400008844 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 290400008845 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 290400008846 [2Fe-2S] cluster binding site [ion binding]; other site 290400008847 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 290400008848 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 290400008849 [4Fe-4S] binding site [ion binding]; other site 290400008850 molybdopterin cofactor binding site; other site 290400008851 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 290400008852 molybdopterin cofactor binding site; other site 290400008853 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 290400008854 hypothetical protein; Validated; Region: PRK09071 290400008855 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 290400008856 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 290400008857 siroheme synthase; Provisional; Region: cysG; PRK10637 290400008858 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 290400008859 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 290400008860 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 290400008861 active site 290400008862 SAM binding site [chemical binding]; other site 290400008863 homodimer interface [polypeptide binding]; other site 290400008864 Fic family protein [Function unknown]; Region: COG3177 290400008865 Beta-lactamase; Region: Beta-lactamase; pfam00144 290400008866 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290400008867 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290400008868 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 290400008869 peptide binding site [polypeptide binding]; other site 290400008870 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 290400008871 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 290400008872 dimer interface [polypeptide binding]; other site 290400008873 conserved gate region; other site 290400008874 putative PBP binding loops; other site 290400008875 ABC-ATPase subunit interface; other site 290400008876 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 290400008877 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 290400008878 dimer interface [polypeptide binding]; other site 290400008879 conserved gate region; other site 290400008880 putative PBP binding loops; other site 290400008881 ABC-ATPase subunit interface; other site 290400008882 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 290400008883 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400008884 Walker A/P-loop; other site 290400008885 ATP binding site [chemical binding]; other site 290400008886 Q-loop/lid; other site 290400008887 ABC transporter signature motif; other site 290400008888 Walker B; other site 290400008889 D-loop; other site 290400008890 H-loop/switch region; other site 290400008891 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400008892 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 290400008893 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400008894 Walker A/P-loop; other site 290400008895 ATP binding site [chemical binding]; other site 290400008896 Q-loop/lid; other site 290400008897 ABC transporter signature motif; other site 290400008898 Walker B; other site 290400008899 D-loop; other site 290400008900 H-loop/switch region; other site 290400008901 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400008902 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400008903 Coenzyme A binding pocket [chemical binding]; other site 290400008904 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 290400008905 Integrase core domain; Region: rve_3; cl15866 290400008906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400008907 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400008908 TM-ABC transporter signature motif; other site 290400008909 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400008910 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400008911 Walker A/P-loop; other site 290400008912 ATP binding site [chemical binding]; other site 290400008913 Q-loop/lid; other site 290400008914 ABC transporter signature motif; other site 290400008915 Walker B; other site 290400008916 D-loop; other site 290400008917 H-loop/switch region; other site 290400008918 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400008919 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400008920 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400008921 TM-ABC transporter signature motif; other site 290400008922 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400008923 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 290400008924 ligand binding site [chemical binding]; other site 290400008925 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400008926 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400008927 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400008928 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 290400008929 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 290400008930 dimer interface [polypeptide binding]; other site 290400008931 active site 290400008932 catalytic residue [active] 290400008933 metal binding site [ion binding]; metal-binding site 290400008934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 290400008935 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 290400008936 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 290400008937 Metal-binding active site; metal-binding site 290400008938 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 290400008939 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290400008940 transcriptional regulator NanR; Provisional; Region: PRK03837 290400008941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400008942 DNA-binding site [nucleotide binding]; DNA binding site 290400008943 FCD domain; Region: FCD; pfam07729 290400008944 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 290400008945 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400008946 FAD binding site [chemical binding]; other site 290400008947 substrate binding pocket [chemical binding]; other site 290400008948 catalytic base [active] 290400008949 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 290400008950 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 290400008951 inhibitor-cofactor binding pocket; inhibition site 290400008952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400008953 catalytic residue [active] 290400008954 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 290400008955 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400008956 NAD(P)+ dependent aldehyde dehydrogenase family; Region: ALDH; cd07078 290400008957 NAD(P) binding site [chemical binding]; other site 290400008958 catalytic residues [active] 290400008959 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400008960 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 290400008961 dimer interface [polypeptide binding]; other site 290400008962 conserved gate region; other site 290400008963 putative PBP binding loops; other site 290400008964 ABC-ATPase subunit interface; other site 290400008965 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400008966 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 290400008967 dimer interface [polypeptide binding]; other site 290400008968 putative PBP binding loops; other site 290400008969 ABC-ATPase subunit interface; other site 290400008970 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400008971 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400008972 Walker A/P-loop; other site 290400008973 ATP binding site [chemical binding]; other site 290400008974 Q-loop/lid; other site 290400008975 ABC transporter signature motif; other site 290400008976 Walker B; other site 290400008977 D-loop; other site 290400008978 H-loop/switch region; other site 290400008979 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400008980 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 290400008981 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 290400008982 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 290400008983 Walker A motif; other site 290400008984 ATP binding site [chemical binding]; other site 290400008985 Walker B motif; other site 290400008986 arginine finger; other site 290400008987 PAS domain S-box; Region: sensory_box; TIGR00229 290400008988 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 290400008989 putative active site [active] 290400008990 heme pocket [chemical binding]; other site 290400008991 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 290400008992 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 290400008993 homotrimer interaction site [polypeptide binding]; other site 290400008994 putative active site [active] 290400008995 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 290400008996 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 290400008997 tetramer interface [polypeptide binding]; other site 290400008998 TPP-binding site [chemical binding]; other site 290400008999 heterodimer interface [polypeptide binding]; other site 290400009000 phosphorylation loop region [posttranslational modification] 290400009001 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 290400009002 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 290400009003 alpha subunit interface [polypeptide binding]; other site 290400009004 TPP binding site [chemical binding]; other site 290400009005 heterodimer interface [polypeptide binding]; other site 290400009006 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 290400009007 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400009008 DctM-like transporters; Region: DctM; pfam06808 290400009009 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400009010 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 290400009011 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400009012 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 290400009013 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 290400009014 PAS fold; Region: PAS_3; pfam08447 290400009015 putative active site [active] 290400009016 heme pocket [chemical binding]; other site 290400009017 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400009018 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 290400009019 DNA binding residues [nucleotide binding] 290400009020 dimerization interface [polypeptide binding]; other site 290400009021 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 290400009022 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 290400009023 ligand binding site [chemical binding]; other site 290400009024 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400009025 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400009026 Walker A/P-loop; other site 290400009027 ATP binding site [chemical binding]; other site 290400009028 Q-loop/lid; other site 290400009029 ABC transporter signature motif; other site 290400009030 Walker B; other site 290400009031 D-loop; other site 290400009032 H-loop/switch region; other site 290400009033 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400009034 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400009035 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400009036 TM-ABC transporter signature motif; other site 290400009037 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 290400009038 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 290400009039 substrate binding site [chemical binding]; other site 290400009040 dimer interface [polypeptide binding]; other site 290400009041 ATP binding site [chemical binding]; other site 290400009042 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400009043 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400009044 DNA binding site [nucleotide binding] 290400009045 domain linker motif; other site 290400009046 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 290400009047 dimerization interface [polypeptide binding]; other site 290400009048 ligand binding site [chemical binding]; other site 290400009049 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 290400009050 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 290400009051 TM-ABC transporter signature motif; other site 290400009052 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 290400009053 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 290400009054 Walker A/P-loop; other site 290400009055 ATP binding site [chemical binding]; other site 290400009056 Q-loop/lid; other site 290400009057 ABC transporter signature motif; other site 290400009058 Walker B; other site 290400009059 D-loop; other site 290400009060 H-loop/switch region; other site 290400009061 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 290400009062 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 290400009063 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 290400009064 ligand binding site [chemical binding]; other site 290400009065 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290400009066 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400009067 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400009068 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400009069 L-arabinose isomerase [Carbohydrate transport and metabolism]; Region: AraA; COG2160 290400009070 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cd00578 290400009071 hexamer (dimer of trimers) interface [polypeptide binding]; other site 290400009072 trimer interface [polypeptide binding]; other site 290400009073 substrate binding site [chemical binding]; other site 290400009074 Mn binding site [ion binding]; other site 290400009075 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 290400009076 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290400009077 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400009078 Cupin domain; Region: Cupin_2; cl17218 290400009079 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400009080 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400009081 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400009082 Predicted transcriptional regulators [Transcription]; Region: COG1733 290400009083 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290400009084 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 290400009085 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400009086 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400009087 WHG domain; Region: WHG; pfam13305 290400009088 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290400009089 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290400009090 Walker A/P-loop; other site 290400009091 ATP binding site [chemical binding]; other site 290400009092 Q-loop/lid; other site 290400009093 ABC transporter signature motif; other site 290400009094 Walker B; other site 290400009095 D-loop; other site 290400009096 H-loop/switch region; other site 290400009097 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290400009098 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 290400009099 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 290400009100 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 290400009101 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 290400009102 intersubunit interface [polypeptide binding]; other site 290400009103 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 290400009104 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 290400009105 active site 290400009106 catalytic site [active] 290400009107 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 290400009108 glycogen branching enzyme; Provisional; Region: PRK12313 290400009109 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 290400009110 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 290400009111 active site 290400009112 catalytic site [active] 290400009113 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 290400009114 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 290400009115 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 290400009116 ligand binding site; other site 290400009117 oligomer interface; other site 290400009118 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 290400009119 dimer interface [polypeptide binding]; other site 290400009120 N-terminal domain interface [polypeptide binding]; other site 290400009121 sulfate 1 binding site; other site 290400009122 glycogen synthase; Provisional; Region: glgA; PRK00654 290400009123 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 290400009124 ADP-binding pocket [chemical binding]; other site 290400009125 homodimer interface [polypeptide binding]; other site 290400009126 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 290400009127 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 290400009128 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 290400009129 active site 290400009130 catalytic site [active] 290400009131 phosphoglucomutase; Region: PLN02307 290400009132 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 290400009133 active site 290400009134 substrate binding site [chemical binding]; other site 290400009135 metal binding site [ion binding]; metal-binding site 290400009136 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 290400009137 homodimer interface [polypeptide binding]; other site 290400009138 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 290400009139 active site pocket [active] 290400009140 malonyl-CoA synthase; Validated; Region: PRK07514 290400009141 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 290400009142 acyl-activating enzyme (AAE) consensus motif; other site 290400009143 active site 290400009144 AMP binding site [chemical binding]; other site 290400009145 CoA binding site [chemical binding]; other site 290400009146 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 290400009147 iron-sulfur cluster [ion binding]; other site 290400009148 [2Fe-2S] cluster binding site [ion binding]; other site 290400009149 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 290400009150 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 290400009151 PYR/PP interface [polypeptide binding]; other site 290400009152 dimer interface [polypeptide binding]; other site 290400009153 tetramer interface [polypeptide binding]; other site 290400009154 TPP binding site [chemical binding]; other site 290400009155 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400009156 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 290400009157 TPP-binding site [chemical binding]; other site 290400009158 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 290400009159 iron-sulfur cluster [ion binding]; other site 290400009160 [2Fe-2S] cluster binding site [ion binding]; other site 290400009161 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 290400009162 active site 290400009163 FMN binding site [chemical binding]; other site 290400009164 substrate binding site [chemical binding]; other site 290400009165 3Fe-4S cluster binding site [ion binding]; other site 290400009166 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 290400009167 iron-sulfur cluster [ion binding]; other site 290400009168 [2Fe-2S] cluster binding site [ion binding]; other site 290400009169 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 290400009170 ABC1 family; Region: ABC1; cl17513 290400009171 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400009172 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400009173 metal binding site [ion binding]; metal-binding site 290400009174 active site 290400009175 I-site; other site 290400009176 Heme NO binding; Region: HNOB; pfam07700 290400009177 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 290400009178 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 290400009179 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 290400009180 motif II; other site 290400009181 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 290400009182 response regulator PleD; Reviewed; Region: pleD; PRK09581 290400009183 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 290400009184 active site 290400009185 phosphorylation site [posttranslational modification] 290400009186 intermolecular recognition site; other site 290400009187 dimerization interface [polypeptide binding]; other site 290400009188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 290400009189 active site 290400009190 phosphorylation site [posttranslational modification] 290400009191 intermolecular recognition site; other site 290400009192 dimerization interface [polypeptide binding]; other site 290400009193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400009194 metal binding site [ion binding]; metal-binding site 290400009195 active site 290400009196 I-site; other site 290400009197 Heavy-metal resistance; Region: Metal_resist; pfam13801 290400009198 RNA polymerase sigma factor; Provisional; Region: PRK12524 290400009199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400009200 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 290400009201 DNA binding residues [nucleotide binding] 290400009202 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 290400009203 Ca2+ binding site [ion binding]; other site 290400009204 Protein of unknown function (DUF983); Region: DUF983; cl02211 290400009205 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 290400009206 nudix motif; other site 290400009207 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 290400009208 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290400009209 putative di-iron ligands [ion binding]; other site 290400009210 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 290400009211 non-specific DNA binding site [nucleotide binding]; other site 290400009212 salt bridge; other site 290400009213 sequence-specific DNA binding site [nucleotide binding]; other site 290400009214 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 290400009215 active site 290400009216 catalytic triad [active] 290400009217 oxyanion hole [active] 290400009218 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 290400009219 active site 290400009220 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 290400009221 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 290400009222 active site 290400009223 catalytic tetrad [active] 290400009224 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 290400009225 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400009226 putative substrate translocation pore; other site 290400009227 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290400009228 Beta-lactamase; Region: Beta-lactamase; pfam00144 290400009229 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 290400009230 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 290400009231 active site 290400009232 HIGH motif; other site 290400009233 KMSKS motif; other site 290400009234 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 290400009235 tRNA binding surface [nucleotide binding]; other site 290400009236 anticodon binding site; other site 290400009237 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 290400009238 FAD binding domain; Region: FAD_binding_4; pfam01565 290400009239 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290400009240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400009241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290400009242 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290400009243 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290400009244 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 290400009245 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 290400009246 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400009247 catalytic residue [active] 290400009248 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 290400009249 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 290400009250 Subunit III/VIIa interface [polypeptide binding]; other site 290400009251 Phospholipid binding site [chemical binding]; other site 290400009252 Subunit I/III interface [polypeptide binding]; other site 290400009253 Subunit III/VIb interface [polypeptide binding]; other site 290400009254 Subunit III/VIa interface; other site 290400009255 Subunit III/Vb interface [polypeptide binding]; other site 290400009256 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 290400009257 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 290400009258 UbiA prenyltransferase family; Region: UbiA; pfam01040 290400009259 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 290400009260 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 290400009261 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 290400009262 protease TldD; Provisional; Region: tldD; PRK10735 290400009263 DNA protecting protein DprA; Region: dprA; TIGR00732 290400009264 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 290400009265 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 290400009266 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 290400009267 active site 290400009268 interdomain interaction site; other site 290400009269 putative metal-binding site [ion binding]; other site 290400009270 nucleotide binding site [chemical binding]; other site 290400009271 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 290400009272 domain I; other site 290400009273 DNA binding groove [nucleotide binding] 290400009274 