-- dump date 20111121_012636 -- class Genbank::misc_feature -- table misc_feature_note -- id note 983548000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 983548000002 hypothetical protein; Validated; Region: PRK06672 983548000003 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...; Region: AAA; cd00009 983548000004 Walker A motif; other site 983548000005 ATP binding site [chemical binding]; other site 983548000006 Walker B motif; other site 983548000007 arginine finger; other site 983548000008 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 983548000009 DnaA box-binding interface [nucleotide binding]; other site 983548000010 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 983548000011 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548000012 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 983548000013 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 N-...; Region: GltS; cd00713 983548000014 active site 983548000015 dimer interface [polypeptide binding]; other site 983548000016 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 983548000017 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...; Region: GltS_FMN; cd02808 983548000018 active site 983548000019 FMN binding site [chemical binding]; other site 983548000020 substrate binding site [chemical binding]; other site 983548000021 3Fe-4S cluster binding site [ion binding]; other site 983548000022 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 983548000023 domain interface; other site 983548000024 Nitrogen regulatory protein P-II; Region: P-II; cl00412 983548000025 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 983548000026 Low molecular weight phosphatase family; Region: LMWPc; cd00115 983548000027 Active site [active] 983548000028 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 983548000029 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 983548000030 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 983548000031 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 983548000032 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 983548000033 active site 983548000034 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...; Region: OM_channels; cl00284 983548000035 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 983548000036 TPR motif; other site 983548000037 binding surface 983548000038 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 983548000039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 983548000040 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 983548000041 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 983548000042 Cupin domain; Region: Cupin_2; cl09118 983548000043 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 983548000044 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 983548000045 Found in ATP-dependent protease La (LON); Region: LON; cl01056 983548000046 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 983548000047 diaminopimelate decarboxylase; Region: lysA; TIGR01048 983548000048 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 983548000049 active site 983548000050 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983548000051 substrate binding site [chemical binding]; other site 983548000052 catalytic residues [active] 983548000053 dimer interface [polypeptide binding]; other site 983548000054 Beta-lactamase; Region: Beta-lactamase; cl01009 983548000055 PhnA protein; Region: PhnA; pfam03831 983548000056 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 983548000057 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...; Region: NPD_like; cd04730 983548000058 FMN binding site [chemical binding]; other site 983548000059 substrate binding site [chemical binding]; other site 983548000060 putative catalytic residue [active] 983548000061 Peptidase S8 family domain, uncharacterized subfamily 9; Region: Peptidases_S8_9; cd07493 983548000062 active site 983548000063 catalytic triad [active] 983548000064 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 983548000065 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 983548000066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 983548000067 Fasciclin domain; Region: Fasciclin; cl02663 983548000068 Fasciclin domain; Region: Fasciclin; cl02663 983548000069 Fasciclin domain; Region: Fasciclin; cl02663 983548000070 Peptidase family M49; Region: Peptidase_M49; pfam03571 983548000071 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 983548000072 putative hydrophobic ligand binding site [chemical binding]; other site 983548000073 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 983548000074 CrcB-like protein; Region: CRCB; cl09114 983548000075 Flagellin N-methylase; Region: FliB; cl00497 983548000076 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548000077 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 983548000078 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 983548000079 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 983548000080 putative peptidoglycan binding site; other site 983548000081 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 983548000082 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 983548000083 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 983548000084 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 983548000085 ligand binding site [chemical binding]; other site 983548000086 GMP synthase; Reviewed; Region: guaA; PRK00074 983548000087 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 983548000088 AMP/PPi binding site [chemical binding]; other site 983548000089 candidate oxyanion hole; other site 983548000090 catalytic triad [active] 983548000091 potential glutamine specificity residues [chemical binding]; other site 983548000092 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 983548000093 ATP Binding subdomain [chemical binding]; other site 983548000094 Ligand Binding sites [chemical binding]; other site 983548000095 Dimerization subdomain; other site 983548000096 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983548000097 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548000098 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 983548000099 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 983548000100 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 983548000101 homodimer interface [polypeptide binding]; other site 983548000102 NADP binding site [chemical binding]; other site 983548000103 substrate binding site [chemical binding]; other site 983548000104 signal recognition particle protein; Provisional; Region: PRK10867 983548000105 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 983548000106 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 983548000107 P loop; other site 983548000108 GTP binding site [chemical binding]; other site 983548000109 Signal peptide binding domain; Region: SRP_SPB; pfam02978 983548000110 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 983548000111 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 983548000112 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 983548000113 Ligand binding site [chemical binding]; other site 983548000114 Putative Catalytic site [active] 983548000115 DXD motif; other site 983548000116 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 983548000117 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 983548000118 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and deoxyribose-1-...; Region: PGM2; cd05799 983548000119 active site 983548000120 substrate binding site [chemical binding]; other site 983548000121 metal binding site [ion binding]; metal-binding site 983548000122 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 983548000123 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 983548000124 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 983548000125 Walker A/P-loop; other site 983548000126 ATP binding site [chemical binding]; other site 983548000127 Q-loop/lid; other site 983548000128 ABC transporter signature motif; other site 983548000129 Walker B; other site 983548000130 D-loop; other site 983548000131 H-loop/switch region; other site 983548000132 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 983548000133 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 983548000134 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within...; Region: GH20_SpHex_like; cd06568 983548000135 active site 983548000136 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 983548000137 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 983548000138 S-adenosylmethionine binding site [chemical binding]; other site 983548000139 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 983548000140 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 983548000141 active site 983548000142 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...; Region: BFIT_BACH; cd03442 983548000143 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; cl11391 983548000144 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 983548000145 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 983548000146 active site 983548000147 catalytic residues [active] 983548000148 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 983548000149 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 983548000150 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 983548000151 Tetramer interface [polypeptide binding]; other site 983548000152 Active site [active] 983548000153 FMN-binding site [chemical binding]; other site 983548000154 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983548000155 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983548000156 putative active site [active] 983548000157 putative metal binding site [ion binding]; other site 983548000158 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 983548000159 FAD binding domain; Region: FAD_binding_4; pfam01565 983548000160 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 983548000161 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 983548000162 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 983548000163 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_5; cd04962 983548000164 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 983548000165 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 983548000166 Glycosyl hydrolase family 3 C terminal domain; Region: Glyco_hydro_3_C; pfam01915 983548000167 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 983548000168 Beta-lactamase; Region: Beta-lactamase; cl01009 983548000169 Cysteine-rich domain; Region: CCG; pfam02754 983548000170 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 983548000171 Cysteine-rich domain; Region: CCG; pfam02754 983548000172 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 983548000173 active site 983548000174 motif I; other site 983548000175 motif II; other site 983548000176 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 983548000177 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 983548000178 mce related protein; Region: MCE; cl03606 983548000179 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 983548000180 active site 983548000181 metal binding site [ion binding]; metal-binding site 983548000182 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 983548000183 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 983548000184 homotrimer interaction site [polypeptide binding]; other site 983548000185 putative active site [active] 983548000186 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 983548000187 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 983548000188 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 983548000189 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548000190 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 983548000191 Probable Catalytic site [active] 983548000192 metal binding site [ion binding]; metal-binding site 983548000193 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548000194 ligand binding site [chemical binding]; other site 983548000195 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 983548000196 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 983548000197 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 983548000198 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 983548000199 UvrD/REP helicase; Region: UvrD-helicase; cl14126 983548000200 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 983548000201 dimer interface [polypeptide binding]; other site 983548000202 putative metal binding site [ion binding]; other site 983548000203 Uncharacterized conserved protein [Function unknown]; Region: COG3586 983548000204 Predicted NTPase (NACHT family) [Signal transduction mechanisms]; Region: COG5635 983548000205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548000206 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548000207 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 983548000208 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 983548000209 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548000210 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983548000211 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548000212 Coenzyme A binding pocket [chemical binding]; other site 983548000213 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 983548000214 Predicted acyl esterases [General function prediction only]; Region: COG2936 983548000215 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 983548000216 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 983548000217 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548000218 catalytic residue [active] 983548000219 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...; Region: PRX_BCP; cd03017 983548000220 catalytic triad [active] 983548000221 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 983548000222 active site 983548000223 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 983548000224 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 983548000225 active site 983548000226 metal binding site [ion binding]; metal-binding site 983548000227 nudix motif; other site 983548000228 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 983548000229 binding surface 983548000230 TPR motif; other site 983548000231 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 983548000232 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983548000233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548000234 ligand binding site [chemical binding]; other site 983548000235 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548000236 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 983548000237 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 983548000238 G1 box; other site 983548000239 putative GEF interaction site [polypeptide binding]; other site 983548000240 GTP/Mg2+ binding site [chemical binding]; other site 983548000241 Switch I region; other site 983548000242 G2 box; other site 983548000243 G3 box; other site 983548000244 Switch II region; other site 983548000245 G4 box; other site 983548000246 G5 box; other site 983548000247 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 983548000248 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 983548000249 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 983548000250 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 983548000251 dimer interface [polypeptide binding]; other site 983548000252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548000253 catalytic residue [active] 983548000254 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as...; Region: CBS_pair_PALP_assoc2; cd04609 983548000255 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 983548000256 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 983548000257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000258 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548000259 Putative esterase; Region: Esterase; pfam00756 983548000260 SMI1 / KNR4 family; Region: SMI1_KNR4; cl01747 983548000261 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 983548000262 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 983548000263 putative active site [active] 983548000264 putative NTP binding site [chemical binding]; other site 983548000265 putative nucleic acid binding site [nucleotide binding]; other site 983548000266 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 983548000267 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 983548000268 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548000269 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 983548000270 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...; Region: MM_CoA_mut_B12_BD; cd02071 983548000271 B12 binding site [chemical binding]; other site 983548000272 cobalt ligand [ion binding]; other site 983548000273 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 983548000274 Walker A; other site 983548000275 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 methylmalonyl-; Region: MM_CoA_mutase; cl00817 983548000276 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 983548000277 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 983548000278 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 983548000279 putative active site [active] 983548000280 putative substrate binding site [chemical binding]; other site 983548000281 putative cosubstrate binding site; other site 983548000282 catalytic site [active] 983548000283 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...; Region: TroA-like; cl00262 983548000284 intersubunit interface [polypeptide binding]; other site 983548000285 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 983548000286 active site 983548000287 dimer interface [polypeptide binding]; other site 983548000288 peptide chain release factor 1; Validated; Region: prfA; PRK00591 983548000289 RF-1 domain; Region: RF-1; cl02875 983548000290 RF-1 domain; Region: RF-1; cl02875 983548000291 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 983548000292 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 983548000293 dimerization interface [polypeptide binding]; other site 983548000294 ATP binding site [chemical binding]; other site 983548000295 MAC/Perforin domain; Region: MACPF; cl02616 983548000296 ferredoxin-NADP+ reductase; Region: PLN02852 983548000297 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548000298 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 983548000299 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 983548000300 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548000301 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 983548000302 Interdomain contacts; other site 983548000303 Cytokine receptor motif; other site 983548000304 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 983548000305 Curli production assembly/transport component CsgG; Region: CsgG; cl00639 983548000306 Curli production assembly/transport component CsgF; Region: Tafi-CsgF; cl08082 983548000307 Curli assembly protein CsgE; Region: CsgE; cl08115 983548000308 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 983548000309 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 983548000310 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 983548000311 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 983548000312 glutamine synthetase; Region: PLN02284 983548000313 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 983548000314 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 983548000315 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 983548000316 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 983548000317 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 983548000318 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 983548000319 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548000320 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 983548000321 synthetase active site [active] 983548000322 NTP binding site [chemical binding]; other site 983548000323 metal binding site [ion binding]; metal-binding site 983548000324 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...; Region: TGS_RelA_SpoT; cd01668 983548000325 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 983548000326 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 983548000327 metal binding site 2 [ion binding]; metal-binding site 983548000328 putative DNA binding helix; other site 983548000329 metal binding site 1 [ion binding]; metal-binding site 983548000330 dimer interface [polypeptide binding]; other site 983548000331 structural Zn2+ binding site [ion binding]; other site 983548000332 adenylosuccinate synthetase; Provisional; Region: PRK01117 983548000333 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 r-...; Region: AdSS; cd03108 983548000334 GDP-binding site [chemical binding]; other site 983548000335 ACT binding site; other site 983548000336 IMP binding site; other site 983548000337 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 983548000338 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 983548000339 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983548000340 catalytic residue [active] 983548000341 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548000342 Predicted esterase [General function prediction only]; Region: COG0400 983548000343 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548000344 ligand binding site [chemical binding]; other site 983548000345 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548000346 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 983548000347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548000348 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 983548000349 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 983548000350 active site 983548000351 ATP binding site [chemical binding]; other site 983548000352 substrate binding site [chemical binding]; other site 983548000353 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 983548000354 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 983548000355 dimer interface [polypeptide binding]; other site 983548000356 active site 983548000357 CoA binding pocket [chemical binding]; other site 983548000358 DinB superfamily; Region: DinB_2; cl00986 983548000359 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 983548000360 active site 983548000361 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 983548000362 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 983548000363 active site 983548000364 metal binding site [ion binding]; metal-binding site 983548000365 homotetramer interface [polypeptide binding]; other site 983548000366 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 983548000367 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1)...; Region: PseudoU_synth_EcTruA; cd02570 983548000368 dimerization interface 3.5A [polypeptide binding]; other site 983548000369 active site 983548000370 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 983548000371 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 983548000372 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 983548000373 Walker A/P-loop; other site 983548000374 ATP binding site [chemical binding]; other site 983548000375 Q-loop/lid; other site 983548000376 ABC transporter signature motif; other site 983548000377 Walker B; other site 983548000378 D-loop; other site 983548000379 H-loop/switch region; other site 983548000380 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 983548000381 cyclase homology domain; Region: CHD; cd07302 983548000382 nucleotidyl binding site; other site 983548000383 metal binding site [ion binding]; metal-binding site 983548000384 dimer interface [polypeptide binding]; other site 983548000385 Uncharacterised protein family UPF0547; Region: UPF0547; pfam10571 983548000386 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 983548000387 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 983548000388 Uncharacterized conserved protein [Function unknown]; Region: COG1624 983548000389 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 983548000390 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 983548000391 putative catalytic residue [active] 983548000392 heat shock protein 90; Provisional; Region: PRK05218 983548000393 YceG-like family; Region: YceG; pfam02618 983548000394 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 983548000395 dimerization interface [polypeptide binding]; other site 983548000396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548000397 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 983548000398 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 983548000399 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 983548000400 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 983548000401 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...; Region: Tryp_SPc; cl00149 983548000402 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 C-...; Region: PDZ_serine_protease; cd00987 983548000403 protein binding site [polypeptide binding]; other site 983548000404 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 983548000405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000406 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 983548000407 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 983548000408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548000409 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 983548000410 peptide chain release factor 2; Validated; Region: prfB; PRK00578 983548000411 RF-1 domain; Region: RF-1; cl02875 983548000412 RF-1 domain; Region: RF-1; cl02875 983548000413 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 983548000414 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 983548000415 putative substrate translocation pore; other site 983548000416 Putative cyclase; Region: Cyclase; cl00814 983548000417 Major royal jelly protein; Region: MRJP; pfam03022 983548000418 Cupin domain; Region: Cupin_2; cl09118 983548000419 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 983548000420 ligand binding site [chemical binding]; other site 983548000421 flexible hinge region; other site 983548000422 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 983548000423 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 983548000424 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548000425 methionine gamma-lyase; Region: PLN02242 983548000426 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 983548000427 homodimer interface [polypeptide binding]; other site 983548000428 substrate-cofactor binding pocket; other site 983548000429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548000430 catalytic residue [active] 983548000431 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 983548000432 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; cl09110 983548000433 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 983548000434 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 983548000435 dimer interface [polypeptide binding]; other site 983548000436 decamer (pentamer of dimers) interface [polypeptide binding]; other site 983548000437 catalytic triad [active] 983548000438 peroxidatic and resolving cysteines [active] 983548000439 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 983548000440 catalytic residues [active] 983548000441 Domain of unknown function (DUF427); Region: DUF427; cl00998 983548000442 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 983548000443 dimer interface [polypeptide binding]; other site 983548000444 catalytic triad [active] 983548000445 peroxidatic and resolving cysteines [active] 983548000446 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 983548000447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548000448 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 983548000449 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 983548000450 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 983548000451 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 983548000452 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 983548000453 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 983548000454 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 983548000455 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 983548000456 dimerization interface [polypeptide binding]; other site 983548000457 active site 983548000458 Glutamine cyclotransferase; Region: Glu_cyclase_2; pfam05096 983548000459 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548000460 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548000461 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548000462 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 983548000463 SmpB-tmRNA interface; other site 983548000464 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 983548000465 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 983548000466 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 983548000467 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 983548000468 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 983548000469 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 983548000470 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 983548000471 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 983548000472 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 983548000473 shikimate binding site; other site 983548000474 NAD(P) binding site [chemical binding]; other site 983548000475 Domain of unknown function (DUF368); Region: DUF368; cl00893 983548000476 Domain of unknown function (DUF368); Region: DUF368; cl00893 983548000477 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 983548000478 binding surface 983548000479 TPR motif; other site 983548000480 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 983548000481 binding surface 983548000482 TPR motif; other site 983548000483 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 983548000484 binding surface 983548000485 TPR motif; other site 983548000486 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 983548000487 binding surface 983548000488 TPR motif; other site 983548000489 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 983548000490 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 983548000491 putative active site [active] 983548000492 Zn-binding site [ion binding]; other site 983548000493 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 983548000494 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548000495 Walker A/P-loop; other site 983548000496 ATP binding site [chemical binding]; other site 983548000497 Q-loop/lid; other site 983548000498 ABC transporter signature motif; other site 983548000499 Walker B; other site 983548000500 D-loop; other site 983548000501 H-loop/switch region; other site 983548000502 ABC transporter; Region: ABC_tran_2; pfam12848 983548000503 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548000504 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 983548000505 chorismate binding enzyme; Region: Chorismate_bind; cl10555 983548000506 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548000507 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 983548000508 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 983548000509 metal ion-dependent adhesion site (MIDAS); other site 983548000510 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 983548000511 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 983548000512 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(...; Region: Pep_deformylase; cd00487 983548000513 active site 983548000514 catalytic residues [active] 983548000515 metal binding site [ion binding]; metal-binding site 983548000516 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 983548000517 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 983548000518 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 983548000519 trimer interface [polypeptide binding]; other site 983548000520 active site 983548000521 substrate binding site [chemical binding]; other site 983548000522 CoA binding site [chemical binding]; other site 983548000523 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 983548000524 Substrate binding site [chemical binding]; other site 983548000525 metal binding site [ion binding]; metal-binding site 983548000526 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 983548000527 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 983548000528 RNA binding site [nucleotide binding]; other site 983548000529 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 983548000530 RNA binding site [nucleotide binding]; other site 983548000531 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 983548000532 RNA binding site [nucleotide binding]; other site 983548000533 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 983548000534 RNA binding site [nucleotide binding]; other site 983548000535 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 983548000536 RNA binding site [nucleotide binding]; other site 983548000537 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 983548000538 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 983548000539 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...; Region: TlpA_like_family; cd02966 983548000540 catalytic residues [active] 983548000541 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; cl00942 983548000542 aromatic arch; other site 983548000543 DCoH dimer interaction site [polypeptide binding]; other site 983548000544 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 983548000545 DCoH tetramer interaction site [polypeptide binding]; other site 983548000546 substrate binding site [chemical binding]; other site 983548000547 Domain of unknown function DUF28; Region: DUF28; cl00361 983548000548 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 983548000549 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 983548000550 dimer interface [polypeptide binding]; other site 983548000551 active site 983548000552 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983548000553 catalytic residues [active] 983548000554 substrate binding site [chemical binding]; other site 983548000555 Arginase family; Region: Arginase; cl00306 983548000556 Deoxyhypusine synthase; Region: DS; cl00826 983548000557 putative deoxyhypusine synthase; Provisional; Region: PRK01221 983548000558 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)...; Region: Trp-synth-beta_II; cl00342 983548000559 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 983548000560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548000561 catalytic residue [active] 983548000562 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 983548000563 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 983548000564 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...; Region: L-Ala-DL-Glu_epimerase; cd03319 983548000565 active site 983548000566 cytidylate kinase; Provisional; Region: cmk; PRK00023 983548000567 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 983548000568 CMP-binding site; other site 983548000569 The sites determining sugar specificity; other site 983548000570 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 983548000571 Found in ATP-dependent protease La (LON); Region: LON; cl01056 983548000572 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...; Region: AAA; cd00009 983548000573 Walker A motif; other site 983548000574 ATP binding site [chemical binding]; other site 983548000575 Walker B motif; other site 983548000576 arginine finger; other site 983548000577 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 983548000578 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548000579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548000580 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...; Region: Sigma70_r4; cl01055 983548000581 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548000582 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548000583 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 983548000584 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 983548000585 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 983548000586 Peptidase family M48; Region: Peptidase_M48; cl12018 983548000587 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 983548000588 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 983548000589 trimer interface [polypeptide binding]; other site 983548000590 active site 983548000591 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 983548000592 catalytic site [active] 983548000593 glycogen branching enzyme; Provisional; Region: PRK12313 983548000594 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 983548000595 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548000596 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 983548000597 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK02862 983548000598 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 983548000599 ligand binding site [chemical binding]; other site 983548000600 oligomer interface [polypeptide binding]; other site 983548000601 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 rate-...; Region: LbH_G1P_AT_C; cd04651 983548000602 dimer interface [polypeptide binding]; other site 983548000603 N-terminal domain interface [polypeptide binding]; other site 983548000604 sulfate 1 binding site; other site 983548000605 glycogen synthase; Provisional; Region: glgA; PRK00654 983548000606 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 983548000607 ADP-binding pocket [chemical binding]; other site 983548000608 homodimer interface [polypeptide binding]; other site 983548000609 SelR domain; Region: SelR; cl00369 983548000610 SelR domain; Region: SelR; cl00369 983548000611 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 983548000612 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548000613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548000614 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 983548000615 Sulfatase; Region: Sulfatase; cl10460 983548000616 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 983548000617 trimer interface [polypeptide binding]; other site 983548000618 active site 983548000619 dimer interface [polypeptide binding]; other site 983548000620 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 983548000621 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 983548000622 Int/Topo IB signature motif; other site 983548000623 active site 983548000624 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...; Region: APP_MetAP; cd01066 983548000625 active site 983548000626 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548000627 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 983548000628 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway...; Region: OSBS; cd03320 983548000629 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 983548000630 active site 983548000631 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 983548000632 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cd00449 983548000633 homodimer interface [polypeptide binding]; other site 983548000634 substrate-cofactor binding pocket; other site 983548000635 Aminotransferase class IV; Region: Aminotran_4; pfam01063 983548000636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548000637 catalytic residue [active] 983548000638 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 983548000639 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 983548000640 active site 983548000641 SdiA-regulated; Region: SdiA-regulated; cl06158 983548000642 putative active site [active] 983548000643 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548000644 MarC family integral membrane protein; Region: MarC; cl00919 983548000645 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 983548000646 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 983548000647 heme binding site [chemical binding]; other site 983548000648 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 983548000649 Entner-Doudoroff aldolase; Region: eda; TIGR01182 983548000650 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 983548000651 active site 983548000652 intersubunit interface [polypeptide binding]; other site 983548000653 catalytic residue [active] 983548000654 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 983548000655 substrate binding site [chemical binding]; other site 983548000656 ATP binding site [chemical binding]; other site 983548000657 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983548000658 classical (c) SDRs; Region: SDR_c; cd05233 983548000659 NAD(P) binding site [chemical binding]; other site 983548000660 active site 983548000661 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 983548000662 D-galactonate transporter; Region: 2A0114; TIGR00893 983548000663 putative substrate translocation pore; other site 983548000664 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 983548000665 Transcriptional regulators [Transcription]; Region: FadR; COG2186 983548000666 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 983548000667 DNA-binding site [nucleotide binding]; DNA binding site 983548000668 FCD domain; Region: FCD; cl11656 983548000669 Alginate lyase; Region: Alginate_lyase2; pfam08787 983548000670 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 983548000671 starch binding outer membrane protein SusD; Region: SusD; cd08977 983548000672 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548000673 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...; Region: OM_channels; cl00284 983548000674 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...; Region: OM_channels; cl00284 983548000675 Cupin domain; Region: Cupin_2; cl09118 983548000676 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 983548000677 Heparinase II/III-like protein; Region: Hepar_II_III; cl02215 983548000678 Heparinase II/III-like protein; Region: Hepar_II_III; cl02215 983548000679 C-term; Region: GreA_GreB; pfam01272 983548000680 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 983548000681 