phosphate binding site [ion binding]; other site 290400009275 domain II; other site 290400009276 domain III; other site 290400009277 nucleotide binding site [chemical binding]; other site 290400009278 catalytic site [active] 290400009279 domain IV; other site 290400009280 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 290400009281 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 290400009282 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 290400009283 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 290400009284 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 290400009285 putative FMN binding site [chemical binding]; other site 290400009286 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 290400009287 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 290400009288 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400009289 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 290400009290 dimer interface [polypeptide binding]; other site 290400009291 substrate binding site [chemical binding]; other site 290400009292 metal binding site [ion binding]; metal-binding site 290400009293 Response regulator receiver domain; Region: Response_reg; pfam00072 290400009294 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 290400009295 active site 290400009296 phosphorylation site [posttranslational modification] 290400009297 intermolecular recognition site; other site 290400009298 dimerization interface [polypeptide binding]; other site 290400009299 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 290400009300 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 290400009301 dimer interface [polypeptide binding]; other site 290400009302 anticodon binding site; other site 290400009303 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400009304 motif 1; other site 290400009305 dimer interface [polypeptide binding]; other site 290400009306 active site 290400009307 motif 2; other site 290400009308 GAD domain; Region: GAD; pfam02938 290400009309 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 290400009310 active site 290400009311 motif 3; other site 290400009312 Family description; Region: VCBS; pfam13517 290400009313 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 290400009314 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 290400009315 catalytic loop [active] 290400009316 iron binding site [ion binding]; other site 290400009317 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400009318 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 290400009319 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290400009320 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 290400009321 protein binding site [polypeptide binding]; other site 290400009322 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 290400009323 protein binding site [polypeptide binding]; other site 290400009324 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 290400009325 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 290400009326 HflC protein; Region: hflC; TIGR01932 290400009327 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 290400009328 HflK protein; Region: hflK; TIGR01933 290400009329 glutathione reductase; Validated; Region: PRK06116 290400009330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400009331 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 290400009332 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 290400009333 tetramer (dimer of dimers) interface [polypeptide binding]; other site 290400009334 active site 290400009335 dimer interface [polypeptide binding]; other site 290400009336 Thiamine pyrophosphokinase; Region: TPK; cd07995 290400009337 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 290400009338 active site 290400009339 dimerization interface [polypeptide binding]; other site 290400009340 thiamine binding site [chemical binding]; other site 290400009341 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 290400009342 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 290400009343 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 290400009344 GDP-binding site [chemical binding]; other site 290400009345 ACT binding site; other site 290400009346 IMP binding site; other site 290400009347 Preprotein translocase SecG subunit; Region: SecG; pfam03840 290400009348 CTP synthetase; Validated; Region: pyrG; PRK05380 290400009349 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 290400009350 Catalytic site [active] 290400009351 active site 290400009352 UTP binding site [chemical binding]; other site 290400009353 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 290400009354 active site 290400009355 putative oxyanion hole; other site 290400009356 catalytic triad [active] 290400009357 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 290400009358 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 290400009359 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 290400009360 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400009361 catalytic residue [active] 290400009362 phosphoglycolate phosphatase; Provisional; Region: PRK13222 290400009363 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 290400009364 motif II; other site 290400009365 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 290400009366 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 290400009367 Substrate binding site; other site 290400009368 Mg++ binding site; other site 290400009369 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 290400009370 active site 290400009371 substrate binding site [chemical binding]; other site 290400009372 CoA binding site [chemical binding]; other site 290400009373 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 290400009374 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 290400009375 glutaminase active site [active] 290400009376 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 290400009377 dimer interface [polypeptide binding]; other site 290400009378 active site 290400009379 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 290400009380 dimer interface [polypeptide binding]; other site 290400009381 active site 290400009382 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290400009383 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400009384 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 290400009385 A new structural DNA glycosylase; Region: AlkD_like; cd06561 290400009386 active site 290400009387 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 290400009388 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 290400009389 tetramer interface [polypeptide binding]; other site 290400009390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400009391 catalytic residue [active] 290400009392 C factor cell-cell signaling protein; Provisional; Region: PRK09009 290400009393 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 290400009394 NADP binding site [chemical binding]; other site 290400009395 homodimer interface [polypeptide binding]; other site 290400009396 active site 290400009397 aspartate kinase; Reviewed; Region: PRK06635 290400009398 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 290400009399 putative nucleotide binding site [chemical binding]; other site 290400009400 putative catalytic residues [active] 290400009401 putative Mg ion binding site [ion binding]; other site 290400009402 putative aspartate binding site [chemical binding]; other site 290400009403 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 290400009404 putative allosteric regulatory site; other site 290400009405 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 290400009406 putative allosteric regulatory residue; other site 290400009407 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 290400009408 Autoinducer binding domain; Region: Autoind_bind; pfam03472 290400009409 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400009410 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 290400009411 DNA binding residues [nucleotide binding] 290400009412 dimerization interface [polypeptide binding]; other site 290400009413 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 290400009414 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 290400009415 Cu(I) binding site [ion binding]; other site 290400009416 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 290400009417 active site residue [active] 290400009418 Predicted esterase [General function prediction only]; Region: COG0400 290400009419 glucosyltransferase MdoH; Provisional; Region: PRK05454 290400009420 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 290400009421 active site 290400009422 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 290400009423 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 290400009424 OpgC protein; Region: OpgC_C; pfam10129 290400009425 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 290400009426 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290400009427 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290400009428 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 290400009429 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400009430 PYR/PP interface [polypeptide binding]; other site 290400009431 dimer interface [polypeptide binding]; other site 290400009432 TPP binding site [chemical binding]; other site 290400009433 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400009434 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 290400009435 TPP-binding site [chemical binding]; other site 290400009436 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 290400009437 GAF domain; Region: GAF; pfam01590 290400009438 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 290400009439 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 290400009440 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 290400009441 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 290400009442 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 290400009443 high affinity sulphate transporter 1; Region: sulP; TIGR00815 290400009444 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 290400009445 Sulfate transporter family; Region: Sulfate_transp; pfam00916 290400009446 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 290400009447 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 290400009448 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400009449 Coenzyme A binding pocket [chemical binding]; other site 290400009450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400009451 active site 290400009452 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 290400009453 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 290400009454 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 290400009455 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 290400009456 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290400009457 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290400009458 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290400009459 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400009460 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 290400009461 putative substrate translocation pore; other site 290400009462 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400009463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400009464 metal binding site [ion binding]; metal-binding site 290400009465 active site 290400009466 I-site; other site 290400009467 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 290400009468 Transposase; Region: HTH_Tnp_1; pfam01527 290400009469 HTH-like domain; Region: HTH_21; pfam13276 290400009470 Integrase core domain; Region: rve; pfam00665 290400009471 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 290400009472 AAA domain; Region: AAA_30; pfam13604 290400009473 MobA/MobL family; Region: MobA_MobL; pfam03389 290400009474 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400009475 Conjugal transfer protein TraD; Region: TraD; pfam06412 290400009476 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 290400009477 active site 290400009478 DNA binding site [nucleotide binding] 290400009479 Int/Topo IB signature motif; other site 290400009480 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 290400009481 active site 290400009482 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 290400009483 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 290400009484 active site 290400009485 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 290400009486 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400009487 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 290400009488 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 290400009489 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 290400009490 dimer interface [polypeptide binding]; other site 290400009491 conserved gate region; other site 290400009492 putative PBP binding loops; other site 290400009493 ABC-ATPase subunit interface; other site 290400009494 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400009495 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 290400009496 dimer interface [polypeptide binding]; other site 290400009497 conserved gate region; other site 290400009498 putative PBP binding loops; other site 290400009499 ABC-ATPase subunit interface; other site 290400009500 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 290400009501 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400009502 Walker A/P-loop; other site 290400009503 ATP binding site [chemical binding]; other site 290400009504 Q-loop/lid; other site 290400009505 ABC transporter signature motif; other site 290400009506 Walker B; other site 290400009507 D-loop; other site 290400009508 H-loop/switch region; other site 290400009509 TOBE domain; Region: TOBE_2; pfam08402 290400009510 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 290400009511 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 290400009512 active site 290400009513 putative substrate binding pocket [chemical binding]; other site 290400009514 hypothetical protein; Validated; Region: PRK09104 290400009515 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 290400009516 metal binding site [ion binding]; metal-binding site 290400009517 putative dimer interface [polypeptide binding]; other site 290400009518 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 290400009519 active site 290400009520 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290400009521 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 290400009522 metal binding site [ion binding]; metal-binding site 290400009523 putative dimer interface [polypeptide binding]; other site 290400009524 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 290400009525 active site 290400009526 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 290400009527 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 290400009528 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 290400009529 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 290400009530 FeS/SAM binding site; other site 290400009531 HemN C-terminal domain; Region: HemN_C; pfam06969 290400009532 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 290400009533 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 290400009534 active site 290400009535 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 290400009536 DctM-like transporters; Region: DctM; pfam06808 290400009537 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400009538 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 290400009539 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290400009540 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400009541 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400009542 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400009543 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 290400009544 dimerization interface [polypeptide binding]; other site 290400009545 substrate binding pocket [chemical binding]; other site 290400009546 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 290400009547 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 290400009548 active site 290400009549 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 290400009550 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 290400009551 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 290400009552 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290400009553 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 290400009554 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 290400009555 elongation factor P; Validated; Region: PRK00529 290400009556 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 290400009557 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 290400009558 RNA binding site [nucleotide binding]; other site 290400009559 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 290400009560 RNA binding site [nucleotide binding]; other site 290400009561 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 290400009562 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 290400009563 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 290400009564 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400009565 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 290400009566 N- and C-terminal domain interface [polypeptide binding]; other site 290400009567 D-xylulose kinase; Region: XylB; TIGR01312 290400009568 active site 290400009569 MgATP binding site [chemical binding]; other site 290400009570 catalytic site [active] 290400009571 metal binding site [ion binding]; metal-binding site 290400009572 xylulose binding site [chemical binding]; other site 290400009573 homodimer interface [polypeptide binding]; other site 290400009574 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 290400009575 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 290400009576 dimer interface [polypeptide binding]; other site 290400009577 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 290400009578 active site 290400009579 Fe binding site [ion binding]; other site 290400009580 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 290400009581 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400009582 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400009583 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400009584 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 290400009585 Sulfatase; Region: Sulfatase; cl17466 290400009586 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 290400009587 Protein of unknown function (DUF563); Region: DUF563; pfam04577 290400009588 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400009589 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400009590 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 290400009591 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 290400009592 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 290400009593 nudix motif; other site 290400009594 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 290400009595 catalytic residues [active] 290400009596 dimer interface [polypeptide binding]; other site 290400009597 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 290400009598 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 290400009599 active site 290400009600 Zn binding site [ion binding]; other site 290400009601 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 290400009602 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 290400009603 dimerization interface [polypeptide binding]; other site 290400009604 DPS ferroxidase diiron center [ion binding]; other site 290400009605 ion pore; other site 290400009606 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 290400009607 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 290400009608 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 290400009609 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 290400009610 ligand binding site [chemical binding]; other site 290400009611 homodimer interface [polypeptide binding]; other site 290400009612 NAD(P) binding site [chemical binding]; other site 290400009613 trimer interface B [polypeptide binding]; other site 290400009614 trimer interface A [polypeptide binding]; other site 290400009615 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 290400009616 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 290400009617 classical (c) SDRs; Region: SDR_c; cd05233 290400009618 NAD(P) binding site [chemical binding]; other site 290400009619 active site 290400009620 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 290400009621 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 290400009622 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 290400009623 active site 290400009624 acyl-activating enzyme (AAE) consensus motif; other site 290400009625 putative CoA binding site [chemical binding]; other site 290400009626 AMP binding site [chemical binding]; other site 290400009627 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 290400009628 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 290400009629 FeS/SAM binding site; other site 290400009630 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 290400009631 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290400009632 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 290400009633 metal binding site [ion binding]; metal-binding site 290400009634 putative dimer interface [polypeptide binding]; other site 290400009635 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400009636 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290400009637 acetylornithine deacetylase; Provisional; Region: PRK07522 290400009638 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 290400009639 metal binding site [ion binding]; metal-binding site 290400009640 putative dimer interface [polypeptide binding]; other site 290400009641 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290400009642 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400009643 Walker A/P-loop; other site 290400009644 ATP binding site [chemical binding]; other site 290400009645 Q-loop/lid; other site 290400009646 ABC transporter signature motif; other site 290400009647 Walker B; other site 290400009648 D-loop; other site 290400009649 H-loop/switch region; other site 290400009650 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290400009651 sulfate ABC transporter protein; Validated; Region: ycf16; CHL00131 290400009652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400009653 Walker A/P-loop; other site 290400009654 ATP binding site [chemical binding]; other site 290400009655 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400009656 Q-loop/lid; other site 290400009657 ABC transporter signature motif; other site 290400009658 Walker B; other site 290400009659 D-loop; other site 290400009660 H-loop/switch region; other site 290400009661 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290400009662 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400009663 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 290400009664 peptide binding site [polypeptide binding]; other site 290400009665 dimer interface [polypeptide binding]; other site 290400009666 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400009667 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 290400009668 dimer interface [polypeptide binding]; other site 290400009669 conserved gate region; other site 290400009670 putative PBP binding loops; other site 290400009671 ABC-ATPase subunit interface; other site 290400009672 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290400009673 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 290400009674 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 290400009675 dimer interface [polypeptide binding]; other site 290400009676 conserved gate region; other site 290400009677 putative PBP binding loops; other site 290400009678 ABC-ATPase subunit interface; other site 290400009679 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400009680 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400009681 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 290400009682 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 290400009683 generic binding surface II; other site 290400009684 generic binding surface I; other site 290400009685 Uncharacterized conserved protein [Function unknown]; Region: COG4278 290400009686 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 290400009687 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 290400009688 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 290400009689 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 290400009690 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 290400009691 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 290400009692 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 290400009693 TrkA-N domain; Region: TrkA_N; pfam02254 290400009694 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 290400009695 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 290400009696 putative dimer interface [polypeptide binding]; other site 290400009697 active site pocket [active] 290400009698 putative cataytic base [active] 290400009699 cobalamin synthase; Reviewed; Region: cobS; PRK00235 290400009700 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 290400009701 Ferredoxin [Energy production and conversion]; Region: COG1146 290400009702 4Fe-4S binding domain; Region: Fer4; cl02805 290400009703 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 290400009704 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 290400009705 RNA binding surface [nucleotide binding]; other site 290400009706 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 290400009707 nucleotide binding region [chemical binding]; other site 290400009708 ATP-binding site [chemical binding]; other site 290400009709 TPR repeat; Region: TPR_11; pfam13414 290400009710 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 290400009711 binding surface 290400009712 TPR motif; other site 290400009713 SCP-2 sterol transfer family; Region: SCP2; pfam02036 290400009714 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 290400009715 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 290400009716 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290400009717 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 290400009718 Walker A/P-loop; other site 290400009719 ATP binding site [chemical binding]; other site 290400009720 Q-loop/lid; other site 290400009721 ABC transporter signature motif; other site 290400009722 Walker B; other site 290400009723 D-loop; other site 290400009724 H-loop/switch region; other site 290400009725 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 290400009726 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 290400009727 FtsX-like permease family; Region: FtsX; pfam02687 290400009728 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 290400009729 active site 290400009730 metal binding site [ion binding]; metal-binding site 290400009731 Transglycosylase; Region: Transgly; pfam00912 290400009732 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 290400009733 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 290400009734 dimer interface [polypeptide binding]; other site 290400009735 active site 290400009736 CoA binding pocket [chemical binding]; other site 290400009737 Sensors of blue-light using FAD; Region: BLUF; smart01034 290400009738 His-Xaa-Ser repeat protein HxsA; Region: His_Ser_Rich; TIGR03979 290400009739 thymidine kinase; Provisional; Region: PRK04296 290400009740 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400009741 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 290400009742 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 290400009743 dimerization interface [polypeptide binding]; other site 290400009744 ligand binding site [chemical binding]; other site 290400009745 NADP binding site [chemical binding]; other site 290400009746 catalytic site [active] 290400009747 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 290400009748 dimer interface [polypeptide binding]; other site 290400009749 putative tRNA-binding site [nucleotide binding]; other site 290400009750 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 290400009751 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 290400009752 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 290400009753 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400009754 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 290400009755 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 290400009756 Membrane fusogenic activity; Region: BMFP; pfam04380 290400009757 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 290400009758 Uncharacterized conserved protein [Function unknown]; Region: COG1565 290400009759 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 290400009760 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 290400009761 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 290400009762 sulfotransferase; Region: PLN02164 290400009763 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 290400009764 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 290400009765 putative DNA binding site [nucleotide binding]; other site 290400009766 putative Zn2+ binding site [ion binding]; other site 290400009767 AsnC family; Region: AsnC_trans_reg; pfam01037 290400009768 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 290400009769 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400009770 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 290400009771 Methyltransferase domain; Region: Methyltransf_23; pfam13489 290400009772 Methyltransferase domain; Region: Methyltransf_12; pfam08242 290400009773 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; cl17220 290400009774 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400009775 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 290400009776 ATP-sulfurylase; Region: ATPS; cd00517 290400009777 active site 290400009778 HXXH motif; other site 290400009779 flexible loop; other site 290400009780 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 290400009781 ligand-binding site [chemical binding]; other site 290400009782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400009783 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 290400009784 DNA binding residues [nucleotide binding] 290400009785 dimerization interface [polypeptide binding]; other site 290400009786 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290400009787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290400009788 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290400009789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290400009790 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 290400009791 NAD synthetase; Provisional; Region: PRK13981 290400009792 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 290400009793 multimer interface [polypeptide binding]; other site 290400009794 active site 290400009795 catalytic triad [active] 290400009796 protein interface 1 [polypeptide binding]; other site 290400009797 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 290400009798 homodimer interface [polypeptide binding]; other site 290400009799 NAD binding pocket [chemical binding]; other site 290400009800 ATP binding pocket [chemical binding]; other site 290400009801 Mg binding site [ion binding]; other site 290400009802 active-site loop [active] 290400009803 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 290400009804 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 290400009805 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 290400009806 TrkA-N domain; Region: TrkA_N; pfam02254 290400009807 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 290400009808 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 290400009809 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 290400009810 putative dimer interface [polypeptide binding]; other site 290400009811 AIR carboxylase; Region: AIRC; pfam00731 290400009812 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 290400009813 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 290400009814 NAD binding site [chemical binding]; other site 290400009815 ATP-grasp domain; Region: ATP-grasp; pfam02222 290400009816 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 290400009817 EamA-like transporter family; Region: EamA; pfam00892 290400009818 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 290400009819 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 290400009820 active site 290400009821 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 290400009822 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 290400009823 ring oligomerisation interface [polypeptide binding]; other site 290400009824 ATP/Mg binding site [chemical binding]; other site 290400009825 stacking interactions; other site 290400009826 hinge regions; other site 290400009827 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 290400009828 oligomerisation interface [polypeptide binding]; other site 290400009829 mobile loop; other site 290400009830 roof hairpin; other site 290400009831 HAMP domain; Region: HAMP; pfam00672 290400009832 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 290400009833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 290400009834 dimer interface [polypeptide binding]; other site 290400009835 putative CheW interface [polypeptide binding]; other site 290400009836 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 290400009837 DHH family; Region: DHH; pfam01368 290400009838 DHHA2 domain; Region: DHHA2; pfam02833 290400009839 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 290400009840 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 290400009841 active site 290400009842 motif I; other site 290400009843 motif II; other site 290400009844 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 290400009845 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 290400009846 dimer interaction site [polypeptide binding]; other site 290400009847 substrate-binding tunnel; other site 290400009848 active site 290400009849 catalytic site [active] 290400009850 substrate binding site [chemical binding]; other site 290400009851 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 290400009852 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 290400009853 active site 290400009854 Riboflavin kinase; Region: Flavokinase; smart00904 290400009855 hypothetical protein; Provisional; Region: PRK05170 290400009856 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 290400009857 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 290400009858 active site 290400009859 substrate binding site [chemical binding]; other site 290400009860 coenzyme B12 binding site [chemical binding]; other site 290400009861 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 290400009862 B12 binding site [chemical binding]; other site 290400009863 cobalt ligand [ion binding]; other site 290400009864 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 290400009865 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 290400009866 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 290400009867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 290400009868 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 290400009869 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 290400009870 carboxyltransferase (CT) interaction site; other site 290400009871 biotinylation site [posttranslational modification]; other site 290400009872 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 290400009873 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 290400009874 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 290400009875 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 290400009876 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400009877 putative substrate translocation pore; other site 290400009878 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400009879 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 290400009880 non-specific DNA binding site [nucleotide binding]; other site 290400009881 salt bridge; other site 290400009882 sequence-specific DNA binding site [nucleotide binding]; other site 290400009883 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 290400009884 Domain of unknown function (DUF955); Region: DUF955; pfam06114 290400009885 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 290400009886 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 290400009887 putative hydrophobic ligand binding site [chemical binding]; other site 290400009888 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400009889 EamA-like transporter family; Region: EamA; pfam00892 290400009890 EamA-like transporter family; Region: EamA; pfam00892 290400009891 Lysine efflux permease [General function prediction only]; Region: COG1279 290400009892 hypothetical protein; Validated; Region: PRK00110 290400009893 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290400009894 transmembrane helices; other site 290400009895 TrkA-C domain; Region: TrkA_C; pfam02080 290400009896 TrkA-C domain; Region: TrkA_C; pfam02080 290400009897 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290400009898 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 290400009899 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290400009900 transmembrane helices; other site 290400009901 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 290400009902 TrkA-C domain; Region: TrkA_C; pfam02080 290400009903 TrkA-C domain; Region: TrkA_C; pfam02080 290400009904 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 290400009905 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400009906 EamA-like transporter family; Region: EamA; pfam00892 290400009907 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 290400009908 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290400009909 putative active site [active] 290400009910 metal binding site [ion binding]; metal-binding site 290400009911 homodimer binding site [polypeptide binding]; other site 290400009912 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 290400009913 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 290400009914 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290400009915 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 290400009916 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 290400009917 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 290400009918 putative metal binding site [ion binding]; other site 290400009919 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 290400009920 HSP70 interaction site [polypeptide binding]; other site 290400009921 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 290400009922 putative catalytic site [active] 290400009923 putative metal binding site [ion binding]; other site 290400009924 putative phosphate binding site [ion binding]; other site 290400009925 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 290400009926 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 290400009927 active site 290400009928 Zn binding site [ion binding]; other site 290400009929 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 290400009930 DNA binding residues [nucleotide binding] 290400009931 dimerization interface [polypeptide binding]; other site 290400009932 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 290400009933 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 290400009934 active site 290400009935 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 290400009936 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 290400009937 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 290400009938 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400009939 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400009940 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400009941 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 290400009942 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 290400009943 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290400009944 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400009945 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 290400009946 DNA binding residues [nucleotide binding] 290400009947 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 290400009948 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 290400009949 RNA binding surface [nucleotide binding]; other site 290400009950 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290400009951 active site 290400009952 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 290400009953 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 290400009954 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400009955 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400009956 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 290400009957 dimerization interface [polypeptide binding]; other site 290400009958 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 290400009959 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 290400009960 dimerization interface [polypeptide binding]; other site 290400009961 putative DNA binding site [nucleotide binding]; other site 290400009962 putative Zn2+ binding site [ion binding]; other site 290400009963 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 290400009964 putative hydrophobic ligand binding site [chemical binding]; other site 290400009965 Predicted periplasmic protein [Function unknown]; Region: COG3904 290400009966 transcription antitermination factor NusB; Region: nusB; TIGR01951 290400009967 putative RNA binding site [nucleotide binding]; other site 290400009968 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 290400009969 homopentamer interface [polypeptide binding]; other site 290400009970 active site 290400009971 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 290400009972 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 290400009973 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 290400009974 dimerization interface [polypeptide binding]; other site 290400009975 active site 290400009976 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 290400009977 Lumazine binding domain; Region: Lum_binding; pfam00677 290400009978 Lumazine binding domain; Region: Lum_binding; pfam00677 290400009979 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 290400009980 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 290400009981 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 290400009982 polysaccharide export protein Wza; Provisional; Region: PRK15078 290400009983 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 290400009984 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 290400009985 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 290400009986 catalytic motif [active] 290400009987 Zn binding site [ion binding]; other site 290400009988 RibD C-terminal domain; Region: RibD_C; cl17279 290400009989 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 290400009990 ATP cone domain; Region: ATP-cone; pfam03477 290400009991 Uncharacterized conserved protein (DUF2161); Region: DUF2161; pfam09929 290400009992 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 290400009993 Protein of unknown function (DUF461); Region: DUF461; pfam04314 290400009994 Predicted ATPase [General function prediction only]; Region: COG3911 290400009995 AAA domain; Region: AAA_28; pfam13521 290400009996 ParB-like nuclease domain; Region: ParB; smart00470 290400009997 GTP-binding protein LepA; Provisional; Region: PRK05433 290400009998 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 290400009999 G1 box; other site 290400010000 putative GEF interaction site [polypeptide binding]; other site 290400010001 GTP/Mg2+ binding site [chemical binding]; other site 290400010002 Switch I region; other site 290400010003 G2 box; other site 290400010004 G3 box; other site 290400010005 Switch II region; other site 290400010006 G4 box; other site 290400010007 G5 box; other site 290400010008 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 290400010009 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 290400010010 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 290400010011 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 290400010012 synthetase active site [active] 290400010013 NTP binding site [chemical binding]; other site 290400010014 metal binding site [ion binding]; metal-binding site 290400010015 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 290400010016 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 290400010017 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 290400010018 PGAP1-like protein; Region: PGAP1; pfam07819 290400010019 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400010020 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 290400010021 Pirin-related protein [General function prediction only]; Region: COG1741 290400010022 Pirin; Region: Pirin; pfam02678 290400010023 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 290400010024 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 290400010025 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 290400010026 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 290400010027 NAD(P) binding site [chemical binding]; other site 290400010028 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 290400010029 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 290400010030 TadE-like protein; Region: TadE; pfam07811 290400010031 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 290400010032 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 290400010033 homotrimer interaction site [polypeptide binding]; other site 290400010034 putative active site [active] 290400010035 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 290400010036 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 290400010037 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 290400010038 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 290400010039 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 290400010040 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400010041 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 290400010042 DNA primase, catalytic core; Region: dnaG; TIGR01391 290400010043 CHC2 zinc finger; Region: zf-CHC2; cl17510 290400010044 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 290400010045 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 290400010046 active site 290400010047 metal binding site [ion binding]; metal-binding site 290400010048 interdomain interaction site; other site 290400010049 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 290400010050 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 290400010051 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 290400010052 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 290400010053 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 290400010054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400010055 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 290400010056 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 290400010057 DNA binding residues [nucleotide binding] 290400010058 putative addiction module antidote; Region: doc_partner; TIGR02609 290400010059 Fic/DOC family; Region: Fic; cl00960 290400010060 Transcriptional activator HlyU; Region: HlyU; pfam10115 290400010061 Protein of unknown function, DUF393; Region: DUF393; pfam04134 290400010062 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 290400010063 membrane ATPase/protein kinase; Provisional; Region: PRK09435 290400010064 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 290400010065 Walker A; other site 290400010066 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 290400010067 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 290400010068 ATP binding site [chemical binding]; other site 290400010069 putative Mg++ binding site [ion binding]; other site 290400010070 Helicase associated domain (HA2); Region: HA2; pfam04408 290400010071 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 290400010072 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 290400010073 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400010074 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400010075 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400010076 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 290400010077 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 290400010078 selenophosphate synthetase; Provisional; Region: PRK00943 290400010079 dimerization interface [polypeptide binding]; other site 290400010080 putative ATP binding site [chemical binding]; other site 290400010081 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 290400010082 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 290400010083 dimerization interface 3.5A [polypeptide binding]; other site 290400010084 active site 290400010085 YcjX-like family, DUF463; Region: DUF463; pfam04317 290400010086 hypothetical protein; Provisional; Region: PRK05415 290400010087 Domain of unknown function (DUF697); Region: DUF697; pfam05128 290400010088 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 290400010089 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 290400010090 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400010091 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 290400010092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400010093 active site 290400010094 HIGH motif; other site 290400010095 nucleotide binding site [chemical binding]; other site 290400010096 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 290400010097 active site 290400010098 KMSKS motif; other site 290400010099 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 290400010100 tRNA binding surface [nucleotide binding]; other site 290400010101 anticodon binding site; other site 290400010102 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 290400010103 putative S-transferase; Provisional; Region: PRK11752 290400010104 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 290400010105 C-terminal domain interface [polypeptide binding]; other site 290400010106 GSH binding site (G-site) [chemical binding]; other site 290400010107 dimer interface [polypeptide binding]; other site 290400010108 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 290400010109 dimer interface [polypeptide binding]; other site 290400010110 N-terminal domain interface [polypeptide binding]; other