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 983548000682 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 983548000683 NAD(P) binding site [chemical binding]; other site 983548000684 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 983548000685 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 983548000686 active site 983548000687 phosphorylation site [posttranslational modification] 983548000688 intermolecular recognition site; other site 983548000689 dimerization interface [polypeptide binding]; other site 983548000690 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...; Region: AAA; cd00009 983548000691 Walker A motif; other site 983548000692 ATP binding site [chemical binding]; other site 983548000693 Walker B motif; other site 983548000694 arginine finger; other site 983548000695 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 983548000696 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 trans-...; Region: HisKA; cd00082 983548000697 dimer interface [polypeptide binding]; other site 983548000698 phosphorylation site [posttranslational modification] 983548000699 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 983548000700 ATP binding site [chemical binding]; other site 983548000701 G-X-G motif; other site 983548000702 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 983548000703 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 983548000704 active site 983548000705 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548000706 active site 983548000707 Zn-binding site [ion binding]; other site 983548000708 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cd06263 983548000709 putative adhesion site; other site 983548000710 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 983548000711 putative glycosyltransferase TIGR03111; Region: glyc2_xrt_Gpos1 983548000712 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 983548000713 DXD motif; other site 983548000714 threonine dehydratase; Validated; Region: PRK08639 983548000715 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 983548000716 tetramer interface [polypeptide binding]; other site 983548000717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548000718 catalytic residue [active] 983548000719 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 983548000720 ketol-acid reductoisomerase; Validated; Region: PRK05225 983548000721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000722 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 983548000723 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 983548000724 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 983548000725 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 983548000726 putative valine binding site [chemical binding]; other site 983548000727 dimer interface [polypeptide binding]; other site 983548000728 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 983548000729 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 983548000730 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 983548000731 PYR/PP interface [polypeptide binding]; other site 983548000732 dimer interface [polypeptide binding]; other site 983548000733 TPP binding site [chemical binding]; other site 983548000734 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 983548000735 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 983548000736 TPP-binding site [chemical binding]; other site 983548000737 dimer interface [polypeptide binding]; other site 983548000738 Dehydratase family; Region: ILVD_EDD; cl00340 983548000739 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 983548000740 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 983548000741 NAD(P) binding site [chemical binding]; other site 983548000742 catalytic residues [active] 983548000743 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 983548000744 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 983548000745 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 983548000746 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 983548000747 LamB/YcsF family; Region: LamB_YcsF; cl00664 983548000748 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 983548000749 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 983548000750 PAS fold; Region: PAS_3; pfam08447 983548000751 putative active site [active] 983548000752 heme pocket [chemical binding]; other site 983548000753 putative diguanylate cyclase; Provisional; Region: PRK09776 983548000754 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548000755 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 983548000756 ATP binding site [chemical binding]; other site 983548000757 Mg2+ binding site [ion binding]; other site 983548000758 G-X-G motif; other site 983548000759 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 983548000760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548000761 Predicted acyl esterases [General function prediction only]; Region: COG2936 983548000762 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 983548000763 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 983548000764 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 983548000765 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548000766 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 983548000767 Ligand Binding Site [chemical binding]; other site 983548000768 B3/4 domain; Region: B3_4; cl11458 983548000769 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 983548000770 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548000771 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548000772 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 983548000773 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 983548000774 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes...; Region: Topo_IB_C; cd00659 983548000775 DNA binding site [nucleotide binding] 983548000776 active site 983548000777 Int/Topo IB signature motif; other site 983548000778 catalytic residues [active] 983548000779 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 983548000780 ATP binding site [chemical binding]; other site 983548000781 active site 983548000782 substrate binding site [chemical binding]; other site 983548000783 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 983548000784 PhoH-like protein; Region: PhoH; cl12134 983548000785 Uncharacterized conserved protein [Function unknown]; Region: COG1912 983548000786 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 983548000787 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 983548000788 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983548000789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983548000790 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 983548000791 heme binding pocket [chemical binding]; other site 983548000792 heme ligand [chemical binding]; other site 983548000793 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 983548000794 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 983548000795 active site 983548000796 phosphorylation site [posttranslational modification] 983548000797 intermolecular recognition site; other site 983548000798 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 983548000799 Response regulator receiver domain; Region: Response_reg; pfam00072 983548000800 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 983548000801 active site 983548000802 phosphorylation site [posttranslational modification] 983548000803 intermolecular recognition site; other site 983548000804 dimerization interface [polypeptide binding]; other site 983548000805 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 983548000806 GAF domain; Region: GAF; cl00853 983548000807 Phytochrome region; Region: PHY; pfam00360 983548000808 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 trans-...; Region: HisKA; cd00082 983548000809 dimer interface [polypeptide binding]; other site 983548000810 phosphorylation site [posttranslational modification] 983548000811 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 983548000812 ATP binding site [chemical binding]; other site 983548000813 Mg2+ binding site [ion binding]; other site 983548000814 G-X-G motif; other site 983548000815 CheB methylesterase; Region: CheB_methylest; pfam01339 983548000816 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 983548000817 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 983548000818 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548000819 PAS fold; Region: PAS_4; pfam08448 983548000820 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983548000821 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 trans-...; Region: HisKA; cl00080 983548000822 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 983548000823 ATP binding site [chemical binding]; other site 983548000824 Mg2+ binding site [ion binding]; other site 983548000825 G-X-G motif; other site 983548000826 DNA-directed RNA polymerase subunit gamma; Provisional; Region: rpoC1; PRK02625 983548000827 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 983548000828 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 983548000829 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 983548000830 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 983548000831 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 983548000832 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 983548000833 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 983548000834 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 983548000835 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 983548000836 DNA binding site [nucleotide binding] 983548000837 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 983548000838 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 983548000839 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 983548000840 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 983548000841 RPB11 interaction site [polypeptide binding]; other site 983548000842 RPB12 interaction site [polypeptide binding]; other site 983548000843 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 983548000844 RPB3 interaction site [polypeptide binding]; other site 983548000845 RPB1 interaction site [polypeptide binding]; other site 983548000846 RPB11 interaction site [polypeptide binding]; other site 983548000847 RPB10 interaction site [polypeptide binding]; other site 983548000848 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 983548000849 core dimer interface [polypeptide binding]; other site 983548000850 peripheral dimer interface [polypeptide binding]; other site 983548000851 L10 interface [polypeptide binding]; other site 983548000852 L11 interface [polypeptide binding]; other site 983548000853 putative EF-Tu interaction site [polypeptide binding]; other site 983548000854 putative EF-G interaction site [polypeptide binding]; other site 983548000855 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...; Region: Ribosomal_L10; cd05797 983548000856 23S rRNA interface [nucleotide binding]; other site 983548000857 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 983548000858 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...; Region: Ribosomal_L1; cd00403 983548000859 mRNA/rRNA interface [nucleotide binding]; other site 983548000860 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 983548000861 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 983548000862 23S rRNA interface [nucleotide binding]; other site 983548000863 L7/L12 interface [polypeptide binding]; other site 983548000864 putative thiostrepton binding site; other site 983548000865 L25 interface [polypeptide binding]; other site 983548000866 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 983548000867 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 983548000868 putative homodimer interface [polypeptide binding]; other site 983548000869 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 983548000870 elongation factor Tu; Reviewed; Region: PRK12735 983548000871 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 983548000872 G1 box; other site 983548000873 GEF interaction site [polypeptide binding]; other site 983548000874 GTP/Mg2+ binding site [chemical binding]; other site 983548000875 Switch I region; other site 983548000876 G2 box; other site 983548000877 G3 box; other site 983548000878 Switch II region; other site 983548000879 G4 box; other site 983548000880 G5 box; other site 983548000881 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 983548000882 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 983548000883 Antibiotic Binding Site [chemical binding]; other site 983548000884 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 983548000885 30S subunit binding site; other site 983548000886 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 983548000887 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 983548000888 DNA binding site [nucleotide binding] 983548000889 Int/Topo IB signature motif; other site 983548000890 active site 983548000891 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 983548000892 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983548000893 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983548000894 active site 983548000895 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 983548000896 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 983548000897 Ion channel; Region: Ion_trans_2; cl11596 983548000898 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 983548000899 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000900 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; cl09110 983548000901 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 983548000902 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 983548000903 ATP binding site [chemical binding]; other site 983548000904 putative Mg++ binding site [ion binding]; other site 983548000905 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 983548000906 nucleotide binding region [chemical binding]; other site 983548000907 ATP-binding site [chemical binding]; other site 983548000908 RQC domain; Region: RQC; pfam09382 983548000909 HRDC domain; Region: HRDC; cl02578 983548000910 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 983548000911 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 5-...; Region: SIS_Kpsf; cd05014 983548000912 putative active site [active] 983548000913 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 983548000914 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 983548000915 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983548000916 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 983548000917 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 983548000918 Walker A/P-loop; other site 983548000919 ATP binding site [chemical binding]; other site 983548000920 Q-loop/lid; other site 983548000921 ABC transporter signature motif; other site 983548000922 Walker B; other site 983548000923 D-loop; other site 983548000924 H-loop/switch region; other site 983548000925 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 983548000926 active site 983548000927 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983548000928 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 983548000929 Histidine kinase; Region: His_kinase; pfam06580 983548000930 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983548000931 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 983548000932 active site 983548000933 phosphorylation site [posttranslational modification] 983548000934 intermolecular recognition site; other site 983548000935 dimerization interface [polypeptide binding]; other site 983548000936 LytTr DNA-binding domain; Region: LytTR; cl04498 983548000937 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 983548000938 GTP cyclohydrolase I; Provisional; Region: PLN03044 983548000939 active site 983548000940 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 983548000941 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548000942 active site 983548000943 HIGH motif; other site 983548000944 nucleotide binding site [chemical binding]; other site 983548000945 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 983548000946 KMSKS motif; other site 983548000947 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 983548000948 tRNA binding surface [nucleotide binding]; other site 983548000949 anticodon binding site; other site 983548000950 Domain of unknown function DUF37; Region: DUF37; cl00506 983548000951 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 983548000952 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 983548000953 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 983548000954 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 983548000955 competence damage-inducible protein A; Provisional; Region: PRK00549 983548000956 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 983548000957 putative MPT binding site; other site 983548000958 Competence-damaged protein; Region: CinA; cl00666 983548000959 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 983548000960 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 983548000961 DNA polymerase III subunit epsilon; Validated; Region: PRK06309 983548000962 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983548000963 active site 983548000964 substrate binding site [chemical binding]; other site 983548000965 catalytic site [active] 983548000966 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548000967 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 983548000968 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 983548000969 E3 interaction surface; other site 983548000970 lipoyl attachment site [posttranslational modification]; other site 983548000971 e3 binding domain; Region: E3_binding; pfam02817 983548000972 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 983548000973 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548000974 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 983548000975 Probable Catalytic site [active] 983548000976 metal binding site [ion binding]; metal-binding site 983548000977 recombination protein RecR; Reviewed; Region: recR; PRK00076 983548000978 RecR protein; Region: RecR; pfam02132 983548000979 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 983548000980 putative active site [active] 983548000981 putative metal-binding site [ion binding]; other site 983548000982 tetramer interface [polypeptide binding]; other site 983548000983 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548000984 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 983548000985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000986 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 983548000987 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 983548000988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548000989 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983548000990 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 983548000991 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 983548000992 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983548000993 catalytic residue [active] 983548000994 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983548000995 active site 983548000996 substrate binding site [chemical binding]; other site 983548000997 catalytic site [active] 983548000998 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 983548000999 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 983548001000 Ion transport protein; Region: Ion_trans; pfam00520 983548001001 Ion channel; Region: Ion_trans_2; cl11596 983548001002 IPP transferase; Region: IPPT; cl00403 983548001003 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983548001004 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 983548001005 active site 983548001006 phosphorylation site [posttranslational modification] 983548001007 intermolecular recognition site; other site 983548001008 dimerization interface [polypeptide binding]; other site 983548001009 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...; Region: trans_reg_C; cd00383 983548001010 DNA binding site [nucleotide binding] 983548001011 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 trans-...; Region: HisKA; cd00082 983548001012 dimer interface [polypeptide binding]; other site 983548001013 phosphorylation site [posttranslational modification] 983548001014 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 983548001015 ATP binding site [chemical binding]; other site 983548001016 Mg2+ binding site [ion binding]; other site 983548001017 G-X-G motif; other site 983548001018 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 983548001019 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 983548001020 CoA-binding site [chemical binding]; other site 983548001021 ATP-binding [chemical binding]; other site 983548001022 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548001023 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 983548001024 active site 983548001025 