site 290400010111 active site 290400010112 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 290400010113 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 290400010114 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 290400010115 active site 290400010116 DNA binding site [nucleotide binding] 290400010117 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 290400010118 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 290400010119 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400010120 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 290400010121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400010122 catalytic residue [active] 290400010123 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 290400010124 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 290400010125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400010126 homodimer interface [polypeptide binding]; other site 290400010127 catalytic residue [active] 290400010128 Bacterial SH3 domain; Region: SH3_3; pfam08239 290400010129 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 290400010130 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400010131 active site 290400010132 HIGH motif; other site 290400010133 nucleotide binding site [chemical binding]; other site 290400010134 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 290400010135 active site 290400010136 KMSKS motif; other site 290400010137 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 290400010138 tRNA binding surface [nucleotide binding]; other site 290400010139 anticodon binding site; other site 290400010140 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 290400010141 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 290400010142 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 290400010143 active site residue [active] 290400010144 Epoxide hydrolase N terminus; Region: EHN; pfam06441 290400010145 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400010146 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 290400010147 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 290400010148 potential catalytic triad [active] 290400010149 conserved cys residue [active] 290400010150 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 290400010151 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290400010152 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400010153 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 290400010154 Predicted transcriptional regulators [Transcription]; Region: COG1733 290400010155 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 290400010156 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 290400010157 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 290400010158 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290400010159 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290400010160 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 290400010161 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400010162 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290400010163 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400010164 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 290400010165 active site 290400010166 phosphorylation site [posttranslational modification] 290400010167 intermolecular recognition site; other site 290400010168 dimerization interface [polypeptide binding]; other site 290400010169 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 290400010170 DNA binding site [nucleotide binding] 290400010171 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 290400010172 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 290400010173 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 290400010174 dimer interface [polypeptide binding]; other site 290400010175 phosphorylation site [posttranslational modification] 290400010176 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 290400010177 ATP binding site [chemical binding]; other site 290400010178 Mg2+ binding site [ion binding]; other site 290400010179 G-X-G motif; other site 290400010180 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 290400010181 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 290400010182 Proline dehydrogenase; Region: Pro_dh; pfam01619 290400010183 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 290400010184 Glutamate binding site [chemical binding]; other site 290400010185 NAD binding site [chemical binding]; other site 290400010186 catalytic residues [active] 290400010187 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 290400010188 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 290400010189 dimerization interface [polypeptide binding]; other site 290400010190 putative DNA binding site [nucleotide binding]; other site 290400010191 putative Zn2+ binding site [ion binding]; other site 290400010192 AsnC family; Region: AsnC_trans_reg; pfam01037 290400010193 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400010194 hydroxyglutarate oxidase; Provisional; Region: PRK11728 290400010195 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 290400010196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400010197 NAD(P) binding site [chemical binding]; other site 290400010198 active site 290400010199 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 290400010200 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400010201 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400010202 tyrosine decarboxylase; Region: PLN02880 290400010203 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 290400010204 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400010205 catalytic residue [active] 290400010206 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 290400010207 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 290400010208 tetramer interface [polypeptide binding]; other site 290400010209 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 290400010210 tetramer interface [polypeptide binding]; other site 290400010211 active site 290400010212 metal binding site [ion binding]; metal-binding site 290400010213 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 290400010214 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 290400010215 NAD binding site [chemical binding]; other site 290400010216 catalytic residues [active] 290400010217 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 290400010218 putative substrate binding pocket [chemical binding]; other site 290400010219 trimer interface [polypeptide binding]; other site 290400010220 MarR family; Region: MarR_2; cl17246 290400010221 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 290400010222 hypothetical protein; Provisional; Region: PRK02399 290400010223 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 290400010224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400010225 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 290400010226 NAD(P) binding site [chemical binding]; other site 290400010227 catalytic residues [active] 290400010228 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 290400010229 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400010230 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 290400010231 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290400010232 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400010233 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400010234 hypothetical protein; Provisional; Region: PRK07481 290400010235 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 290400010236 inhibitor-cofactor binding pocket; inhibition site 290400010237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400010238 catalytic residue [active] 290400010239 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 290400010240 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 290400010241 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400010242 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 290400010243 active site 290400010244 phosphorylation site [posttranslational modification] 290400010245 intermolecular recognition site; other site 290400010246 dimerization interface [polypeptide binding]; other site 290400010247 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 290400010248 DNA binding residues [nucleotide binding] 290400010249 dimerization interface [polypeptide binding]; other site 290400010250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 290400010251 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 290400010252 Mg2+ binding site [ion binding]; other site 290400010253 G-X-G motif; other site 290400010254 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010255 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400010256 DctM-like transporters; Region: DctM; pfam06808 290400010257 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400010258 Predicted permeases [General function prediction only]; Region: RarD; COG2962 290400010259 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 290400010260 active site 290400010261 DNA binding site [nucleotide binding] 290400010262 Int/Topo IB signature motif; other site 290400010263 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 290400010264 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 290400010265 HTH-like domain; Region: HTH_21; pfam13276 290400010266 Integrase core domain; Region: rve; pfam00665 290400010267 Transposase; Region: HTH_Tnp_1; pfam01527 290400010268 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 290400010269 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 290400010270 TPR motif; other site 290400010271 binding surface 290400010272 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 290400010273 active site 290400010274 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 290400010275 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 290400010276 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 290400010277 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 290400010278 non-specific DNA binding site [nucleotide binding]; other site 290400010279 salt bridge; other site 290400010280 sequence-specific DNA binding site [nucleotide binding]; other site 290400010281 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400010282 arogenate dehydrogenase; Region: PLN02256 290400010283 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 290400010284 catalytic core [active] 290400010285 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 290400010286 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 290400010287 DNA binding residues [nucleotide binding] 290400010288 dimerization interface [polypeptide binding]; other site 290400010289 Protein of unknown function (DUF3303); Region: DUF3303; pfam11746 290400010290 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 290400010291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400010292 NAD(P) binding site [chemical binding]; other site 290400010293 active site 290400010294 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 290400010295 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 290400010296 TrkA-N domain; Region: TrkA_N; pfam02254 290400010297 Transcriptional regulators [Transcription]; Region: FadR; COG2186 290400010298 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400010299 DNA-binding site [nucleotide binding]; DNA binding site 290400010300 FCD domain; Region: FCD; pfam07729 290400010301 hypothetical protein; Provisional; Region: PRK05968 290400010302 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 290400010303 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 290400010304 catalytic residue [active] 290400010305 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400010306 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400010307 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 290400010308 dimer interface [polypeptide binding]; other site 290400010309 conserved gate region; other site 290400010310 putative PBP binding loops; other site 290400010311 ABC-ATPase subunit interface; other site 290400010312 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400010313 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 290400010314 dimer interface [polypeptide binding]; other site 290400010315 conserved gate region; other site 290400010316 putative PBP binding loops; other site 290400010317 ABC-ATPase subunit interface; other site 290400010318 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400010319 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400010320 Walker A/P-loop; other site 290400010321 ATP binding site [chemical binding]; other site 290400010322 Q-loop/lid; other site 290400010323 ABC transporter signature motif; other site 290400010324 Walker B; other site 290400010325 D-loop; other site 290400010326 H-loop/switch region; other site 290400010327 TOBE domain; Region: TOBE_2; pfam08402 290400010328 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 290400010329 TPP-binding site [chemical binding]; other site 290400010330 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 290400010331 PYR/PP interface [polypeptide binding]; other site 290400010332 dimer interface [polypeptide binding]; other site 290400010333 TPP binding site [chemical binding]; other site 290400010334 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 290400010335 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 290400010336 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 290400010337 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 290400010338 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 290400010339 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 290400010340 putative active site [active] 290400010341 catalytic site [active] 290400010342 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 290400010343 putative active site [active] 290400010344 catalytic site [active] 290400010345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400010346 Histidine kinase; Region: HisKA_2; pfam07568 290400010347 RNA polymerase sigma factor; Provisional; Region: PRK12546 290400010348 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400010349 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 290400010350 DNA binding residues [nucleotide binding] 290400010351 two-component response regulator; Provisional; Region: PRK09191 290400010352 DNA binding residues [nucleotide binding] 290400010353 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; cl17257 290400010354 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 290400010355 active site 290400010356 phosphorylation site [posttranslational modification] 290400010357 intermolecular recognition site; other site 290400010358 dimerization interface [polypeptide binding]; other site 290400010359 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 290400010360 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400010361 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 290400010362 ligand binding site [chemical binding]; other site 290400010363 flexible hinge region; other site 290400010364 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 290400010365 CsbD-like; Region: CsbD; pfam05532 290400010366 Domain of unknown function DUF11; Region: DUF11; cl17728 290400010367 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 290400010368 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400010369 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 290400010370 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 290400010371 N-terminal domain interface [polypeptide binding]; other site 290400010372 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 290400010373 active site 290400010374 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 290400010375 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 290400010376 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; cl00089 290400010377 active site 290400010378 substrate binding site [chemical binding]; other site 290400010379 Mg2+ binding site [ion binding]; other site 290400010380 GTP-binding protein YchF; Reviewed; Region: PRK09601 290400010381 YchF GTPase; Region: YchF; cd01900 290400010382 G1 box; other site 290400010383 GTP/Mg2+ binding site [chemical binding]; other site 290400010384 Switch I region; other site 290400010385 G2 box; other site 290400010386 Switch II region; other site 290400010387 G3 box; other site 290400010388 G4 box; other site 290400010389 G5 box; other site 290400010390 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 290400010391 multidrug efflux protein; Reviewed; Region: PRK01766 290400010392 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 290400010393 cation binding site [ion binding]; other site 290400010394 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 290400010395 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 290400010396 substrate binding site [chemical binding]; other site 290400010397 active site 290400010398 catalytic residues [active] 290400010399 heterodimer interface [polypeptide binding]; other site 290400010400 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 290400010401 IHF dimer interface [polypeptide binding]; other site 290400010402 IHF - DNA interface [nucleotide binding]; other site 290400010403 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 290400010404 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 290400010405 active site 290400010406 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 290400010407 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 290400010408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400010409 catalytic residue [active] 290400010410 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 290400010411 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 290400010412 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 290400010413 putative active site [active] 290400010414 catalytic residue [active] 290400010415 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 290400010416 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 290400010417 NADP binding site [chemical binding]; other site 290400010418 dimer interface [polypeptide binding]; other site 290400010419 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 290400010420 S-adenosylmethionine binding site [chemical binding]; other site 290400010421 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 290400010422 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 290400010423 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 290400010424 5S rRNA interface [nucleotide binding]; other site 290400010425 CTC domain interface [polypeptide binding]; other site 290400010426 L16 interface [polypeptide binding]; other site 290400010427 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 290400010428 Major Facilitator Superfamily; Region: MFS_1; pfam07690 290400010429 putative substrate translocation pore; other site 290400010430 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 290400010431 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 290400010432 phosphate binding site [ion binding]; other site 290400010433 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290400010434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400010435 Coenzyme A binding pocket [chemical binding]; other site 290400010436 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 290400010437 excinuclease ABC subunit B; Provisional; Region: PRK05298 290400010438 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 290400010439 ATP binding site [chemical binding]; other site 290400010440 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 290400010441 nucleotide binding region [chemical binding]; other site 290400010442 ATP-binding site [chemical binding]; other site 290400010443 Ultra-violet resistance protein B; Region: UvrB; pfam12344 290400010444 UvrB/uvrC motif; Region: UVR; pfam02151 290400010445 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 290400010446 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290400010447 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 290400010448 active site 290400010449 metal binding site [ion binding]; metal-binding site 290400010450 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 290400010451 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 290400010452 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 290400010453 Domain of unknown function (DUF427); Region: DUF427; pfam04248 290400010454 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 290400010455 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 290400010456 active site 290400010457 nucleotide binding site [chemical binding]; other site 290400010458 HIGH motif; other site 290400010459 KMSKS motif; other site 290400010460 tellurite resistance protein terB; Region: terB; cd07176 290400010461 putative metal binding site [ion binding]; other site 290400010462 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 290400010463 putative active site pocket [active] 290400010464 dimerization interface [polypeptide binding]; other site 290400010465 putative catalytic residue [active] 290400010466 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 290400010467 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 290400010468 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 290400010469 lipoyl attachment site [posttranslational modification]; other site 290400010470 glycine dehydrogenase; Provisional; Region: PRK05367 290400010471 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 290400010472 tetramer interface [polypeptide binding]; other site 290400010473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400010474 catalytic residue [active] 290400010475 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 290400010476 tetramer interface [polypeptide binding]; other site 290400010477 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400010478 catalytic residue [active] 290400010479 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 290400010480 Dodecin; Region: Dodecin; pfam07311 290400010481 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 290400010482 DNA-binding site [nucleotide binding]; DNA binding site 290400010483 RNA-binding motif; other site 290400010484 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 290400010485 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400010486 Walker A/P-loop; other site 290400010487 ATP binding site [chemical binding]; other site 290400010488 Q-loop/lid; other site 290400010489 ABC transporter signature motif; other site 290400010490 Walker B; other site 290400010491 D-loop; other site 290400010492 H-loop/switch region; other site 290400010493 ABC transporter; Region: ABC_tran_2; pfam12848 290400010494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 290400010495 PAS domain S-box; Region: sensory_box; TIGR00229 290400010496 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 290400010497 putative active site [active] 290400010498 heme pocket [chemical binding]; other site 290400010499 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400010500 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400010501 metal binding site [ion binding]; metal-binding site 290400010502 active site 290400010503 I-site; other site 290400010504 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 290400010505 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 290400010506 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 290400010507 active site 290400010508 (T/H)XGH motif; other site 290400010509 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 290400010510 EamA-like transporter family; Region: EamA; pfam00892 290400010511 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 290400010512 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 290400010513 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 290400010514 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290400010515 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 290400010516 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290400010517 HIGH motif; other site 290400010518 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 290400010519 active site 290400010520 KMSKS motif; other site 290400010521 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 290400010522 PAS fold; Region: PAS_4; pfam08448 290400010523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400010524 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; cl00080 290400010525 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 290400010526 ATP binding site [chemical binding]; other site 290400010527 Mg2+ binding site [ion binding]; other site 290400010528 G-X-G motif; other site 290400010529 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 290400010530 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 290400010531 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 290400010532 C factor cell-cell signaling protein; Provisional; Region: PRK09009 290400010533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400010534 NAD(P) binding site [chemical binding]; other site 290400010535 active site 290400010536 2-isopropylmalate synthase; Validated; Region: PRK00915 290400010537 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 290400010538 active site 290400010539 