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 983548001026 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001027 NAD(P) binding site [chemical binding]; other site 983548001028 active site 983548001029 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 983548001030 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 983548001031 Walker A/P-loop; other site 983548001032 ATP binding site [chemical binding]; other site 983548001033 Q-loop/lid; other site 983548001034 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548001035 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 983548001036 Q-loop/lid; other site 983548001037 ABC transporter signature motif; other site 983548001038 Walker B; other site 983548001039 D-loop; other site 983548001040 H-loop/switch region; other site 983548001041 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 983548001042 Flavoprotein; Region: Flavoprotein; cl08021 983548001043 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 983548001044 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 983548001045 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 983548001046 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 983548001047 dihydrodipicolinate synthase; Region: dapA; TIGR00674 983548001048 dimer interface [polypeptide binding]; other site 983548001049 active site 983548001050 catalytic residue [active] 983548001051 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 983548001052 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK09419 983548001053 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 983548001054 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983548001055 active site 983548001056 metal binding site [ion binding]; metal-binding site 983548001057 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 983548001058 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 983548001059 nucleotide binding pocket [chemical binding]; other site 983548001060 K-X-D-G motif; other site 983548001061 catalytic site [active] 983548001062 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 983548001063 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 983548001064 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 983548001065 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 983548001066 Dimer interface [polypeptide binding]; other site 983548001067 BRCT sequence motif; other site 983548001068 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 983548001069 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 983548001070 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 983548001071 S-adenosylmethionine binding site [chemical binding]; other site 983548001072 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548001073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548001074 Coenzyme A binding pocket [chemical binding]; other site 983548001075 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 983548001076 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 983548001077 catalytic motif [active] 983548001078 Zn binding site [ion binding]; other site 983548001079 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 983548001080 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 983548001081 Uncharacterized proteins, Left-handed parallel beta-Helix (LbH) domain: Members in this group are uncharacterized bacterial proteins containing a LbH domain with multiple turns, each containing three imperfect tandem repeats of a hexapeptide repeat...; Region: LbH_unknown; cd05635 983548001082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 983548001083 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548001084 PspC domain; Region: PspC; cl00864 983548001085 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548001086 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 983548001087 non-specific DNA binding site [nucleotide binding]; other site 983548001088 salt bridge; other site 983548001089 sequence-specific DNA binding site [nucleotide binding]; other site 983548001090 PspA/IM30 family; Region: PspA_IM30; pfam04012 983548001091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 983548001092 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...; Region: Band_7_flotillin; cd03399 983548001093 ATPase involved in DNA repair; Region: DUF3686; pfam12458 983548001094 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 983548001095 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 983548001096 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...; Region: AAA; cd00009 983548001097 Walker A motif; other site 983548001098 ATP binding site [chemical binding]; other site 983548001099 Walker B motif; other site 983548001100 arginine finger; other site 983548001101 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 983548001102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548001103 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 983548001104 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 983548001105 Cytochrome c; Region: Cytochrom_C; cl11414 983548001106 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 983548001107 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...; Region: ParA; cd02042 983548001108 P-loop; other site 983548001109 Magnesium ion binding site [ion binding]; other site 983548001110 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...; Region: ParA; cd02042 983548001111 Magnesium ion binding site [ion binding]; other site 983548001112 ParB-like partition proteins; Region: parB_part; TIGR00180 983548001113 ParB-like nuclease domain; Region: ParBc; cl02129 983548001114 dihydrodipicolinate reductase; Provisional; Region: PRK00048 983548001115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001116 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 983548001117 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 983548001118 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 983548001119 Catalytic site [active] 983548001120 signal peptidase I; Provisional; Region: PRK10861 983548001121 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 983548001122 WbqC-like protein family; Region: WbqC; pfam08889 983548001123 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 983548001124 putative catalytic site [active] 983548001125 putative metal binding site [ion binding]; other site 983548001126 putative phosphate binding site [ion binding]; other site 983548001127 Rhomboid family; Region: Rhomboid; cl11446 983548001128 Rhomboid family; Region: Rhomboid; cl11446 983548001129 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 983548001130 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 983548001131 ATP binding site [chemical binding]; other site 983548001132 Mg2+ binding site [ion binding]; other site 983548001133 G-X-G motif; other site 983548001134 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 983548001135 ATP binding site [chemical binding]; other site 983548001136 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 983548001137 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 983548001138 homopentamer interface [polypeptide binding]; other site 983548001139 active site 983548001140 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 983548001141 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 983548001142 binding surface 983548001143 TPR motif; other site 983548001144 recombination protein F; Reviewed; Region: recF; PRK00064 983548001145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548001146 Walker A/P-loop; other site 983548001147 ATP binding site [chemical binding]; other site 983548001148 Q-loop/lid; other site 983548001149 Protein of unknown function (DUF721); Region: DUF721; cl02324 983548001150 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 983548001151 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 983548001152 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548001153 active site 983548001154 HIGH motif; other site 983548001155 nucleotide binding site [chemical binding]; other site 983548001156 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 983548001157 KMSK motif region; other site 983548001158 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 983548001159 tRNA binding surface [nucleotide binding]; other site 983548001160 anticodon binding site; other site 983548001161 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 983548001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001163 NAD(P) binding site [chemical binding]; other site 983548001164 active site 983548001165 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 983548001166 Amidinotransferase; Region: Amidinotransf; cl12043 983548001167 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 983548001168 putative bacillithiol system thiol disulfide oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 983548001169 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548001170 Cation transport protein; Region: TrkH; cl10514 983548001171 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 983548001172 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 983548001173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001174 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; cl09110 983548001175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001176 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; cl09110 983548001177 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 983548001178 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 983548001179 S-adenosylmethionine binding site [chemical binding]; other site 983548001180 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 983548001181 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 983548001182 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548001183 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 983548001184 Surface antigen; Region: Bac_surface_Ag; cl03097 983548001185 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548001186 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 trans-...; Region: HisKA; cl00080 983548001187 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 983548001188 ATP binding site [chemical binding]; other site 983548001189 Mg2+ binding site [ion binding]; other site 983548001190 G-X-G motif; other site 983548001191 Response regulator receiver domain; Region: Response_reg; pfam00072 983548001192 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 983548001193 active site 983548001194 phosphorylation site [posttranslational modification] 983548001195 intermolecular recognition site; other site 983548001196 dimerization interface [polypeptide binding]; other site 983548001197 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 983548001198 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 983548001199 active site 983548001200 intersubunit interface [polypeptide binding]; other site 983548001201 zinc binding site [ion binding]; other site 983548001202 Na+ binding site [ion binding]; other site 983548001203 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 983548001204 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548001205 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 983548001206 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 983548001207 substrate binding pocket [chemical binding]; other site 983548001208 chain length determination region; other site 983548001209 substrate-Mg2+ binding site; other site 983548001210 catalytic residues [active] 983548001211 aspartate-rich region 1; other site 983548001212 active site lid residues [active] 983548001213 aspartate-rich region 2; other site 983548001214 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 983548001215 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 983548001216 FeS/SAM binding site; other site 983548001217 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 983548001218 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548001219 catalytic residue [active] 983548001220 isocitrate lyase; Provisional; Region: PRK06498 983548001221 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 983548001222 tetramer interface [polypeptide binding]; other site 983548001223 active site 983548001224 Mg2+/Mn2+ binding site [ion binding]; other site 983548001225 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 983548001226 malate synthase A; Region: malate_syn_A; TIGR01344 983548001227 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 983548001228 active site 983548001229 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 983548001230 non-specific DNA binding site [nucleotide binding]; other site 983548001231 salt bridge; other site 983548001232 sequence-specific DNA binding site [nucleotide binding]; other site 983548001233 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 983548001234 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 983548001235 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 983548001236 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 983548001237 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 983548001238 hinge; other site 983548001239 active site 983548001240 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 983548001241 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 983548001242 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 983548001243 Domain of Unknown Function with PDB structure; Region: DUF3857; pfam12969 983548001244 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...; Region: Dtyr_deacylase; cd00563 983548001245 putative active site [active] 983548001246 dimerization interface [polypeptide binding]; other site 983548001247 putative tRNAtyr binding site [nucleotide binding]; other site 983548001248 GTPase RsgA; Reviewed; Region: PRK00098 983548001249 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 983548001250 GTPase/OB domain interface [polypeptide binding]; other site 983548001251 GTPase/Zn-binding domain interface [polypeptide binding]; other site 983548001252 GTP/Mg2+ binding site [chemical binding]; other site 983548001253 G4 box; other site 983548001254 G5 box; other site 983548001255 G1 box; other site 983548001256 Switch I region; other site 983548001257 G2 box; other site 983548001258 G3 box; other site 983548001259 Switch II region; other site 983548001260 NeuB family; Region: NeuB; cl00496 983548001261 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 983548001262 Chorismate mutase type II; Region: CM_2; cl00693 983548001263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001264 Prephenate dehydrogenase; Region: PDH; pfam02153 983548001265 aspartate aminotransferase; Provisional; Region: PRK07681 983548001266 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 983548001267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001268 homodimer interface [polypeptide binding]; other site 983548001269 catalytic residue [active] 983548001270 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 983548001271 Prephenate dehydratase; Region: PDT; pfam00800 983548001272 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 983548001273 putative L-Phe binding site [chemical binding]; other site 983548001274 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 983548001275 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548001276 Walker A/P-loop; other site 983548001277 ATP binding site [chemical binding]; other site 983548001278 Q-loop/lid; other site 983548001279 ABC transporter signature motif; other site 983548001280 Walker B; other site 983548001281 D-loop; other site 983548001282 H-loop/switch region; other site 983548001283 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 983548001284 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...; Region: Ribosomal_S15p_S13e; cd00353 983548001285 16S/18S rRNA binding site [nucleotide binding]; other site 983548001286 S13e-L30e interaction site [polypeptide binding]; other site 983548001287 25S rRNA binding site [nucleotide binding]; other site 983548001288 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 983548001289 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 983548001290 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 983548001291 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 983548001292 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 983548001293 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 983548001294 putative nucleic acid binding region [nucleotide binding]; other site 983548001295 G-X-X-G motif; other site 983548001296 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 983548001297 RNA binding site [nucleotide binding]; other site 983548001298 domain interface; other site 983548001299 Response regulator receiver domain; Region: Response_reg; pfam00072 983548001300 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 983548001301 active site 983548001302 phosphorylation site [posttranslational modification] 983548001303 intermolecular recognition site; other site 983548001304 dimerization interface [polypeptide binding]; other site 983548001305 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548001306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 983548001307 Uncharacterized protein conserved in bacteria (DUF2262); Region: DUF2262; cl01757 983548001308 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 983548001309 putative homodimer interface [polypeptide binding]; other site 983548001310 putative active site [active] 983548001311 catalytic site [active] 983548001312 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 983548001313 hypothetical protein; Provisional; Region: PRK07538 983548001314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548001315 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548001316 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 983548001317 dimerization interface [polypeptide binding]; other site 983548001318 putative DNA binding site [nucleotide binding]; other site 983548001319 putative Zn2+ binding site [ion binding]; other site 983548001320 Low molecular weight phosphatase family; Region: LMWPc; cl00105 983548001321 Membrane transport protein; Region: Mem_trans; cl09117 983548001322 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_27; cd04686 983548001323 nudix motif; other site 983548001324 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 983548001325 Zn binding site [ion binding]; other site 983548001326 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001327 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001328 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 983548001329 active site pocket [active] 983548001330 oxyanion hole [active] 983548001331 catalytic triad [active] 983548001332 active site nucleophile [active] 983548001333 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548001334 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548001335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548001336 Coenzyme A binding pocket [chemical binding]; other site 983548001337 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 983548001338 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 983548001339 binding surface 983548001340 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548001341 TPR motif; other site 983548001342 GTPase CgtA; Reviewed; Region: obgE; PRK12299 983548001343 GTP1/OBG; Region: GTP1_OBG; pfam01018 983548001344 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 983548001345 G1 box; other site 983548001346 GTP/Mg2+ binding site [chemical binding]; other site 983548001347 Switch I region; other site 983548001348 G2 box; other site 983548001349 G3 box; other site 983548001350 Switch II region; other site 983548001351 G4 box; other site 983548001352 G5 box; other site 983548001353 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548001354 adenylate kinase; Reviewed; Region: adk; PRK00279 983548001355 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 983548001356 AMP-binding site [chemical binding]; other site 983548001357 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 983548001358 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 983548001359 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548001360 AIR carboxylase; Region: AIRC; cl00310 983548001361 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 983548001362 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 983548001363 active site 983548001364 Zn binding site [ion binding]; other site 983548001365 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548001366 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 983548001367 Predicted transcriptional regulators [Transcription]; Region: COG1510 983548001368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548001369 TIGR01777 family protein; Region: yfcH 983548001370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001371 NAD(P) binding site [chemical binding]; other site 983548001372 active site 983548001373 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548001374 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 983548001375 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...; Region: Sigma70_r4; cl01055 983548001376 UbiA prenyltransferase family; Region: UbiA; cl00337 983548001377 glycine dehydrogenase; Provisional; Region: PRK05367 983548001378 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...; Region: GDC-P; cd00613 983548001379 tetramer interface [polypeptide binding]; other site 983548001380 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001381 catalytic residue [active] 983548001382 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...; Region: GDC-P; cd00613 983548001383 tetramer interface [polypeptide binding]; other site 983548001384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001385 catalytic residue [active] 983548001386 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 983548001387 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 983548001388 dimer interface [polypeptide binding]; other site 983548001389 active site 983548001390 CoA binding pocket [chemical binding]; other site 983548001391 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548001392 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 983548001393 active site 983548001394 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH...; Region: alkPPc; cd00016 983548001395 dimer interface [polypeptide binding]; other site 983548001396 Alkaline phosphatase homologues; Region: alkPPc; smart00098 983548001397 active site 983548001398 Domain of unknown function DUF140; Region: DUF140; cl00510 983548001399 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 983548001400 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 983548001401 Walker A/P-loop; other site 983548001402 ATP binding site [chemical binding]; other site 983548001403 Q-loop/lid; other site 983548001404 ABC transporter signature motif; other site 983548001405 Walker B; other site 983548001406 D-loop; other site 983548001407 H-loop/switch region; other site 983548001408 Domain of unknown function (DUF389); Region: DUF389; cl00781 983548001409 protein disaggregation chaperone; Provisional; Region: PRK10865 983548001410 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 983548001411 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 983548001412 Substrate binding site [chemical binding]; other site 983548001413 SprT homologues; Region: SprT; cl01182 983548001414 classical (c) SDRs; Region: SDR_c; cd05233 983548001415 NAD(P) binding site [chemical binding]; other site 983548001416 active site 983548001417 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 983548001418 metal binding site [ion binding]; metal-binding site 983548001419 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 983548001420 E3 interaction surface; other site 983548001421 lipoyl attachment site [posttranslational modification]; other site 983548001422 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 983548001423 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 983548001424 E3 interaction surface; other site 983548001425 lipoyl attachment site [posttranslational modification]; other site 983548001426 e3 binding domain; Region: E3_binding; pfam02817 983548001427 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 983548001428 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 983548001429 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 983548001430 tetramer interface [polypeptide binding]; other site 983548001431 TPP-binding site [chemical binding]; other site 983548001432 heterodimer interface [polypeptide binding]; other site 983548001433 phosphorylation loop region [posttranslational modification] 983548001434 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 983548001435 active site 983548001436 catalytic motif [active] 983548001437 Zn binding site [ion binding]; other site 983548001438 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 983548001439 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983548001440 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 983548001441 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548001442 glycerol kinase; Provisional; Region: glpK; PRK00047 983548001443 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 983548001444 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 983548001445 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 983548001446 putative transporter; Provisional; Region: PRK10484 983548001447 Sodium:solute symporter family; Region: SSF; cl00456 983548001448 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 983548001449 UDP-glucose 4-epimerase; Region: PLN02240 983548001450 NAD binding site [chemical binding]; other site 983548001451 homodimer interface [polypeptide binding]; other site 983548001452 active site 983548001453 substrate binding site [chemical binding]; other site 983548001454 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548001455 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 983548001456 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 983548001457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548001458 Walker A/P-loop; other site 983548001459 ATP binding site [chemical binding]; other site 983548001460 Q-loop/lid; other site 983548001461 ABC transporter signature motif; other site 983548001462 Walker B; other site 983548001463 D-loop; other site 983548001464 H-loop/switch region; other site 983548001465 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 983548001466 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 983548001467 Outer membrane efflux protein; Region: OEP; pfam02321 983548001468 Outer membrane efflux protein; Region: OEP; pfam02321 983548001469 ABC-2 type transporter; Region: ABC2_membrane; cl11417 983548001470 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 983548001471 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 983548001472 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983548001473 Zn binding site [ion binding]; other site 983548001474 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 983548001475 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 983548001476 Walker A/P-loop; other site 983548001477 ATP binding site [chemical binding]; other site 983548001478 Q-loop/lid; other site 983548001479 ABC transporter signature motif; other site 983548001480 Walker B; other site 983548001481 D-loop; other site 983548001482 H-loop/switch region; other site 983548001483 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 983548001484 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548001485 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 983548001486 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983548001487 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; cl09110 983548001488 transmembrane helices; other site 983548001489 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 983548001490 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001491 NAD(P) binding pocket [chemical binding]; other site 983548001492 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 983548001493 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983548001494 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 983548001495 FAD binding site [chemical binding]; other site 983548001496 homotetramer interface [polypeptide binding]; other site 983548001497 substrate binding pocket [chemical binding]; other site 983548001498 catalytic base [active] 983548001499 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 983548001500 active site 983548001501 substrate binding site [chemical binding]; other site 983548001502 Mg2+ binding site [ion binding]; other site 983548001503 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 983548001504 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...; Region: TM_PBP2; cd06261 983548001505 dimer interface [polypeptide binding]; other site 983548001506 conserved gate region; other site 983548001507 putative PBP binding loops; other site 983548001508 ABC-ATPase subunit interface; other site 983548001509 C-terminal peptidase (prc); Region: prc; TIGR00225 983548001510 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 983548001511 protein binding site [polypeptide binding]; other site 983548001512 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 983548001513 Catalytic dyad [active] 983548001514 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 983548001515 Survival protein SurE; Region: SurE; cl00448 983548001516 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 983548001517 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 983548001518 NlpC/P60 family; Region: NLPC_P60; cl11438 983548001519 Competence protein; Region: Competence; cl00471 983548001520 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548001521 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 983548001522 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 983548001523 putative substrate translocation pore; other site 983548001524 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; cl11420 983548001525 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 983548001526 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 983548001527 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548001528 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 983548001529 homodimer interface [polypeptide binding]; other site 983548001530 NAD binding site [chemical binding]; other site 983548001531 catalytic residues [active] 983548001532 substrate binding pocket [chemical binding]; other site 983548001533 flexible flap; other site 983548001534 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 983548001535 PPIC-type PPIASE domain; Region: Rotamase; cl08278 983548001536 periplasmic folding chaperone; Provisional; Region: PRK10788 983548001537 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 983548001538 Domain of unknown function DUF21; Region: DUF21; pfam01595 983548001539 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 983548001540 Transporter associated domain; Region: CorC_HlyC; pfam03471 983548001541 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 983548001542 photosystem I assembly protein Ycf3; Region: ycf3; CHL00033 983548001543 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 983548001544 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 983548001545 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548001546 substrate binding pocket [chemical binding]; other site 983548001547 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548001548 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 983548001549 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 983548001550 active site 983548001551 catalytic residues [active] 983548001552 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983548001553 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 983548001554 FeS/SAM binding site; other site 983548001555 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 983548001556 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 983548001557 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001558 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548001559 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...; Region: OM_channels; cl00284 983548001560 starch binding outer membrane protein SusD; Region: SusD; cd08977 983548001561 Sodium:solute symporter family; Region: SSF; cl00456 983548001562 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983548001563 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 983548001564 active site residue [active] 983548001565 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 983548001566 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 983548001567 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548001568 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 983548001569 Protein of unknown function, DUF547; Region: DUF547; pfam04784 983548001570 Protein of unknown function, DUF547; Region: DUF547; pfam04784 983548001571 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 983548001572 Probable Catalytic site [active] 983548001573 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 983548001574 dimer interface [polypeptide binding]; other site 983548001575 FMN binding site [chemical binding]; other site 983548001576 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548001577 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 983548001578 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 trans-...; Region: HisKA; cd00082 983548001579 dimer interface [polypeptide binding]; other site 983548001580 phosphorylation site [posttranslational modification] 983548001581 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 983548001582 ATP binding site [chemical binding]; other site 983548001583 Mg2+ binding site [ion binding]; other site 983548001584 G-X-G motif; other site 983548001585 Response regulator receiver domain; Region: Response_reg; pfam00072 983548001586 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 983548001587 active site 983548001588 phosphorylation site [posttranslational modification] 983548001589 intermolecular recognition site; other site 983548001590 dimerization interface [polypeptide binding]; other site 983548001591 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 983548001592 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 983548001593 Surface antigen; Region: Bac_surface_Ag; cl03097 983548001594 Protein of unknown function, DUF547; Region: DUF547; pfam04784 983548001595 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 983548001596 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548001597 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 983548001598 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548001599 DinB superfamily; Region: DinB_2; cl00986 983548001600 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 983548001601 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 983548001602 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983548001603 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548001604 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 983548001605 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 983548001606 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 983548001607 carboxyltransferase (CT) interaction site; other site 983548001608 biotinylation site [posttranslational modification]; other site 983548001609 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 983548001610 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 983548001611 dimer interface [polypeptide binding]; other site 983548001612 active site 983548001613 CoA binding pocket [chemical binding]; other site 983548001614 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 983548001615 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 983548001616 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 983548001617 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 983548001618 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 983548001619 Lumazine binding domain; Region: Lum_binding; pfam00677 983548001620 Lumazine binding domain; Region: Lum_binding; pfam00677 983548001621 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 983548001622 dimer interface [polypeptide binding]; other site 983548001623 substrate binding site [chemical binding]; other site 983548001624 metal binding site [ion binding]; metal-binding site 983548001625 Ribosome-binding factor A; Region: RBFA; cl00542 983548001626 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 983548001627 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 983548001628 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...; Region: DUS_like_FMN; cd02801 983548001629 FMN binding site [chemical binding]; other site 983548001630 active site 983548001631 catalytic residues [active] 983548001632 substrate binding site [chemical binding]; other site 983548001633 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001634 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983548001635 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...; Region: OM_channels; cl00284 983548001636 GTP-binding protein LepA; Provisional; Region: PRK05433 983548001637 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 983548001638 G1 box; other site 983548001639 putative GEF interaction site [polypeptide binding]; other site 983548001640 GTP/Mg2+ binding site [chemical binding]; other site 983548001641 Switch I region; other site 983548001642 G2 box; other site 983548001643 G3 box; other site 983548001644 Switch II region; other site 983548001645 G4 box; other site 983548001646 G5 box; other site 983548001647 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-...; Region: lepA_II; cd03699 983548001648 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 983548001649 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 983548001650 CutC family; Region: CutC; cl01218 983548001651 alpha-1,2-mannosidase, putative; Region: aman2_put; TIGR01180 983548001652 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; pfam07971 983548001653 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 983548001654 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 983548001655 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...; Region: TST_Repeat_1; cd01448 983548001656 active site residue [active] 983548001657 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 983548001658 active site residue [active] 983548001659 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (...; Region: Glycosylasparaginase; cd04513 983548001660 active site 983548001661 dimer interface [polypeptide binding]; other site 983548001662 catalytic nucleophile [active] 983548001663 DNA polymerase I; Provisional; Region: PRK05755 983548001664 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 983548001665 active site 983548001666 metal binding site 1 [ion binding]; metal-binding site 983548001667 putative 5' ssDNA interaction site; other site 983548001668 metal binding site 3; metal-binding site 983548001669 metal binding site 2 [ion binding]; metal-binding site 983548001670 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 983548001671 putative DNA binding site [nucleotide binding]; other site 983548001672 putative metal binding site [ion binding]; other site 983548001673 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 983548001674 active site 983548001675 catalytic site [active] 983548001676 substrate binding site [chemical binding]; other site 983548001677 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 983548001678 active site 983548001679 DNA binding site [nucleotide binding] 983548001680 catalytic site [active] 983548001681 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 983548001682 putative ligand binding site [chemical binding]; other site 983548001683 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 983548001684 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 983548001685 23S rRNA interface [nucleotide binding]; other site 983548001686 L3 interface [polypeptide binding]; other site 983548001687 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 983548001688 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 983548001689 rRNA interaction site [nucleotide binding]; other site 983548001690 S8 interaction site; other site 983548001691 putative laminin-1 binding site; other site 983548001692 elongation factor Ts; Provisional; Region: tsf; PRK09377 983548001693 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 983548001694 Elongation factor TS; Region: EF_TS; pfam00889 983548001695 Elongation factor TS; Region: EF_TS; pfam00889 983548001696 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 983548001697 putative nucleotide binding site [chemical binding]; other site 983548001698 uridine monophosphate binding site [chemical binding]; other site 983548001699 homohexameric interface [polypeptide binding]; other site 983548001700 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 983548001701 hinge region; other site 983548001702 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 983548001703 Protein export membrane protein; Region: SecD_SecF; cl14618 983548001704 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983548001705 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 983548001706 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 983548001707 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (...; Region: EcAsnRS_like_N; cd04318 983548001708 putative dimer interface [polypeptide binding]; other site 983548001709 putative anticodon binding site; other site 983548001710 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well...; Region: AsxRS_core; cd00776 983548001711 homodimer interface [polypeptide binding]; other site 983548001712 motif 1; other site 983548001713 motif 2; other site 983548001714 active site 983548001715 motif 3; other site 983548001716 Histidine kinase; Region: HisKA_3; pfam07730 983548001717 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 983548001718 ATP binding site [chemical binding]; other