catalytic residues [active] 290400010540 metal binding site [ion binding]; metal-binding site 290400010541 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 290400010542 rod shape-determining protein MreB; Provisional; Region: PRK13927 290400010543 MreB and similar proteins; Region: MreB_like; cd10225 290400010544 nucleotide binding site [chemical binding]; other site 290400010545 Mg binding site [ion binding]; other site 290400010546 putative protofilament interaction site [polypeptide binding]; other site 290400010547 RodZ interaction site [polypeptide binding]; other site 290400010548 rod shape-determining protein MreC; Provisional; Region: PRK13922 290400010549 rod shape-determining protein MreC; Region: MreC; pfam04085 290400010550 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 290400010551 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 290400010552 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 290400010553 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 290400010554 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 290400010555 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 290400010556 putative ligand binding site [chemical binding]; other site 290400010557 NAD binding site [chemical binding]; other site 290400010558 dimerization interface [polypeptide binding]; other site 290400010559 catalytic site [active] 290400010560 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 290400010561 ligand binding site [chemical binding]; other site 290400010562 active site 290400010563 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 290400010564 putative DNA binding site [nucleotide binding]; other site 290400010565 putative Zn2+ binding site [ion binding]; other site 290400010566 Predicted permease; Region: DUF318; cl17795 290400010567 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 290400010568 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 290400010569 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400010570 Walker A/P-loop; other site 290400010571 ATP binding site [chemical binding]; other site 290400010572 Q-loop/lid; other site 290400010573 ABC transporter signature motif; other site 290400010574 Walker B; other site 290400010575 D-loop; other site 290400010576 H-loop/switch region; other site 290400010577 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 290400010578 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 290400010579 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 290400010580 BON domain; Region: BON; pfam04972 290400010581 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 290400010582 Mechanosensitive ion channel; Region: MS_channel; pfam00924 290400010583 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 290400010584 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 290400010585 binding surface 290400010586 TPR motif; other site 290400010587 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400010588 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 290400010589 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 290400010590 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 290400010591 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 290400010592 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 290400010593 S-adenosylmethionine binding site [chemical binding]; other site 290400010594 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 290400010595 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400010596 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 290400010597 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400010598 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 290400010599 DNA binding site [nucleotide binding] 290400010600 Predicted integral membrane protein [Function unknown]; Region: COG5616 290400010601 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 290400010602 TPR repeat; Region: TPR_11; pfam13414 290400010603 TPR motif; other site 290400010604 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 290400010605 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 290400010606 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 290400010607 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 290400010608 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 290400010609 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400010610 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 290400010611 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 290400010612 DNA binding residues [nucleotide binding] 290400010613 dimer interface [polypeptide binding]; other site 290400010614 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 290400010615 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290400010616 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400010617 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400010618 DctM-like transporters; Region: DctM; pfam06808 290400010619 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400010620 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400010621 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010622 choline dehydrogenase; Validated; Region: PRK02106 290400010623 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290400010624 Hint domain; Region: Hint_2; pfam13403 290400010625 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 290400010626 nitrilase; Region: PLN02798 290400010627 putative active site [active] 290400010628 catalytic triad [active] 290400010629 dimer interface [polypeptide binding]; other site 290400010630 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 290400010631 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 290400010632 N- and C-terminal domain interface [polypeptide binding]; other site 290400010633 active site 290400010634 MgATP binding site [chemical binding]; other site 290400010635 catalytic site [active] 290400010636 metal binding site [ion binding]; metal-binding site 290400010637 glycerol binding site [chemical binding]; other site 290400010638 homotetramer interface [polypeptide binding]; other site 290400010639 homodimer interface [polypeptide binding]; other site 290400010640 FBP binding site [chemical binding]; other site 290400010641 protein IIAGlc interface [polypeptide binding]; other site 290400010642 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 290400010643 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 290400010644 active site 290400010645 catalytic triad [active] 290400010646 oxyanion hole [active] 290400010647 switch loop; other site 290400010648 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 290400010649 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 290400010650 Walker A/P-loop; other site 290400010651 ATP binding site [chemical binding]; other site 290400010652 Q-loop/lid; other site 290400010653 ABC transporter signature motif; other site 290400010654 Walker B; other site 290400010655 D-loop; other site 290400010656 H-loop/switch region; other site 290400010657 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 290400010658 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 290400010659 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 290400010660 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 290400010661 active site 290400010662 metal binding site [ion binding]; metal-binding site 290400010663 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 290400010664 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 290400010665 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 290400010666 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 290400010667 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400010668 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 290400010669 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 290400010670 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 290400010671 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400010672 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 290400010673 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 290400010674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400010675 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 290400010676 dimerization interface [polypeptide binding]; other site 290400010677 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 290400010678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400010679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400010680 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 290400010681 dimerization interface [polypeptide binding]; other site 290400010682 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400010683 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 290400010684 dimer interface [polypeptide binding]; other site 290400010685 conserved gate region; other site 290400010686 putative PBP binding loops; other site 290400010687 ABC-ATPase subunit interface; other site 290400010688 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 290400010689 dimer interface [polypeptide binding]; other site 290400010690 conserved gate region; other site 290400010691 ABC-ATPase subunit interface; other site 290400010692 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400010693 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400010694 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 290400010695 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 290400010696 acetyl-CoA synthetase; Provisional; Region: PRK00174 290400010697 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 290400010698 active site 290400010699 CoA binding site [chemical binding]; other site 290400010700 acyl-activating enzyme (AAE) consensus motif; other site 290400010701 AMP binding site [chemical binding]; other site 290400010702 acetate binding site [chemical binding]; other site 290400010703 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290400010704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400010705 DNA-binding site [nucleotide binding]; DNA binding site 290400010706 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 290400010707 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 290400010708 homotrimer interaction site [polypeptide binding]; other site 290400010709 putative active site [active] 290400010710 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290400010711 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 290400010712 S-adenosylmethionine binding site [chemical binding]; other site 290400010713 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 290400010714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 290400010715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 290400010716 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 290400010717 S-adenosylmethionine binding site [chemical binding]; other site 290400010718 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 290400010719 conserved cys residue [active] 290400010720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400010721 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400010722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400010723 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 290400010724 Catalytic site; other site 290400010725 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 290400010726 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400010727 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 290400010728 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 290400010729 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 290400010730 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 290400010731 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 290400010732 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 290400010733 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 290400010734 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 290400010735 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400010736 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 290400010737 DNA binding site [nucleotide binding] 290400010738 Predicted integral membrane protein [Function unknown]; Region: COG5616 290400010739 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 290400010740 S-adenosylmethionine binding site [chemical binding]; other site 290400010741 Transposase; Region: HTH_Tnp_1; pfam01527 290400010742 HTH-like domain; Region: HTH_21; pfam13276 290400010743 Integrase core domain; Region: rve; pfam00665 290400010744 NIPSNAP; Region: NIPSNAP; pfam07978 290400010745 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 290400010746 Cupin domain; Region: Cupin_2; pfam07883 290400010747 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 290400010748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 290400010749 Transposase; Region: DEDD_Tnp_IS110; pfam01548 290400010750 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 290400010751 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 290400010752 Cytochrome P450; Region: p450; cl12078 290400010753 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 290400010754 Predicted amidohydrolase [General function prediction only]; Region: COG0388 290400010755 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 290400010756 putative active site [active] 290400010757 catalytic triad [active] 290400010758 putative dimer interface [polypeptide binding]; other site 290400010759 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400010760 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400010761 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400010762 MarR family; Region: MarR_2; pfam12802 290400010763 MarR family; Region: MarR_2; cl17246 290400010764 Ca2+-binding protein (EF-Hand superfamily) [Signal transduction mechanisms / Cytoskeleton / Cell division and chromosome partitioning / General function prediction only]; Region: FRQ1; COG5126 290400010765 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 290400010766 Ferric reductase like transmembrane component; Region: Ferric_reduct; pfam01794 290400010767 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P)...; Region: FNR_like_3; cd06198 290400010768 FAD binding pocket [chemical binding]; other site 290400010769 FAD binding motif [chemical binding]; other site 290400010770 phosphate binding motif [ion binding]; other site 290400010771 beta-alpha-beta structure motif; other site 290400010772 NAD binding pocket [chemical binding]; other site 290400010773 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 290400010774 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 290400010775 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 290400010776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400010777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400010778 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 290400010779 putative effector binding pocket; other site 290400010780 dimerization interface [polypeptide binding]; other site 290400010781 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 290400010782 FAD binding domain; Region: FAD_binding_2; pfam00890 290400010783 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 290400010784 active site 290400010785 Zn binding site [ion binding]; other site 290400010786 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 290400010787 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400010788 NAD(P) binding site [chemical binding]; other site 290400010789 catalytic residues [active] 290400010790 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290400010791 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290400010792 inhibitor site; inhibition site 290400010793 active site 290400010794 dimer interface [polypeptide binding]; other site 290400010795 catalytic residue [active] 290400010796 Ferredoxin [Energy production and conversion]; Region: COG1146 290400010797 4Fe-4S binding domain; Region: Fer4; pfam00037 290400010798 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 290400010799 enoyl-CoA hydratase; Provisional; Region: PRK06494 290400010800 substrate binding site [chemical binding]; other site 290400010801 oxyanion hole (OAH) forming residues; other site 290400010802 trimer interface [polypeptide binding]; other site 290400010803 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290400010804 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290400010805 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 290400010806 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400010807 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 290400010808 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400010809 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400010810 Walker A/P-loop; other site 290400010811 ATP binding site [chemical binding]; other site 290400010812 Q-loop/lid; other site 290400010813 ABC transporter signature motif; other site 290400010814 Walker B; other site 290400010815 D-loop; other site 290400010816 H-loop/switch region; other site 290400010817 NMT1/THI5 like; Region: NMT1; pfam09084 290400010818 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290400010819 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 290400010820 membrane-bound complex binding site; other site 290400010821 hinge residues; other site 290400010822 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400010823 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400010824 LysR substrate binding domain; Region: LysR_substrate; pfam03466 290400010825 dimerization interface [polypeptide binding]; other site 290400010826 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400010827 DctM-like transporters; Region: DctM; pfam06808 290400010828 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400010829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010830 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 290400010831 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 290400010832 substrate binding site [chemical binding]; other site 290400010833 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 290400010834 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 290400010835 substrate binding site [chemical binding]; other site 290400010836 ligand binding site [chemical binding]; other site 290400010837 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 290400010838 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400010839 DNA-binding site [nucleotide binding]; DNA binding site 290400010840 UTRA domain; Region: UTRA; pfam07702 290400010841 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 290400010842 active site 1 [active] 290400010843 dimer interface [polypeptide binding]; other site 290400010844 hexamer interface [polypeptide binding]; other site 290400010845 active site 2 [active] 290400010846 SnoaL-like domain; Region: SnoaL_2; pfam12680 290400010847 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 290400010848 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 290400010849 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 290400010850 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 290400010851 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 290400010852 Isochorismatase family; Region: Isochorismatase; pfam00857 290400010853 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 290400010854 catalytic triad [active] 290400010855 conserved cis-peptide bond; other site 290400010856 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 290400010857 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 290400010858 tetramer interface [polypeptide binding]; other site 290400010859 active site 290400010860 Mg2+/Mn2+ binding site [ion binding]; other site 290400010861 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 290400010862 Predicted oxidoreductase [General function prediction only]; Region: COG3573 290400010863 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 290400010864 hypothetical protein; Provisional; Region: PRK06126 290400010865 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400010866 DctM-like transporters; Region: DctM; pfam06808 290400010867 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400010868 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400010869 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010870 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 290400010871 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400010872 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 290400010873 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400010874 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 290400010875 NAD binding site [chemical binding]; other site 290400010876 catalytic residues [active] 290400010877 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290400010878 classical (c) SDRs; Region: SDR_c; cd05233 290400010879 NAD(P) binding site [chemical binding]; other site 290400010880 active site 290400010881 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-1; cd12808 290400010882 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400010883 catalytic site [active] 290400010884 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290400010885 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010886 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 290400010887 DctM-like transporters; Region: DctM; pfam06808 290400010888 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 290400010889 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400010890 MarR family; Region: MarR_2; pfam12802 290400010891 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 290400010892 CoA-transferase family III; Region: CoA_transf_3; pfam02515 290400010893 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 290400010894 active site 290400010895 catalytic residues [active] 290400010896 metal binding site [ion binding]; metal-binding site 290400010897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 290400010898 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 290400010899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 290400010900 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290400010901 classical (c) SDRs; Region: SDR_c; cd05233 290400010902 NAD(P) binding site [chemical binding]; other site 290400010903 active site 290400010904 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 290400010905 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400010906 DNA-binding site [nucleotide binding]; DNA binding site 290400010907 FCD domain; Region: FCD; pfam07729 290400010908 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400010909 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 290400010910 NAD(P) binding site [chemical binding]; other site 290400010911 catalytic residues [active] 290400010912 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290400010913 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400010914 DctM-like transporters; Region: DctM; pfam06808 290400010915 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400010916 OsmC-like protein; Region: OsmC; pfam02566 290400010917 OsmC-like protein; Region: OsmC; pfam02566 290400010918 hypothetical protein; Provisional; Region: PRK06126 290400010919 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400010920 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400010921 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 290400010922 NAD(P) binding site [chemical binding]; other site 290400010923 catalytic residues [active] 290400010924 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400010925 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 290400010926 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400010927 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 290400010928 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 290400010929 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 290400010930 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400010931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400010932 Coenzyme A binding pocket [chemical binding]; other site 290400010933 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 290400010934 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 290400010935 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 290400010936 putative active site [active] 290400010937 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: PRK12570 290400010938 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 290400010939 putative active site [active] 290400010940 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400010941 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_11; cd08516 290400010942 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400010943 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 290400010944 dimer interface [polypeptide binding]; other site 290400010945 conserved gate region; other site 290400010946 putative PBP binding loops; other site 290400010947 ABC-ATPase subunit interface; other site 290400010948 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 290400010949 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 290400010950 putative PBP binding loops; other site 290400010951 dimer interface [polypeptide binding]; other site 290400010952 ABC-ATPase subunit interface; other