site 983548001719 Mg2+ binding site [ion binding]; other site 983548001720 G-X-G motif; other site 983548001721 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983548001722 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 983548001723 active site 983548001724 phosphorylation site [posttranslational modification] 983548001725 intermolecular recognition site; other site 983548001726 dimerization interface [polypeptide binding]; other site 983548001727 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...; Region: LuxR_C_like; cd06170 983548001728 DNA binding residues [nucleotide binding] 983548001729 dimerization interface [polypeptide binding]; other site 983548001730 Domain of unknown function (DU1801); Region: DUF1801; cl01838 983548001731 Sodium:solute symporter family; Region: SSF; cl00456 983548001732 Glutaminase; Region: Glutaminase; cl00907 983548001733 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548001734 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 983548001735 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 983548001736 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 983548001737 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548001738 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 983548001739 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 983548001740 homodimer interface [polypeptide binding]; other site 983548001741 substrate-cofactor binding pocket; other site 983548001742 catalytic residue [active] 983548001743 Peptidase family M48; Region: Peptidase_M48; cl12018 983548001744 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 983548001745 Sulfatase; Region: Sulfatase; cl10460 983548001746 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 983548001747 catalytic residues [active] 983548001748 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 983548001749 catalytic residues [active] 983548001750 Protein of unknown function (DUF805); Region: DUF805; cl01224 983548001751 methionine aminopeptidase; Reviewed; Region: PRK07281 983548001752 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 983548001753 active site 983548001754 hypothetical protein; Provisional; Region: PRK08317 983548001755 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548001756 ApbE family; Region: ApbE; cl00643 983548001757 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 983548001758 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 983548001759 catalytic loop [active] 983548001760 iron binding site [ion binding]; other site 983548001761 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+...; Region: NADH_quinone_reductase; cd06188 983548001762 FAD binding pocket [chemical binding]; other site 983548001763 FAD binding motif [chemical binding]; other site 983548001764 phosphate binding motif [ion binding]; other site 983548001765 beta-alpha-beta structure motif; other site 983548001766 NAD binding pocket [chemical binding]; other site 983548001767 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 983548001768 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 983548001769 FMN-binding domain; Region: FMN_bind; cl01081 983548001770 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 983548001771 RnfE family; Region: NQR2_RnfD_RnfE; cl00779 983548001772 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 983548001773 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 983548001774 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 983548001775 Protein of unknown function (DUF525); Region: DUF525; cl01119 983548001776 Protein of unknown function (DUF833); Region: DUF833; cl01315 983548001777 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 983548001778 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548001779 Glutamate binding site [chemical binding]; other site 983548001780 NAD binding site [chemical binding]; other site 983548001781 catalytic residues [active] 983548001782 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 983548001783 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 983548001784 CysD dimerization site [polypeptide binding]; other site 983548001785 G1 box; other site 983548001786 putative GEF interaction site [polypeptide binding]; other site 983548001787 GTP/Mg2+ binding site [chemical binding]; other site 983548001788 Switch I region; other site 983548001789 G2 box; other site 983548001790 G3 box; other site 983548001791 Switch II region; other site 983548001792 G4 box; other site 983548001793 G5 box; other site 983548001794 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 983548001795 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NoDQ_III; cd04095 983548001796 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 983548001797 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 983548001798 Active Sites [active] 983548001799 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 983548001800 Active Sites [active] 983548001801 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 983548001802 Rrf2 family protein; Region: rrf2_super; TIGR00738 983548001803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548001804 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 983548001805 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...; Region: MTHFR; cd00537 983548001806 FAD binding site [chemical binding]; other site 983548001807 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 983548001808 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 983548001809 substrate binding pocket [chemical binding]; other site 983548001810 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 983548001811 B12 binding site [chemical binding]; other site 983548001812 cobalt ligand [ion binding]; other site 983548001813 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 983548001814 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 983548001815 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 983548001816 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 983548001817 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 983548001818 homodimer interface [polypeptide binding]; other site 983548001819 substrate-cofactor binding pocket; other site 983548001820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001821 catalytic residue [active] 983548001822 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 983548001823 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548001824 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 983548001825 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 983548001826 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548001827 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 983548001828 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 983548001829 homodimer interface [polypeptide binding]; other site 983548001830 substrate-cofactor binding pocket; other site 983548001831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001832 catalytic residue [active] 983548001833 S-adenosylmethionine synthetase; Validated; Region: PRK05250 983548001834 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 983548001835 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 983548001836 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 983548001837 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 983548001838 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001839 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...; Region: OM_channels; cl00284 983548001840 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...; Region: OM_channels; cl00284 983548001841 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 983548001842 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 983548001843 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 trans-...; Region: HisKA; cd00082 983548001844 dimer interface [polypeptide binding]; other site 983548001845 phosphorylation site [posttranslational modification] 983548001846 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 983548001847 ATP binding site [chemical binding]; other site 983548001848 Mg2+ binding site [ion binding]; other site 983548001849 G-X-G motif; other site 983548001850 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983548001851 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 983548001852 active site 983548001853 phosphorylation site [posttranslational modification] 983548001854 intermolecular recognition site; other site 983548001855 dimerization interface [polypeptide binding]; other site 983548001856 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...; Region: trans_reg_C; cd00383 983548001857 DNA binding site [nucleotide binding] 983548001858 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 983548001859 heme-binding site [chemical binding]; other site 983548001860 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 983548001861 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 983548001862 Substrate-binding site [chemical binding]; other site 983548001863 Substrate specificity [chemical binding]; other site 983548001864 Uncharacterized conserved protein (DUF2183); Region: DUF2183; cl02012 983548001865 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 983548001866 putative catalytic residues [active] 983548001867 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 983548001868 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 983548001869 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 983548001870 dimer interface [polypeptide binding]; other site 983548001871 substrate binding site [chemical binding]; other site 983548001872 metal binding sites [ion binding]; metal-binding site 983548001873 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001874 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 983548001875 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 983548001876 alpha subunit interface [polypeptide binding]; other site 983548001877 TPP binding site [chemical binding]; other site 983548001878 heterodimer interface [polypeptide binding]; other site 983548001879 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983548001880 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 983548001881 Ligand binding site [chemical binding]; other site 983548001882 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 983548001883 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 983548001884 Ligand Binding Site [chemical binding]; other site 983548001885 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 983548001886 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+...; Region: SIR2; cl00195 983548001887 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 983548001888 UvrB/uvrC motif; Region: UVR; pfam02151 983548001889 nucleoside transporter; Region: nupC; TIGR00804 983548001890 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 983548001891 Nucleoside recognition; Region: Gate; cl00486 983548001892 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 983548001893 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001894 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 983548001895 dimerization interface [polypeptide binding]; other site 983548001896 active site 983548001897 TIGR03440 family protein; Region: unchr_TIGR03440 983548001898 DinB superfamily; Region: DinB_2; cl00986 983548001899 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 983548001900 probable methyltransferase; Region: TIGR03438 983548001901 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 983548001902 Domain of unknown function (DUF427); Region: DUF427; cl00998 983548001903 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 983548001904 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983548001905 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 983548001906 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 983548001907 folate binding site [chemical binding]; other site 983548001908 NADP+ binding site [chemical binding]; other site 983548001909 Acyl transferase domain; Region: Acyl_transf_1; cl08282 983548001910 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 983548001911 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 983548001912 non-specific DNA binding site [nucleotide binding]; other site 983548001913 salt bridge; other site 983548001914 sequence-specific DNA binding site [nucleotide binding]; other site 983548001915 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 (...; Region: S24_LexA-like; cd06529 983548001916 Catalytic site [active] 983548001917 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 983548001918 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 983548001919 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 983548001920 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983548001921 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 983548001922 inhibitor-cofactor binding pocket; inhibition site 983548001923 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548001924 catalytic residue [active] 983548001925 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 983548001926 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...; Region: metallo-dependent_hydrolases; cl00281 983548001927 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 983548001928 active site 983548001929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 983548001930 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548001931 ligand binding site [chemical binding]; other site 983548001932 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548001933 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 983548001934 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 983548001935 MutS domain I; Region: MutS_I; pfam01624 983548001936 MutS domain II; Region: MutS_II; pfam05188 983548001937 MutS family domain IV; Region: MutS_IV; pfam05190 983548001938 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 983548001939 Walker A/P-loop; other site 983548001940 ATP binding site [chemical binding]; other site 983548001941 Q-loop/lid; other site 983548001942 ABC transporter signature motif; other site 983548001943 Walker B; other site 983548001944 D-loop; other site 983548001945 H-loop/switch region; other site 983548001946 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001947 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...; Region: OM_channels; cl00284 983548001948 starch binding outer membrane protein SusD; Region: SusD; cd08977 983548001949 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983548001950 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 983548001951 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 983548001952 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548001953 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548001954 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 983548001955 Outer membrane efflux protein; Region: OEP; pfam02321 983548001956 Outer membrane efflux protein; Region: OEP; pfam02321 983548001957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548001958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983548001959 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 983548001960 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 983548001961 substrate binding pocket [chemical binding]; other site 983548001962 chain length determination region; other site 983548001963 substrate-Mg2+ binding site; other site 983548001964 catalytic residues [active] 983548001965 aspartate-rich region 1; other site 983548001966 active site lid residues [active] 983548001967 aspartate-rich region 2; other site 983548001968 CotH protein; Region: CotH; pfam08757 983548001969 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 983548001970 catalytic center binding site [active] 983548001971 ATP binding site [chemical binding]; other site 983548001972 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 983548001973 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7...; Region: dNK; cd01673 983548001974 Substrate-binding site [chemical binding]; other site 983548001975 Substrate specificity [chemical binding]; other site 983548001976 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 983548001977 putative assembly protein; Provisional; Region: PRK10833 983548001978 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 983548001979 active site 983548001980 nucleophile elbow; other site 983548001981 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548001982 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...; Region: OM_channels; cl00284 983548001983 GTP-binding protein Der; Reviewed; Region: PRK00093 983548001984 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 983548001985 G1 box; other site 983548001986 GTP/Mg2+ binding site [chemical binding]; other site 983548001987 Switch I region; other site 983548001988 G2 box; other site 983548001989 Switch II region; other site 983548001990 G3 box; other site 983548001991 G4 box; other site 983548001992 G5 box; other site 983548001993 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 983548001994 G1 box; other site 983548001995 GTP/Mg2+ binding site [chemical binding]; other site 983548001996 Switch I region; other site 983548001997 G2 box; other site 983548001998 G3 box; other site 983548001999 Switch II region; other site 983548002000 G4 box; other site 983548002001 G5 box; other site 983548002002 LysE type translocator; Region: LysE; cl00565 983548002003 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 983548002004 GH3 auxin-responsive promoter; Region: GH3; cl04006 983548002005 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 983548002006 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 983548002007 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...; Region: AAA; cd00009 983548002008 Walker A motif; other site 983548002009 ATP binding site [chemical binding]; other site 983548002010 Walker B motif; other site 983548002011 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 983548002012 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 983548002013 oligomer interface [polypeptide binding]; other site 983548002014 active site residues [active] 983548002015 trigger factor; Provisional; Region: tig; PRK01490 983548002016 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 983548002017 catalytic triad [active] 983548002018 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 983548002019 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 983548002020 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548002021 acyl-CoA esterase; Provisional; Region: PRK10673 983548002022 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 983548002023 active site 983548002024 hydrophilic channel; other site 983548002025 dimerization interface [polypeptide binding]; other site 983548002026 catalytic residues [active] 983548002027 active site lid [active] 983548002028 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 983548002029 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 983548002030 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 983548002031 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 983548002032 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 983548002033 catalytic residue [active] 983548002034 putative FPP diphosphate binding site; other site 983548002035 putative FPP binding hydrophobic cleft; other site 983548002036 dimer interface [polypeptide binding]; other site 983548002037 putative IPP diphosphate binding site; other site 983548002038 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 983548002039 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 983548002040 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 983548002041 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 983548002042 Surface antigen; Region: Bac_surface_Ag; cl03097 983548002043 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 983548002044 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 983548002045 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 983548002046 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 983548002047 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 983548002048 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002049 active site 983548002050 phosphorylation site [posttranslational modification] 983548002051 intermolecular recognition site; other site 983548002052 dimerization interface [polypeptide binding]; other site 983548002053 LytTr DNA-binding domain; Region: LytTR; cl04498 983548002054 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 983548002055 binding surface 983548002056 TPR motif; other site 983548002057 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548002058 Histidine kinase; Region: His_kinase; pfam06580 983548002059 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 983548002060 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 983548002061 metal ion-dependent adhesion site (MIDAS); other site 983548002062 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548002063 ligand binding site [chemical binding]; other site 983548002064 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548002065 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 983548002066 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 983548002067 NifU-like domain; Region: NifU; cl00484 983548002068 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983548002069 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983548002070 active site 983548002071 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 983548002072 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 983548002073 S-adenosylmethionine binding site [chemical binding]; other site 983548002074 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 983548002075 RimM N-terminal domain; Region: RimM; pfam01782 983548002076 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 983548002077 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 983548002078 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983548002079 active site 983548002080 substrate binding site [chemical binding]; other site 983548002081 catalytic site [active] 983548002082 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 983548002083 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 983548002084 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 983548002085 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...; Region: DnaE_OBF; cd04485 983548002086 generic binding surface II; other site 983548002087 generic binding surface I; other site 983548002088 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 983548002089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 983548002090 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 983548002091 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983548002092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 983548002093 active site 983548002094 phosphorylation site [posttranslational modification] 983548002095 intermolecular recognition site; other site 983548002096 dimerization interface [polypeptide binding]; other site 983548002097 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 983548002098 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 983548002099 E3 interaction surface; other site 983548002100 lipoyl attachment site [posttranslational modification]; other site 983548002101 e3 binding domain; Region: E3_binding; pfam02817 983548002102 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 983548002103 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 983548002104 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 983548002105 TPP-binding site [chemical binding]; other site 983548002106 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 983548002107 YCII-related domain; Region: YCII; cl00999 983548002108 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 983548002109 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...; Region: MM_CoA_mutase_alpha_like; cd03679 983548002110 active site 983548002111 substrate binding site [chemical binding]; other site 983548002112 coenzyme B12 binding site [chemical binding]; other site 983548002113 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...; Region: MM_CoA_mut_B12_BD; cd02071 983548002114 B12 binding site [chemical binding]; other site 983548002115 cobalt ligand [ion binding]; other site 983548002116 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 983548002117 heterodimer interface [polypeptide binding]; other site 983548002118 substrate interaction site [chemical binding]; other site 983548002119 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage...; Region: UMPK; cd02023 983548002120 Sugar specificity; other site 983548002121 Pyrimidine base specificity; other site 983548002122 ATP-binding site [chemical binding]; other site 983548002123 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 983548002124 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 983548002125 G1 box; other site 983548002126 GTP/Mg2+ binding site [chemical binding]; other site 983548002127 Switch I region; other site 983548002128 G2 box; other site 983548002129 G3 box; other site 983548002130 Switch II region; other site 983548002131 G4 box; other site 983548002132 G5 box; other site 983548002133 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983548002134 putative catalytic site [active] 983548002135 putative metal binding site [ion binding]; other site 983548002136 putative phosphate binding site [ion binding]; other site 983548002137 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...; Region: OM_channels; cl00284 983548002138 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...; Region: OM_channels; cl00284 983548002139 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983548002140 putative catalytic site [active] 983548002141 putative metal binding site [ion binding]; other site 983548002142 putative phosphate binding site [ion binding]; other site 983548002143 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548002144 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 983548002145 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548002146 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 983548002147 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 983548002148 active site 983548002149 dimer interface [polypeptide binding]; other site 983548002150 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 983548002151 dimer interface [polypeptide binding]; other site 983548002152 active site 983548002153 putative peptidase; Provisional; Region: PRK11649 983548002154 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548002155 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 983548002156 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 983548002157 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 983548002158 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 983548002159 dimer interface [polypeptide binding]; other site 983548002160 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 983548002161 active site 983548002162 Fe binding site [ion binding]; other site 983548002163 homogentisate 1,2-dioxygenase; Region: HgmA; cl10473 983548002164 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 983548002165 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 983548002166 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 983548002167 Proline racemase; Region: Pro_racemase; pfam05544 983548002168 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 983548002169 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548002170 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 983548002171 dimer interface [polypeptide binding]; other site 983548002172 NADP binding site [chemical binding]; other site 983548002173 catalytic residues [active] 983548002174 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 983548002175 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 983548002176 inhibitor site; inhibition site 983548002177 active site 983548002178 dimer interface [polypeptide binding]; other site 983548002179 catalytic residue [active] 983548002180 Cupin domain; Region: Cupin_2; cl09118 983548002181 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983548002182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983548002183 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 983548002184 active site 983548002185 phosphorylation site [posttranslational modification] 983548002186 intermolecular recognition site; other site 983548002187 CHASE3 domain; Region: CHASE3; cl05000 983548002188 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 trans-...; Region: HisKA; cd00082 983548002189 dimer interface [polypeptide binding]; other site 983548002190 phosphorylation site [posttranslational modification] 983548002191 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 983548002192 ATP binding site [chemical binding]; other site 983548002193 Mg2+ binding site [ion binding]; other site 983548002194 G-X-G motif; other site 983548002195 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002196 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 983548002197 active site 983548002198 phosphorylation site [posttranslational modification] 983548002199 intermolecular recognition site; other site 983548002200 dimerization interface [polypeptide binding]; other site 983548002201 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 983548002202 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 983548002203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548002204 Walker A/P-loop; other site 983548002205 ATP binding site [chemical binding]; other site 983548002206 Q-loop/lid; other site 983548002207 ABC transporter signature motif; other site 983548002208 Walker B; other site 983548002209 D-loop; other site 983548002210 H-loop/switch region; other site 983548002211 Protein of unknown function (DUF419); Region: DUF419; cl09948 983548002212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548002213 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548002214 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- (beta-...; Region: TMP_TenI; cd00564 983548002215 thiamine phosphate binding site [chemical binding]; other site 983548002216 active site 983548002217 pyrophosphate binding site [ion binding]; other site 983548002218 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 983548002219 catalytic residues [active] 983548002220 acetyl-CoA synthetase; Provisional; Region: PRK00174 983548002221 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 983548002222 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548002223 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 983548002224 TPR motif; other site 983548002225 binding surface 983548002226 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 trans-...; Region: HisKA; cd00082 983548002227 dimer interface [polypeptide binding]; other site 983548002228 phosphorylation site [posttranslational modification] 983548002229 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 983548002230 ATP binding site [chemical binding]; other site 983548002231 Mg2+ binding site [ion binding]; other site 983548002232 G-X-G motif; other site 983548002233 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002234 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 983548002235 active site 983548002236 phosphorylation site [posttranslational modification] 983548002237 intermolecular recognition site; other site 983548002238 dimerization interface [polypeptide binding]; other site 983548002239 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 983548002240 dimer interface [polypeptide binding]; other site 983548002241 ssDNA binding site [nucleotide binding]; other site 983548002242 tetramer (dimer of dimers) interface [polypeptide binding]; other site 983548002243 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 983548002244 carboxyltransferase (CT) interaction site; other site 983548002245 biotinylation site [posttranslational modification]; other site 983548002246 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 983548002247 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983548002248 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548002249 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 983548002250 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 983548002251 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548002252 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548002253 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 983548002254 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 983548002255 ATP binding site [chemical binding]; other site 983548002256 putative Mg++ binding site [ion binding]; other site 983548002257 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 983548002258 nucleotide binding region [chemical binding]; other site 983548002259 ATP-binding site [chemical binding]; other site 983548002260 RQC domain; Region: RQC; pfam09382 983548002261 HRDC domain; Region: HRDC; cl02578 983548002262 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 983548002263 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 983548002264 transmembrane helices; other site 983548002265 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 983548002266 dimerization interface [polypeptide binding]; other site 983548002267 active site 983548002268 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548002269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548002270 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 trans-...; Region: HisKA; cd00082 983548002271 dimer interface [polypeptide binding]; other site 983548002272 phosphorylation site [posttranslational modification] 983548002273 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 983548002274 ATP binding site [chemical binding]; other site 983548002275 Mg2+ binding site [ion binding]; other site 983548002276 G-X-G motif; other site 983548002277 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548002278 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983548002279 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 983548002280 N-terminal plug; other site 983548002281 ligand-binding site [chemical binding]; other site 983548002282 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 983548002283 active site 983548002284 phosphorylation site [posttranslational modification] 983548002285 intermolecular recognition site; other site 983548002286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983548002287 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 983548002288 active site 983548002289 phosphorylation site [posttranslational modification] 983548002290 intermolecular recognition site; other site 983548002291 dimerization interface [polypeptide binding]; other site 983548002292 Biotin synthase and related enzymes [Coenzyme metabolism]; Region: BioB; COG0502 983548002293 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 983548002294 FeS/SAM binding site; other site 983548002295 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 983548002296 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 983548002297 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 983548002298 active site 983548002299 Cytochrome oxidase complex assembly protein 1; Region: Coa1; cl14904 983548002300 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 983548002301 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 983548002302 inhibitor-cofactor binding pocket; inhibition site 983548002303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548002304 catalytic residue [active] 983548002305 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 983548002306 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 983548002307 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 983548002308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548002309 catalytic residue [active] 983548002310 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 983548002311 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983548002312 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 C-...; Region: PDZ_serine_protease; cd00987 983548002313 protein binding site [polypeptide binding]; other site 983548002314 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 983548002315 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 983548002316 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 983548002317 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 983548002318 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 983548002319 alpha subunit interaction interface [polypeptide binding]; other site 983548002320 Walker A motif; other site 983548002321 ATP binding site [chemical binding]; other site 983548002322 Walker B motif; other site 983548002323 inhibitor binding site; inhibition site 983548002324 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 983548002325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 983548002326 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...; Region: GFAT; cd00714 983548002327 glutaminase active site [active] 983548002328 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 983548002329 dimer interface [polypeptide binding]; other site 983548002330 active site 983548002331 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 983548002332 dimer interface [polypeptide binding]; other site 983548002333 active site 983548002334 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 983548002335 pantoate--beta-alanine ligase; Region: panC; TIGR00018 983548002336 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548002337 active site 983548002338 nucleotide binding site [chemical binding]; other site 983548002339 HIGH motif; other site 983548002340 KMSKS motif; other site 983548002341 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 983548002342 tetramerization interface [polypeptide binding]; other site 983548002343 active site 983548002344 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 983548002345 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548002346 Putative esterase; Region: Esterase; pfam00756 983548002347 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 983548002348 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548002349 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...; Region: LuxR_C_like; cd06170 983548002350 DNA binding residues [nucleotide binding] 983548002351 dimerization interface [polypeptide binding]; other site 983548002352 DNA repair protein RadA; Provisional; Region: PRK11823 983548002353 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 983548002354 Walker A motif/ATP binding site; other site 983548002355 ATP binding site [chemical binding]; other site 983548002356 Walker B motif; other site 983548002357 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548002358 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 983548002359 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...; Region: Aldo_ket_red; cd06660 983548002360 active site 983548002361 catalytic tetrad [active] 983548002362 hypothetical protein; Validated; Region: PRK09039 983548002363 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548002364 ligand binding site [chemical binding]; other site 983548002365 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 983548002366 putative active site [active] 983548002367 putative DNA binding site [nucleotide binding]; other site 983548002368 putative phosphate binding site [ion binding]; other site 983548002369 putative catalytic site [active] 983548002370 metal binding site A [ion binding]; metal-binding site 983548002371 putative AP binding site [nucleotide binding]; other site 983548002372 putative metal binding site B [ion binding]; other site 983548002373 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 983548002374 glycyl-tRNA synthetase; Provisional; Region: PRK04173 983548002375 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 983548002376 motif 1; other site 983548002377 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the...; Region: GlyRS-like_core; cd00774 983548002378 active site 983548002379 motif 2; other site 983548002380 motif 3; other site 983548002381 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 983548002382 anticodon binding site; other site 983548002383 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 983548002384 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 983548002385 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548002386 Predicted amidohydrolase [General function prediction only]; Region: COG0388 983548002387 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 983548002388 putative active site [active] 983548002389 catalytic triad [active] 983548002390 multimer interface [polypeptide binding]; other site 983548002391 dimer interface [polypeptide binding]; other site 983548002392 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 983548002393 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 983548002394 ligand binding site [chemical binding]; other site 983548002395 flexible hinge region; other site 983548002396 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 983548002397 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 983548002398 metal binding triad; other site 983548002399 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 983548002400 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983548002401 active site 983548002402 substrate binding site [chemical binding]; other site 983548002403 catalytic site [active] 983548002404 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 983548002405 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548002406 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 983548002407 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 983548002408 methionine aminotransferase; Validated; Region: PRK09082 983548002409 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 983548002410 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548002411 homodimer interface [polypeptide binding]; other