site 290400010953 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400010954 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400010955 Walker A/P-loop; other site 290400010956 ATP binding site [chemical binding]; other site 290400010957 Q-loop/lid; other site 290400010958 ABC transporter signature motif; other site 290400010959 Walker B; other site 290400010960 D-loop; other site 290400010961 H-loop/switch region; other site 290400010962 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400010963 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400010964 Walker A/P-loop; other site 290400010965 ATP binding site [chemical binding]; other site 290400010966 Q-loop/lid; other site 290400010967 ABC transporter signature motif; other site 290400010968 Walker B; other site 290400010969 D-loop; other site 290400010970 H-loop/switch region; other site 290400010971 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290400010972 Beta-lactamase; Region: Beta-lactamase; pfam00144 290400010973 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 290400010974 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 290400010975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400010976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400010977 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 290400010978 dimerization interface [polypeptide binding]; other site 290400010979 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 290400010980 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 290400010981 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 290400010982 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 290400010983 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 290400010984 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 290400010985 putative NAD(P) binding site [chemical binding]; other site 290400010986 putative active site [active] 290400010987 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 290400010988 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 290400010989 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 290400010990 Uncharacterized conserved protein [Function unknown]; Region: COG5476 290400010991 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 290400010992 MlrC C-terminus; Region: MlrC_C; pfam07171 290400010993 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 290400010994 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 290400010995 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400010996 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 290400010997 dimer interface [polypeptide binding]; other site 290400010998 conserved gate region; other site 290400010999 ABC-ATPase subunit interface; other site 290400011000 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 290400011001 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 290400011002 dimer interface [polypeptide binding]; other site 290400011003 conserved gate region; other site 290400011004 putative PBP binding loops; other site 290400011005 ABC-ATPase subunit interface; other site 290400011006 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 290400011007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400011008 Walker A/P-loop; other site 290400011009 ATP binding site [chemical binding]; other site 290400011010 Q-loop/lid; other site 290400011011 ABC transporter signature motif; other site 290400011012 Walker B; other site 290400011013 D-loop; other site 290400011014 H-loop/switch region; other site 290400011015 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400011016 Walker A/P-loop; other site 290400011017 ATP binding site [chemical binding]; other site 290400011018 Q-loop/lid; other site 290400011019 ABC transporter signature motif; other site 290400011020 Walker B; other site 290400011021 D-loop; other site 290400011022 H-loop/switch region; other site 290400011023 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290400011024 hypothetical protein; Provisional; Region: PRK07524 290400011025 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 290400011026 PYR/PP interface [polypeptide binding]; other site 290400011027 dimer interface [polypeptide binding]; other site 290400011028 TPP binding site [chemical binding]; other site 290400011029 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 290400011030 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 290400011031 TPP-binding site [chemical binding]; other site 290400011032 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 290400011033 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 290400011034 conserved cys residue [active] 290400011035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400011036 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 290400011037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400011038 active site 290400011039 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 290400011040 CoA binding domain; Region: CoA_binding_2; pfam13380 290400011041 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 290400011042 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 290400011043 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 290400011044 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 290400011045 substrate binding site [chemical binding]; other site 290400011046 oxyanion hole (OAH) forming residues; other site 290400011047 trimer interface [polypeptide binding]; other site 290400011048 Uncharacterized conserved protein [Function unknown]; Region: COG3246 290400011049 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 290400011050 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 290400011051 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 290400011052 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 290400011053 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 290400011054 active site 290400011055 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 290400011056 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 290400011057 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 290400011058 succinic semialdehyde dehydrogenase; Region: PLN02278 290400011059 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 290400011060 tetramerization interface [polypeptide binding]; other site 290400011061 NAD(P) binding site [chemical binding]; other site 290400011062 catalytic residues [active] 290400011063 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 290400011064 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 290400011065 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 290400011066 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 290400011067 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 290400011068 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 290400011069 active site 290400011070 intersubunit interface [polypeptide binding]; other site 290400011071 catalytic residue [active] 290400011072 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 290400011073 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 290400011074 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 290400011075 classical (c) SDRs; Region: SDR_c; cd05233 290400011076 NAD(P) binding site [chemical binding]; other site 290400011077 active site 290400011078 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 290400011079 Melibiase; Region: Melibiase; pfam02065 290400011080 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011081 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 290400011082 dimer interface [polypeptide binding]; other site 290400011083 conserved gate region; other site 290400011084 putative PBP binding loops; other site 290400011085 ABC-ATPase subunit interface; other site 290400011086 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 290400011087 dimer interface [polypeptide binding]; other site 290400011088 conserved gate region; other site 290400011089 putative PBP binding loops; other site 290400011090 ABC-ATPase subunit interface; other site 290400011091 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400011092 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400011093 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400011094 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290400011095 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400011096 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400011097 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400011098 Walker A/P-loop; other site 290400011099 ATP binding site [chemical binding]; other site 290400011100 Q-loop/lid; other site 290400011101 ABC transporter signature motif; other site 290400011102 Walker B; other site 290400011103 D-loop; other site 290400011104 H-loop/switch region; other site 290400011105 TOBE domain; Region: TOBE_2; pfam08402 290400011106 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 290400011107 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 290400011108 substrate binding site; other site 290400011109 tetramer interface; other site 290400011110 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 290400011111 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 290400011112 NADP binding site [chemical binding]; other site 290400011113 active site 290400011114 putative substrate binding site [chemical binding]; other site 290400011115 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 290400011116 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 290400011117 NAD binding site [chemical binding]; other site 290400011118 substrate binding site [chemical binding]; other site 290400011119 homodimer interface [polypeptide binding]; other site 290400011120 active site 290400011121 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 290400011122 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 290400011123 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 290400011124 domain interfaces; other site 290400011125 active site 290400011126 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 290400011127 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 290400011128 substrate binding site [chemical binding]; other site 290400011129 active site 290400011130 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 290400011131 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 290400011132 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 290400011133 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 290400011134 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 290400011135 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 290400011136 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 290400011137 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 290400011138 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 290400011139 metal-binding site [ion binding] 290400011140 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 290400011141 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 290400011142 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 290400011143 FixH; Region: FixH; pfam05751 290400011144 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 290400011145 4Fe-4S binding domain; Region: Fer4_5; pfam12801 290400011146 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 290400011147 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 290400011148 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 290400011149 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 290400011150 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 290400011151 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 290400011152 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 290400011153 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 290400011154 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 290400011155 Low-spin heme binding site [chemical binding]; other site 290400011156 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 290400011157 Putative water exit pathway; other site 290400011158 Binuclear center (active site) [active] 290400011159 Putative proton exit pathway; other site 290400011160 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 290400011161 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400011162 ligand binding site [chemical binding]; other site 290400011163 flexible hinge region; other site 290400011164 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 290400011165 putative switch regulator; other site 290400011166 non-specific DNA interactions [nucleotide binding]; other site 290400011167 DNA binding site [nucleotide binding] 290400011168 sequence specific DNA binding site [nucleotide binding]; other site 290400011169 putative cAMP binding site [chemical binding]; other site 290400011170 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 290400011171 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 290400011172 FeS/SAM binding site; other site 290400011173 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 290400011174 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400011175 Walker A/P-loop; other site 290400011176 ATP binding site [chemical binding]; other site 290400011177 Q-loop/lid; other site 290400011178 ABC transporter signature motif; other site 290400011179 Walker B; other site 290400011180 D-loop; other site 290400011181 H-loop/switch region; other site 290400011182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 290400011183 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400011184 Walker A/P-loop; other site 290400011185 ATP binding site [chemical binding]; other site 290400011186 Q-loop/lid; other site 290400011187 ABC transporter signature motif; other site 290400011188 Walker B; other site 290400011189 D-loop; other site 290400011190 H-loop/switch region; other site 290400011191 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 290400011192 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 290400011193 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 290400011194 dimer interface [polypeptide binding]; other site 290400011195 conserved gate region; other site 290400011196 putative PBP binding loops; other site 290400011197 ABC-ATPase subunit interface; other site 290400011198 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 290400011199 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 290400011200 dimer interface [polypeptide binding]; other site 290400011201 conserved gate region; other site 290400011202 ABC-ATPase subunit interface; other site 290400011203 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 290400011204 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 290400011205 Cytochrome c2 [Energy production and conversion]; Region: COG3474 290400011206 prephenate dehydratase; Provisional; Region: PRK11899 290400011207 Prephenate dehydratase; Region: PDT; pfam00800 290400011208 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 290400011209 putative L-Phe binding site [chemical binding]; other site 290400011210 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 290400011211 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 290400011212 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 290400011213 active site 290400011214 metal binding site [ion binding]; metal-binding site 290400011215 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 290400011216 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 290400011217 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 290400011218 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 290400011219 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 290400011220 putative NADH binding site [chemical binding]; other site 290400011221 putative active site [active] 290400011222 nudix motif; other site 290400011223 putative metal binding site [ion binding]; other site 290400011224 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 290400011225 hydrophobic ligand binding site; other site 290400011226 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 290400011227 Predicted metalloprotease [General function prediction only]; Region: COG2321 290400011228 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 290400011229 GTPase RsgA; Reviewed; Region: PRK01889 290400011230 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 290400011231 GTPase/Zn-binding domain interface [polypeptide binding]; other site 290400011232 GTP/Mg2+ binding site [chemical binding]; other site 290400011233 G4 box; other site 290400011234 G5 box; other site 290400011235 G1 box; other site 290400011236 Switch I region; other site 290400011237 G2 box; other site 290400011238 G3 box; other site 290400011239 Switch II region; other site 290400011240 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 290400011241 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 290400011242 Domain of unknown function (DUF202); Region: DUF202; pfam02656 290400011243 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 290400011244 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 290400011245 Walker A motif; other site 290400011246 ATP binding site [chemical binding]; other site 290400011247 Walker B motif; other site 290400011248 arginine finger; other site 290400011249 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 290400011250 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 290400011251 hypothetical protein; Validated; Region: PRK00153 290400011252 recombination protein RecR; Reviewed; Region: recR; PRK00076 290400011253 RecR protein; Region: RecR; pfam02132 290400011254 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 290400011255 putative active site [active] 290400011256 putative metal-binding site [ion binding]; other site 290400011257 tetramer interface [polypeptide binding]; other site 290400011258 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 290400011259 B1 nucleotide binding pocket [chemical binding]; other site 290400011260 B2 nucleotide binding pocket [chemical binding]; other site 290400011261 CAS motifs; other site 290400011262 active site 290400011263 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 290400011264 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 290400011265 classical (c) SDRs; Region: SDR_c; cd05233 290400011266 NAD(P) binding site [chemical binding]; other site 290400011267 active site 290400011268 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 290400011269 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 290400011270 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 290400011271 S-adenosylmethionine binding site [chemical binding]; other site 290400011272 Uncharacterized conserved protein [Function unknown]; Region: COG2127 290400011273 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 290400011274 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 290400011275 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 290400011276 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 290400011277 NAD(P) binding site [chemical binding]; other site 290400011278 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 290400011279 COQ9; Region: COQ9; pfam08511 290400011280 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 290400011281 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 290400011282 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 290400011283 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 290400011284 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 290400011285 active site 290400011286 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 290400011287 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 290400011288 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 290400011289 hypothetical protein; Validated; Region: PRK00228 290400011290 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 290400011291 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 290400011292 Protein export membrane protein; Region: SecD_SecF; cl14618 290400011293 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 290400011294 HlyD family secretion protein; Region: HlyD_3; pfam13437 290400011295 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 290400011296 MPT binding site; other site 290400011297 trimer interface [polypeptide binding]; other site 290400011298 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 290400011299 Fe-S cluster binding site [ion binding]; other site 290400011300 active site 290400011301 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 290400011302 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 290400011303 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 290400011304 dihydroorotase; Validated; Region: PRK09059 290400011305 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 290400011306 active site 290400011307 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 290400011308 Protein of unknown function (DUF805); Region: DUF805; pfam05656 290400011309 Protein of unknown function (DUF805); Region: DUF805; pfam05656 290400011310 glutamate--cysteine ligase; Region: PLN02611 290400011311 RNA methyltransferase, RsmE family; Region: TIGR00046 290400011312 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 290400011313 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 290400011314 UbiA prenyltransferase family; Region: UbiA; pfam01040 290400011315 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 290400011316 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 290400011317 ligand binding site [chemical binding]; other site 290400011318 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 290400011319 MoaE homodimer interface [polypeptide binding]; other site 290400011320 MoaD interaction [polypeptide binding]; other site 290400011321 active site residues [active] 290400011322 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 290400011323 MoaE interaction surface [polypeptide binding]; other site 290400011324 MoeB interaction surface [polypeptide binding]; other site 290400011325 thiocarboxylated glycine; other site 290400011326 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 290400011327 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 290400011328 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 290400011329 GIY-YIG motif/motif A; other site 290400011330 active site 290400011331 catalytic site [active] 290400011332 putative DNA binding site [nucleotide binding]; other site 290400011333 metal binding site [ion binding]; metal-binding site 290400011334 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 290400011335 short chain dehydrogenase; Provisional; Region: PRK09134 290400011336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400011337 NAD(P) binding site [chemical binding]; other site 290400011338 active site 290400011339 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 290400011340 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290400011341 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 290400011342 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 290400011343 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 290400011344 tandem repeat interface [polypeptide binding]; other site 290400011345 oligomer interface [polypeptide binding]; other site 290400011346 active site residues [active] 290400011347 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 290400011348 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 290400011349 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 290400011350 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 290400011351 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 290400011352 MOFRL family; Region: MOFRL; pfam05161 290400011353 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400011354 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400011355 DNA binding site [nucleotide binding] 290400011356 domain linker motif; other site 290400011357 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 290400011358 putative dimerization interface [polypeptide binding]; other site 290400011359 putative ligand binding site [chemical binding]; other site 290400011360 Protein of unknown function (DUF993); Region: DUF993; pfam06187 290400011361 choline dehydrogenase; Validated; Region: PRK02106 290400011362 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290400011363 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 290400011364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400011365 NAD(P) binding site [chemical binding]; other site 290400011366 active site 290400011367 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 290400011368 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 290400011369 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400011370 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400011371 Walker A/P-loop; other site 290400011372 ATP binding site [chemical binding]; other site 290400011373 Q-loop/lid; other site 290400011374 ABC transporter signature motif; other site 290400011375 Walker B; other site 290400011376 D-loop; other site 290400011377 H-loop/switch region; other site 290400011378 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011379 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 290400011380 dimer interface [polypeptide binding]; other site 290400011381 conserved gate region; other site 290400011382 putative PBP binding loops; other site 290400011383 ABC-ATPase subunit interface; other site 290400011384 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400011385 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 290400011386 dimer interface [polypeptide binding]; other site 290400011387 conserved gate region; other site 290400011388 putative PBP binding loops; other site 290400011389 ABC-ATPase subunit interface; other site 290400011390 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400011391 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400011392 Transcriptional regulators [Transcription]; Region: PurR; COG1609 290400011393 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 290400011394 DNA binding site [nucleotide binding] 290400011395 domain linker motif; other site 290400011396 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 290400011397 ligand binding site [chemical binding]; other site 290400011398 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 290400011399 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400011400 NAD(P) binding site [chemical binding]; other site 290400011401 catalytic residues [active] 290400011402 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 290400011403 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 290400011404 substrate binding site [chemical binding]; other site 290400011405 oxyanion hole (OAH) forming residues; other site 290400011406 trimer interface [polypeptide binding]; other site 290400011407 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 290400011408 Coenzyme A transferase; Region: CoA_trans; smart00882 290400011409 Coenzyme A transferase; Region: CoA_trans; cl17247 290400011410 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400011411 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400011412 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400011413 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400011414 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400011415 Walker A/P-loop; other site 290400011416 ATP binding site [chemical binding]; other site 290400011417 Q-loop/lid; other site 290400011418 ABC transporter signature motif; other site 290400011419 Walker B; other site 290400011420 D-loop; other site 290400011421 H-loop/switch region; other site 290400011422 TOBE domain; Region: TOBE_2; pfam08402 290400011423 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011424 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 290400011425 dimer interface [polypeptide binding]; other site 290400011426 conserved gate region; other site 290400011427 ABC-ATPase subunit interface; other site 290400011428 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 290400011429 dimer interface [polypeptide binding]; other site 290400011430 conserved gate region; other site 290400011431 ABC-ATPase subunit interface; other site 290400011432 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 290400011433 Transcriptional regulators [Transcription]; Region: MarR; COG1846 290400011434 MarR family; Region: MarR_2; pfam12802 290400011435 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 290400011436 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 290400011437 ABC-ATPase subunit interface; other site 290400011438 putative PBP binding loops; other site 290400011439 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 290400011440 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 290400011441 Walker A/P-loop; other site 290400011442 ATP binding site [chemical binding]; other site 290400011443 Q-loop/lid; other site 290400011444 ABC transporter signature motif; other site 290400011445 Walker B; other site 290400011446 D-loop; other site 290400011447 H-loop/switch region; other site 290400011448 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 290400011449 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 290400011450 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 290400011451 Transcriptional regulator [Transcription]; Region: IclR; COG1414 290400011452 Bacterial transcriptional regulator; Region: IclR; pfam01614 290400011453 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 290400011454 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 290400011455 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 290400011456 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 290400011457 iron-sulfur cluster [ion binding]; other site 290400011458 [2Fe-2S] cluster binding site [ion binding]; other site 290400011459 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 290400011460 alpha subunit interface [polypeptide binding]; other site 290400011461 active site 290400011462 substrate binding site [chemical binding]; other site 290400011463 Fe binding site [ion binding]; other site 290400011464 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290400011465 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 290400011466 putative DNA binding site [nucleotide binding]; other site 290400011467 putative Zn2+ binding site [ion binding]; other site 290400011468 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 290400011469 dimerization interface [polypeptide binding]; other site 290400011470 substrate binding pocket [chemical binding]; other site 290400011471 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 290400011472 Fatty acid desaturase; Region: FA_desaturase; pfam00487 290400011473 putative di-iron ligands [ion binding]; other site 290400011474 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 290400011475 [2Fe-2S] cluster binding site [ion binding]; other site 290400011476 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 290400011477 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 290400011478 dimer interface [polypeptide binding]; other site 290400011479 conserved gate region; other site 290400011480 ABC-ATPase subunit interface; other site 290400011481 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 290400011482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 290400011483 substrate binding pocket [chemical binding]; other site 290400011484 membrane-bound complex binding site; other site 290400011485 hinge residues; other site 290400011486 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 290400011487 putative PBP binding loops; other site 290400011488 dimer interface [polypeptide binding]; other site 290400011489 ABC-ATPase subunit interface; other site 290400011490 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 290400011491 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 290400011492 Walker A/P-loop; other site 290400011493 ATP binding site [chemical binding]; other site 290400011494 Q-loop/lid; other site 290400011495 ABC transporter signature motif; other site 290400011496 Walker B; other site 290400011497 D-loop; other site 290400011498 H-loop/switch region; other site 290400011499 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 290400011500 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 290400011501 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 290400011502 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 290400011503 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 290400011504 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 290400011505 putative NAD(P) binding site [chemical binding]; other site 290400011506 catalytic Zn binding site [ion binding]; other site 290400011507 structural Zn binding site [ion binding]; other site 290400011508 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 290400011509 dimer interface [polypeptide binding]; other site 290400011510 FMN binding site [chemical binding]; other site 290400011511 NADPH bind site [chemical binding]; other site 290400011512 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 290400011513 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 290400011514 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 290400011515 Iron-sulfur protein interface; other site 290400011516 proximal heme binding site [chemical binding]; other site 290400011517 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 290400011518 proximal heme binding site [chemical binding]; other site 290400011519 Iron-sulfur protein interface; other site 290400011520 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06263 290400011521 L-aspartate oxidase; Provisional; Region: PRK06175 290400011522 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 290400011523 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 290400011524 Fumarase C-terminus; Region: Fumerase_C; cl00795 290400011525 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 290400011526 Transcriptional regulator [Transcription]; Region: LysR; COG0583 290400011527 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400011528 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 290400011529 putative dimerization interface [polypeptide binding]; other site 290400011530 reductive dehalogenase; Region: RDH; TIGR02486 290400011531 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 290400011532 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 290400011533 FMN-binding pocket [chemical binding]; other site 290400011534 flavin binding motif; other site 290400011535 phosphate binding motif [ion binding]; other site 290400011536 beta-alpha-beta structure motif; other site 290400011537 NAD binding pocket [chemical binding]; other site 290400011538 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 290400011539 catalytic loop [active] 290400011540 iron binding site [ion binding]; other site 290400011541 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 290400011542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 290400011543 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 290400011544 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 290400011545 FMN binding site [chemical binding]; other site 290400011546 substrate binding site [chemical binding]; other site 290400011547 putative catalytic residue [active] 290400011548 Amidase; Region: Amidase; cl11426 290400011549 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 290400011550 TMAO/DMSO reductase; Reviewed; Region: PRK05363 290400011551 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 290400011552 Moco binding site; other site 290400011553 metal coordination site [ion binding]; other site 290400011554 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 290400011555 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 290400011556 active site 290400011557 FMN binding site [chemical binding]; other site 290400011558 substrate binding site [chemical binding]; other site 290400011559 3Fe-4S cluster binding site [ion binding]; other site 290400011560 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 290400011561 Fasciclin domain; Region: Fasciclin; pfam02469 290400011562 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 290400011563 Fasciclin domain; Region: Fasciclin; pfam02469 290400011564 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 290400011565 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 290400011566 Clp amino terminal domain; Region: Clp_N; pfam02861 290400011567 Clp amino terminal domain; Region: Clp_N; pfam02861 290400011568 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 290400011569 Walker A motif; other site 290400011570 ATP binding site [chemical binding]; other site 290400011571 Walker B motif; other site 290400011572 arginine finger; other site 290400011573 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 290400011574 Walker A motif; other site 290400011575 ATP binding site [chemical binding]; other site 290400011576 Walker B motif; other site 290400011577 arginine finger; other site 290400011578 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 290400011579 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 290400011580 active site 290400011581 dimer interface [polypeptide binding]; other site 290400011582 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 290400011583 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 290400011584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 290400011585 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 290400011586 Coenzyme A binding pocket [chemical binding]; other site 290400011587 DNA polymerase IV; Provisional; Region: PRK02794 290400011588 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 290400011589 active site 290400011590 DNA binding site [nucleotide binding] 290400011591 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 290400011592 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 290400011593 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 290400011594 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400011595 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 290400011596 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 290400011597 EF-hand domain pair; Region: EF_hand_5; pfam13499 290400011598 Ca2+ binding site [ion binding]; other site 290400011599 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400011600 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 290400011601 acyl-activating enzyme (AAE) consensus motif; other site 290400011602 AMP binding site [chemical binding]; other site 290400011603 active site 290400011604 CoA binding site [chemical binding]; other site 290400011605 Cupin domain; Region: Cupin_2; pfam07883 290400011606 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 290400011607 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 290400011608 Walker A/P-loop; other site 290400011609 ATP binding site [chemical binding]; other site 290400011610 Q-loop/lid; other site 290400011611 ABC transporter signature motif; other site 290400011612 Walker B; other site 290400011613 D-loop; other site 290400011614 H-loop/switch region; other site 290400011615 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 290400011616 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 290400011617 putative ligand binding site [chemical binding]; other site 290400011618 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 290400011619 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 290400011620 TM-ABC transporter signature motif; other site 290400011621 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 290400011622 TM-ABC transporter signature motif; other site 290400011623 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 290400011624 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 290400011625 Walker A/P-loop; other site 290400011626 ATP binding site [chemical binding]; other site 290400011627 Q-loop/lid; other site 290400011628 ABC transporter signature motif; other site 290400011629 Walker B; other site 290400011630 D-loop; other site 290400011631 H-loop/switch region; other site 290400011632 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 290400011633 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400011634 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 290400011635 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 290400011636 acyl-activating enzyme (AAE) consensus motif; other site 290400011637 acyl-activating enzyme (AAE) consensus motif; other site 290400011638 putative AMP binding site [chemical binding]; other site 290400011639 putative active site [active] 290400011640 putative CoA binding site [chemical binding]; other site 290400011641 PAS fold; Region: PAS_7; pfam12860 290400011642 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 290400011643 ATP binding site [chemical binding]; other site 290400011644 Mg2+ binding site [ion binding]; other site 290400011645 G-X-G motif; other site 290400011646 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 290400011647 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 290400011648 active site 290400011649 phosphorylation site [posttranslational modification] 290400011650 intermolecular recognition site; other site 290400011651 dimerization interface [polypeptide binding]; other site 290400011652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 290400011653 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 290400011654 active site 290400011655 phosphorylation site [posttranslational modification] 290400011656 intermolecular recognition site; other site 290400011657 dimerization interface [polypeptide binding]; other site 290400011658 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 290400011659 DNA binding site [nucleotide binding] 290400011660 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 290400011661 active site 290400011662 ligand binding site [chemical binding]; other site 290400011663 homodimer interface [polypeptide binding]; other site 290400011664 NAD(P) binding site [chemical binding]; other site 290400011665 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 290400011666 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07666 290400011667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 290400011668 NAD(P) binding site [chemical binding]; other site 290400011669 active site 290400011670 MFS/sugar transport protein; Region: MFS_2; pfam13347 290400011671 MFS/sugar transport protein; Region: MFS_2; pfam13347 290400011672 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 290400011673 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 290400011674 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 290400011675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 290400011676 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 290400011677 DNA binding residues [nucleotide binding] 290400011678 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 290400011679 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 290400011680 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 290400011681 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 290400011682 active site 290400011683 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 290400011684 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400011685 NAD binding site [chemical binding]; other site 290400011686 catalytic residues [active] 290400011687 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 290400011688 dimer interface [polypeptide binding]; other site 290400011689 putative peroxiredoxin; Provisional; Region: PRK13190 290400011690 decamer (pentamer of dimers) interface [polypeptide binding]; other site 290400011691 catalytic triad [active] 290400011692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 290400011693 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 290400011694 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 290400011695 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 290400011696 RNase E interface [polypeptide binding]; other site 290400011697 trimer interface [polypeptide binding]; other site 290400011698 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 290400011699 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 290400011700 RNase E interface [polypeptide binding]; other site 290400011701 trimer interface [polypeptide binding]; other site 290400011702 active site 290400011703 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 290400011704 putative nucleic acid binding region [nucleotide binding]; other site 290400011705 G-X-X-G motif; other site 290400011706 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 290400011707 RNA binding site [nucleotide binding]; other site 290400011708 domain interface; other site 290400011709 NTPase; Region: NTPase_1; cl17478 290400011710 AAA domain; Region: AAA_28; pfam13521 290400011711 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 290400011712 16S/18S rRNA binding site [nucleotide binding]; other site 290400011713 S13e-L30e interaction site [polypeptide binding]; other site 290400011714 25S rRNA binding site [nucleotide binding]; other site 290400011715 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 290400011716 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 290400011717 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 290400011718 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 290400011719 RNA binding site [nucleotide binding]; other site 290400011720 active site 290400011721 Predicted periplasmic protein [Function unknown]; Region: COG3698 290400011722 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 290400011723 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 290400011724 dihydrodipicolinate reductase; Provisional; Region: PRK00048 290400011725 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 290400011726 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 290400011727 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 290400011728 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 290400011729 16S rRNA methyltransferase B; Provisional; Region: PRK10901 290400011730 NusB family; Region: NusB; pfam01029 290400011731 putative RNA binding site [nucleotide binding]; other site 290400011732 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 290400011733 S-adenosylmethionine binding site [chemical binding]; other site 290400011734 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 290400011735 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 290400011736 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 290400011737 purine monophosphate binding site [chemical binding]; other site 290400011738 dimer interface [polypeptide binding]; other site 290400011739 putative catalytic residues [active] 290400011740 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 290400011741 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 290400011742 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 290400011743 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 290400011744 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290400011745 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290400011746 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290400011747 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 290400011748 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 290400011749 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 290400011750 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 290400011751 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 290400011752 ATP binding site [chemical binding]; other site 290400011753 Mg2+ binding site [ion binding]; other site 290400011754 G-X-G motif; other site 290400011755 DNA mismatch repair protein, C-terminal domain; Region: DNA_mis_repair; pfam01119 290400011756 ATP binding site [chemical binding]; other site 290400011757 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 290400011758 RmuC family; Region: RmuC; pfam02646 290400011759 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 290400011760 GAF domain; Region: GAF_2; pfam13185 290400011761 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 290400011762 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 290400011763 dimer interface [polypeptide binding]; other site 290400011764 active site 290400011765 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 290400011766 anti sigma factor interaction site; other site 290400011767 regulatory phosphorylation site [posttranslational modification]; other site 290400011768 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 290400011769 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 290400011770 ATP binding site [chemical binding]; other site 290400011771 Mg2+ binding site [ion binding]; other site 290400011772 G-X-G motif; other site 290400011773 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 290400011774 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 290400011775 Transglycosylase; Region: Transgly; pfam00912 290400011776 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 290400011777 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 290400011778 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 290400011779 Nitrogen regulatory protein P-II; Region: P-II; smart00938 290400011780 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 290400011781 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 290400011782 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400011783 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 290400011784 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 290400011785 Cu(I) binding site [ion binding]; other site 290400011786 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 290400011787 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 290400011788 dimer interface [polypeptide binding]; other site 290400011789 phosphorylation site [posttranslational modification] 290400011790 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 290400011791 ATP binding site [chemical binding]; other site 290400011792 Mg2+ binding site [ion binding]; other site 290400011793 G-X-G motif; other site 290400011794 PAS fold; Region: PAS_7; pfam12860 290400011795 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 290400011796 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 290400011797 Phosphotransferase enzyme family; Region: APH; pfam01636 290400011798 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 290400011799 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 290400011800 Substrate binding site; other site 290400011801 metal-binding site 290400011802 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 290400011803 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290400011804 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 290400011805 Part of AAA domain; Region: AAA_19; pfam13245 290400011806 Family description; Region: UvrD_C_2; pfam13538 290400011807 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 290400011808 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 290400011809 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 290400011810 catalytic residues [active] 290400011811 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 290400011812 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 290400011813 active site 290400011814 phosphorylation site [posttranslational modification] 290400011815 intermolecular recognition site; other site 290400011816 dimerization interface [polypeptide binding]; other site 290400011817 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 290400011818 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290400011819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400011820 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 290400011821 dimerization interface [polypeptide binding]; other site 290400011822 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 290400011823 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 290400011824 Coenzyme A binding pocket [chemical binding]; other site 290400011825 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 290400011826 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 290400011827 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 290400011828 homotetramer interface [polypeptide binding]; other site 290400011829 ligand binding site [chemical binding]; other site 290400011830 catalytic site [active] 290400011831 NAD binding site [chemical binding]; other site 290400011832 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 290400011833 Electron transfer DM13; Region: DM13; pfam10517 290400011834 EVE domain; Region: EVE; cl00728 290400011835 YciI-like protein; Reviewed; Region: PRK12863 290400011836 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 290400011837 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 290400011838 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 290400011839 UGMP family protein; Validated; Region: PRK09604 290400011840 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 290400011841 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 290400011842 active site 290400011843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 290400011844 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 290400011845 HemY protein N-terminus; Region: HemY_N; pfam07219 290400011846 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 290400011847 Cupin domain; Region: Cupin_2; pfam07883 290400011848 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 290400011849 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 290400011850 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 290400011851 Walker A/P-loop; other site 290400011852 ATP binding site [chemical binding]; other site 290400011853 Q-loop/lid; other site 290400011854 ABC transporter signature motif; other site 290400011855 Walker B; other site 290400011856 D-loop; other site 290400011857 H-loop/switch region; other site 290400011858 TOBE domain; Region: TOBE_2; pfam08402 290400011859 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011860 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 290400011861 dimer interface [polypeptide binding]; other site 290400011862 conserved gate region; other site 290400011863 putative PBP binding loops; other site 290400011864 ABC-ATPase subunit interface; other site 290400011865 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 290400011866 putative PBP binding loops; other site 290400011867 dimer interface [polypeptide binding]; other site 290400011868 ABC-ATPase subunit interface; other site 290400011869 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400011870 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 290400011871 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 290400011872 active site 290400011873 metal binding site [ion binding]; metal-binding site 290400011874 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400011875 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 290400011876 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 290400011877 Walker A/P-loop; other site 290400011878 ATP binding site [chemical binding]; other site 290400011879 Q-loop/lid; other site 290400011880 ABC transporter signature motif; other site 290400011881 Walker B; other site 290400011882 D-loop; other site 290400011883 H-loop/switch region; other site 290400011884 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 290400011885 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH2; cd08183 290400011886 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 290400011887 putative active site [active] 290400011888 metal binding site [ion binding]; metal-binding site 290400011889 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 290400011890 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 290400011891 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011892 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 290400011893 dimer interface [polypeptide binding]; other site 290400011894 conserved gate region; other site 290400011895 putative PBP binding loops; other site 290400011896 ABC-ATPase subunit interface; other site 290400011897 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 290400011898 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 290400011899 dimer interface [polypeptide binding]; other site 290400011900 conserved gate region; other site 290400011901 putative PBP binding loops; other site 290400011902 ABC-ATPase subunit interface; other site 290400011903 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400011904 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290400011905 Walker A/P-loop; other site 290400011906 ATP binding site [chemical binding]; other site 290400011907 Q-loop/lid; other site 290400011908 ABC transporter signature motif; other site 290400011909 Walker B; other site 290400011910 D-loop; other site 290400011911 H-loop/switch region; other site 290400011912 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 290400011913 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 290400011914 Walker A/P-loop; other site 290400011915 ATP binding site [chemical binding]; other site 290400011916 Q-loop/lid; other site 290400011917 ABC transporter signature motif; other site 290400011918 Walker B; other site 290400011919 D-loop; other site 290400011920 H-loop/switch region; other site 290400011921 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 290400011922 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 290400011923 dimer interface [polypeptide binding]; other site 290400011924 conserved gate region; other site 290400011925 putative PBP binding loops; other site 290400011926 ABC-ATPase subunit interface; other site 290400011927 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 290400011928 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 290400011929 dimer interface [polypeptide binding]; other site 290400011930 conserved gate region; other site 290400011931 putative PBP binding loops; other site 290400011932 ABC-ATPase subunit interface; other site 290400011933 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_8; cd06905 290400011934 putative active site [active] 290400011935 Zn binding site [ion binding]; other site 290400011936 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 290400011937 hypothetical protein; Provisional; Region: PRK06446 290400011938 metal binding site [ion binding]; metal-binding site 290400011939 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 290400011940 classical (c) SDRs; Region: SDR_c; cd05233 290400011941 NAD(P) binding site [chemical binding]; other site 290400011942 active site 290400011943 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400011944 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400011945 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400011946 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400011947 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400011948 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400011949 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 290400011950 extended (e) SDRs; Region: SDR_e; cd08946 290400011951 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 290400011952 NAD(P) binding site [chemical binding]; other site 290400011953 active site 290400011954 substrate binding site [chemical binding]; other site 290400011955 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 290400011956 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 290400011957 inhibitor site; inhibition site 290400011958 active site 290400011959 dimer interface [polypeptide binding]; other site 290400011960 catalytic residue [active] 290400011961 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 290400011962 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 290400011963 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 290400011964 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 290400011965 active site 290400011966 catalytic site [active] 290400011967 tetramer interface [polypeptide binding]; other site 290400011968 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 290400011969 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 290400011970 active site 290400011971 Zn binding site [ion binding]; other site 290400011972 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 290400011973 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 290400011974 dimer interface [polypeptide binding]; other site 290400011975 substrate binding site [chemical binding]; other site 290400011976 metal binding site [ion binding]; metal-binding site 290400011977 aspartate aminotransferase; Provisional; Region: PRK05764 290400011978 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 290400011979 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400011980 homodimer interface [polypeptide binding]; other site 290400011981 catalytic residue [active] 290400011982 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 290400011983 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 290400011984 active site 290400011985 Zn binding site [ion binding]; other site 290400011986 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 290400011987 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400011988 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400011989 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290400011990 active site 290400011991 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 290400011992 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 290400011993 active site 290400011994 aspartate aminotransferase; Provisional; Region: PRK05764 290400011995 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 290400011996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 290400011997 homodimer interface [polypeptide binding]; other site 290400011998 catalytic residue [active] 290400011999 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 290400012000 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 290400012001 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 290400012002 active site 290400012003 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 290400012004 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 290400012005 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 290400012006 dimer interface [polypeptide binding]; other site 290400012007 conserved gate region; other site 290400012008 putative PBP binding loops; other site 290400012009 ABC-ATPase subunit interface; other site 290400012010 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 290400012011 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 290400012012 dimer interface [polypeptide binding]; other site 290400012013 conserved gate region; other site 290400012014 ABC-ATPase subunit interface; other site 290400012015 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 290400012016 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400012017 Walker A/P-loop; other site 290400012018 ATP binding site [chemical binding]; other site 290400012019 Q-loop/lid; other site 290400012020 ABC transporter signature motif; other site 290400012021 Walker B; other site 290400012022 D-loop; other site 290400012023 H-loop/switch region; other site 290400012024 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290400012025 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 290400012026 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 290400012027 Walker A/P-loop; other site 290400012028 ATP binding site [chemical binding]; other site 290400012029 Q-loop/lid; other site 290400012030 ABC transporter signature motif; other site 290400012031 Walker B; other site 290400012032 D-loop; other site 290400012033 H-loop/switch region; other site 290400012034 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 290400012035 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400012036 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400012037 DNA-binding site [nucleotide binding]; DNA binding site 290400012038 FCD domain; Region: FCD; pfam07729 290400012039 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 290400012040 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 290400012041 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 290400012042 DctM-like transporters; Region: DctM; pfam06808 290400012043 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 290400012044 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 290400012045 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 290400012046 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 290400012047 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 290400012048 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 290400012049 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 290400012050 Transcriptional regulators [Transcription]; Region: GntR; COG1802 290400012051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 290400012052 DNA-binding site [nucleotide binding]; DNA binding site 290400012053 FCD domain; Region: FCD; pfam07729 290400012054 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 290400012055 Catalytic domain of Protein Kinases; Region: PKc; cd00180 290400012056 active site 290400012057 ATP binding site [chemical binding]; other site 290400012058 substrate binding site [chemical binding]; other site 290400012059 activation loop (A-loop); other site 290400012060 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 290400012061 phosphopeptide binding site; other site 290400012062 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 290400012063 active site 290400012064 Dynamin family; Region: Dynamin_N; pfam00350 290400012065 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290400012066 G1 box; other site 290400012067 GTP/Mg2+ binding site [chemical binding]; other site 290400012068 G2 box; other site 290400012069 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290400012070 G3 box; other site 290400012071 Switch II region; other site 290400012072 GTP/Mg2+ binding site [chemical binding]; other site 290400012073 G4 box; other site 290400012074 G5 box; other site 290400012075 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 290400012076 Dynamin family; Region: Dynamin_N; pfam00350 290400012077 G1 box; other site 290400012078 GTP/Mg2+ binding site [chemical binding]; other site 290400012079 G2 box; other site 290400012080 Switch I region; other site 290400012081 G3 box; other site 290400012082 Switch II region; other site 290400012083 G4 box; other site 290400012084 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 290400012085 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 290400012086 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 290400012087 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 290400012088 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 290400012089 metal binding site [ion binding]; metal-binding site 290400012090 active site 290400012091 I-site; other site 290400012092 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 290400012093 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 290400012094 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 290400012095 metal binding site [ion binding]; metal-binding site 290400012096 putative dimer interface [polypeptide binding]; other site 290400012097 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 290400012098 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 290400012099 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 290400012100 active site 290400012101 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 290400012102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400012103 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 290400012104 dimerization interface [polypeptide binding]; other site 290400012105 Amino acid synthesis; Region: AA_synth; pfam06684 290400012106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 290400012107 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 290400012108 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 290400012109 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 290400012110 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 290400012111 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 290400012112 NAD(P) binding site [chemical binding]; other site 290400012113 catalytic residues [active] 290400012114 Transcriptional activator [Transcription]; Region: ChrR; COG3806 290400012115 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 290400012116 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 290400012117 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 290400012118 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 290400012119 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 290400012120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 290400012121 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 290400012122 dimerization interface [polypeptide binding]; other site 290400012123 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 290400012124 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 290400012125 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 290400012126 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 290400012127 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 290400012128 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 290400012129 active site 290400012130 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 290400012131 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 290400012132 heterodimer interface [polypeptide binding]; other site 290400012133 active site 290400012134 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 290400012135 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 290400012136 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 290400012137 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 290400012138 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 290400012139 catalytic loop [active] 290400012140 iron binding site [ion binding]; other site 290400012141 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 290400012142 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 290400012143 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 290400012144 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400012145 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 290400012146 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 290400012147 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 290400012148 ligand binding site [chemical binding]; other site 290400012149 flexible hinge region; other site 290400012150 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 290400012151 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 290400012152 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 290400012153 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 290400012154 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290400012155 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 290400012156 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290400012157 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 290400012158 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290400012159 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 290400012160 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 290400012161 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 290400012162 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 290400012163 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 290400012164 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 290400012165 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 290400012166 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 290400012167 Uncharacterized conserved protein [Function unknown]; Region: COG3334 290400012168 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 290400012169 flagellar motor protein MotA; Validated; Region: PRK09110 290400012170 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 290400012171 FHIPEP family; Region: FHIPEP; pfam00771 290400012172 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 290400012173 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 290400012174 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 290400012175 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 290400012176 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 290400012177 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 290400012178 SAF-like; Region: SAF_2; pfam13144 290400012179 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 290400012180 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 290400012181 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290400012182 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290400012183 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 290400012184 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290400012185 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 290400012186 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 290400012187 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 290400012188 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 290400012189 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290400012190 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 290400012191 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 290400012192 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 290400012193 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08927 290400012194 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 290400012195 Walker A motif; other site 290400012196 ATP binding site [chemical binding]; other site 290400012197 Walker B motif; other site 290400012198 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 290400012199 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 290400012200 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 290400012201 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 290400012202 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 290400012203 Rod binding protein; Region: Rod-binding; pfam10135 290400012204 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 290400012205 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 290400012206 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 290400012207 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 290400012208 ABC1 family; Region: ABC1; cl17513 290400012209 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 290400012210 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 290400012211 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 290400012212 S-adenosylmethionine binding site [chemical binding]; other site 290400012213 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 290400012214 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 290400012215 DNA binding site [nucleotide binding] 290400012216 catalytic residue [active] 290400012217 H2TH interface [polypeptide binding]; other site 290400012218 putative catalytic residues [active] 290400012219 turnover-facilitating residue; other site 290400012220 intercalation triad [nucleotide binding]; other site 290400012221 8OG recognition residue [nucleotide binding]; other site 290400012222 putative reading head residues; other site 290400012223 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 290400012224 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 290400012225 enoyl-CoA hydratase; Provisional; Region: PRK05862 290400012226 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 290400012227 substrate binding site [chemical binding]; other site 290400012228 oxyanion hole (OAH) forming residues; other site 290400012229 trimer interface [polypeptide binding]; other site 290400012230 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239