site 983548002412 catalytic residue [active] 983548002413 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 983548002414 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 983548002415 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548002416 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 983548002417 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 983548002418 putative metal binding site [ion binding]; other site 983548002419 putative dimer interface [polypeptide binding]; other site 983548002420 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 983548002421 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 983548002422 dimer interface [polypeptide binding]; other site 983548002423 active site 983548002424 heme binding site [chemical binding]; other site 983548002425 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 983548002426 MarC family integral membrane protein; Region: MarC; cl00919 983548002427 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983548002428 C-terminal peptidase (prc); Region: prc; TIGR00225 983548002429 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 983548002430 protein binding site [polypeptide binding]; other site 983548002431 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 983548002432 Catalytic dyad [active] 983548002433 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 983548002434 catalytic motif [active] 983548002435 Zn binding site [ion binding]; other site 983548002436 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 983548002437 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 trans-...; Region: HisKA; cd00082 983548002438 dimer interface [polypeptide binding]; other site 983548002439 phosphorylation site [posttranslational modification] 983548002440 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 983548002441 ATP binding site [chemical binding]; other site 983548002442 Mg2+ binding site [ion binding]; other site 983548002443 G-X-G motif; other site 983548002444 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002445 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 983548002446 active site 983548002447 phosphorylation site [posttranslational modification] 983548002448 intermolecular recognition site; other site 983548002449 dimerization interface [polypeptide binding]; other site 983548002450 Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function...; Region: Rab; cd00154 983548002451 Rab subfamily motif 1 (RabSF1); other site 983548002452 G1 box; other site 983548002453 GTP/Mg2+ binding site [chemical binding]; other site 983548002454 Rab subfamily motif 2 (RabSF2); other site 983548002455 Switch I region; other site 983548002456 G2 box; other site 983548002457 effector interaction site; other site 983548002458 GDI interaction site; other site 983548002459 Rab family motif 1 (RabF1); other site 983548002460 GEF interaction site [polypeptide binding]; other site 983548002461 Rab family motif 2 (RabF2); other site 983548002462 G3 box; other site 983548002463 Switch II region; other site 983548002464 Rab family motif 3 (RabF3); other site 983548002465 Rab family motif 4 (RabF4); other site 983548002466 Rab family motif 5 (RabF5); other site 983548002467 Rab subfamily motif 3 (RabSF3); other site 983548002468 G4 box; other site 983548002469 G5 box; other site 983548002470 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1,7-...; Region: FBPase; cd00354 983548002471 AMP binding site [chemical binding]; other site 983548002472 metal binding site [ion binding]; metal-binding site 983548002473 active site 983548002474 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983548002475 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548002476 Coenzyme A binding pocket [chemical binding]; other site 983548002477 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 983548002478 putative catalytic residues [active] 983548002479 nucleotide binding site [chemical binding]; other site 983548002480 aspartate binding site [chemical binding]; other site 983548002481 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 983548002482 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 983548002483 putative acyl-acceptor binding pocket; other site 983548002484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548002485 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 983548002486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems...; Region: REC; cl09944 983548002487 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002488 phosphorylation site [posttranslational modification] 983548002489 intermolecular recognition site; other site 983548002490 putative diguanylate cyclase; Provisional; Region: PRK09776 983548002491 PAS domain S-box; Region: sensory_box; TIGR00229 983548002492 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 983548002493 putative active site [active] 983548002494 heme pocket [chemical binding]; other site 983548002495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548002496 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 983548002497 ATP binding site [chemical binding]; other site 983548002498 Mg2+ binding site [ion binding]; other site 983548002499 G-X-G motif; other site 983548002500 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 983548002501 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548002502 catalytic residue [active] 983548002503 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 983548002504 dimerization interface [polypeptide binding]; other site 983548002505 putative DNA binding site [nucleotide binding]; other site 983548002506 putative Zn2+ binding site [ion binding]; other site 983548002507 TM2 domain; Region: TM2; cl00984 983548002508 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 983548002509 active site 983548002510 metal binding site [ion binding]; metal-binding site 983548002511 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 983548002512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548002513 Cupin domain; Region: Cupin_2; cl09118 983548002514 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...; Region: 4HBT; cd00586 983548002515 active site 983548002516 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 983548002517 MgtE intracellular N domain; Region: MgtE_N; cl15244 983548002518 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 983548002519 Divalent cation transporter; Region: MgtE; cl00786 983548002520 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548002521 seryl-tRNA synthetase; Provisional; Region: PRK05431 983548002522 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 983548002523 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 983548002524 dimer interface [polypeptide binding]; other site 983548002525 active site 983548002526 motif 1; other site 983548002527 motif 2; other site 983548002528 motif 3; other site 983548002529 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 983548002530 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 983548002531 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 983548002532 active site 983548002533 Riboflavin kinase; Region: Flavokinase; pfam01687 983548002534 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 983548002535 putative active site [active] 983548002536 catalytic residue [active] 983548002537 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 983548002538 5S rRNA interface [nucleotide binding]; other site 983548002539 CTC domain interface; other site 983548002540 L16 interface [polypeptide binding]; other site 983548002541 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548002542 ribose-phosphate pyrophosphokinase; Region: ribP_PPkin; TIGR01251 983548002543 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 983548002544 MG2 domain; Region: A2M_N; pfam01835 983548002545 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 983548002546 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548002547 ATP-dependent DNA ligase; Validated; Region: PRK09247 983548002548 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 983548002549 active site 983548002550 DNA binding site [nucleotide binding] 983548002551 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 983548002552 DNA binding site [nucleotide binding] 983548002553 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 983548002554 putative active site [active] 983548002555 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 983548002556 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; cl14882 983548002557 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 983548002558 ATP binding site [chemical binding]; other site 983548002559 putative Mg++ binding site [ion binding]; other site 983548002560 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 983548002561 nucleotide binding region [chemical binding]; other site 983548002562 ATP-binding site [chemical binding]; other site 983548002563 DEAD/H associated; Region: DEAD_assoc; pfam08494 983548002564 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 983548002565 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 983548002566 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 983548002567 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 983548002568 Uncharacterised protein family (UPF0081); Region: UPF0081; cl00525 983548002569 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin...; Region: S1_Tex; cd05685 983548002570 RNA binding site [nucleotide binding]; other site 983548002571 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 983548002572 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 983548002573 active site 983548002574 HIGH motif; other site 983548002575 KMSKS motif; other site 983548002576 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 983548002577 tRNA binding surface [nucleotide binding]; other site 983548002578 anticodon binding site; other site 983548002579 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 983548002580 dimer interface [polypeptide binding]; other site 983548002581 putative tRNA-binding site [nucleotide binding]; other site 983548002582 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 983548002583 dimer interface [polypeptide binding]; other site 983548002584 catalytic triad [active] 983548002585 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 983548002586 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 983548002587 non-specific DNA binding site [nucleotide binding]; other site 983548002588 salt bridge; other site 983548002589 sequence-specific DNA binding site [nucleotide binding]; other site 983548002590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 983548002591 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548002592 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 983548002593 dimerization interface [polypeptide binding]; other site 983548002594 Domain of unknown function (DUF897); Region: DUF897; cl01312 983548002595 Uncharacterized conserved protein [Function unknown]; Region: COG1284 983548002596 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 983548002597 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 983548002598 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 983548002599 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 983548002600 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 983548002601 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 983548002602 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 983548002603 ATP binding site [chemical binding]; other site 983548002604 putative Mg++ binding site [ion binding]; other site 983548002605 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 983548002606 nucleotide binding region [chemical binding]; other site 983548002607 ATP-binding site [chemical binding]; other site 983548002608 TRCF domain; Region: TRCF; pfam03461 983548002609 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 983548002610 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl10040 983548002611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548002612 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 983548002613 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 983548002614 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 983548002615 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548002616 catalytic residue [active] 983548002617 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 983548002618 putative active site [active] 983548002619 putative metal binding site [ion binding]; other site 983548002620 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548002621 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 983548002622 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 983548002623 motif II; other site 983548002624 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 983548002625 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 983548002626 putative metal binding site [ion binding]; other site 983548002627 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...; Region: DnaJ; cd06257 983548002628 HSP70 interaction site [polypeptide binding]; other site 983548002629 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 983548002630 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548002631 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 983548002632 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548002633 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548002634 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548002635 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548002636 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 983548002637 TPR motif; other site 983548002638 binding surface 983548002639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548002640 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 983548002641 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 983548002642 substrate binding site [chemical binding]; other site 983548002643 oxyanion hole (OAH) forming residues; other site 983548002644 trimer interface [polypeptide binding]; other site 983548002645 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 983548002646 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548002647 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 connected by an extended linker. The...; Region: HAMP; cl01054 983548002648 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 trans-...; Region: HisKA; cd00082 983548002649 dimer interface [polypeptide binding]; other site 983548002650 phosphorylation site [posttranslational modification] 983548002651 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 983548002652 ATP binding site [chemical binding]; other site 983548002653 Mg2+ binding site [ion binding]; other site 983548002654 G-X-G motif; other site 983548002655 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 983548002656 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; cl01922 983548002657 VPS10 domain; Region: VPS10; smart00602 983548002658 Asp-box motif; other site 983548002659 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 983548002660 MatE; Region: MatE; pfam01554 983548002661 MatE; Region: MatE; pfam01554 983548002662 ferrochelatase; Reviewed; Region: hemH; PRK00035 983548002663 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 983548002664 C-terminal domain interface [polypeptide binding]; other site 983548002665 active site 983548002666 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 983548002667 active site 983548002668 N-terminal domain interface [polypeptide binding]; other site 983548002669 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 983548002670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983548002671 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 983548002672 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 983548002673 tRNA; other site 983548002674 putative tRNA binding site [nucleotide binding]; other site 983548002675 putative NADP binding site [chemical binding]; other site 983548002676 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 983548002677 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 983548002678 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; cl03189 983548002679 domain interfaces; other site 983548002680 active site 983548002681 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...; Region: HemD; cd06578 983548002682 active site 983548002683 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 983548002684 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 983548002685 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...; Region: URO-D; cd00717 983548002686 substrate binding site [chemical binding]; other site 983548002687 active site 983548002688 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 983548002689 Cation transport protein; Region: TrkH; cl10514 983548002690 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 983548002691 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 983548002692 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983548002693 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 983548002694 ATP binding site [chemical binding]; other site 983548002695 putative Mg++ binding site [ion binding]; other site 983548002696 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 983548002697 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; cl14882 983548002698 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 983548002699 dimer interface [polypeptide binding]; other site 983548002700 allosteric magnesium binding site [ion binding]; other site 983548002701 active site 983548002702 aspartate-rich active site metal binding site; other site 983548002703 Schiff base residues; other site 983548002704 Domain of unknown function (DUF3291); Region: DUF3291; pfam11695 983548002705 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 983548002706 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; cl11391 983548002707 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 983548002708 motif II; other site 983548002709 Domain of unknown function DUF21; Region: DUF21; pfam01595 983548002710 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 983548002711 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548002712 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 983548002713 TPR motif; other site 983548002714 binding surface 983548002715 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548002716 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 trans-...; Region: HisKA; cd00082 983548002717 dimer interface [polypeptide binding]; other site 983548002718 phosphorylation site [posttranslational modification] 983548002719 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 983548002720 ATP binding site [chemical binding]; other site 983548002721 Mg2+ binding site [ion binding]; other site 983548002722 G-X-G motif; other site 983548002723 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002724 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 983548002725 active site 983548002726 phosphorylation site [posttranslational modification] 983548002727 intermolecular recognition site; other site 983548002728 dimerization interface [polypeptide binding]; other site 983548002729 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 983548002730 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 983548002731 DNA binding site [nucleotide binding] 983548002732 active site 983548002733 Beta-lactamase; Region: Beta-lactamase; cl01009 983548002734 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 983548002735 active site 983548002736 catalytic site [active] 983548002737 substrate binding site [chemical binding]; other site 983548002738 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 983548002739 Fungalysin metallopeptidase (M36); Region: Peptidase_M36; pfam02128 983548002740 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 983548002741 Zn binding site [ion binding]; other site 983548002742 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cd06263 983548002743 putative adhesion site; other site 983548002744 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 983548002745 Interdomain contacts; other site 983548002746 Cytokine receptor motif; other site 983548002747 Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members...; Region: MAM; cl02479 983548002748 putative adhesion site; other site 983548002749 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 983548002750 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 983548002751 Walker A/P-loop; other site 983548002752 ATP binding site [chemical binding]; other site 983548002753 Q-loop/lid; other site 983548002754 ABC transporter signature motif; other site 983548002755 Walker B; other site 983548002756 D-loop; other site 983548002757 H-loop/switch region; other site 983548002758 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 983548002759 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 983548002760 Walker A/P-loop; other site 983548002761 ATP binding site [chemical binding]; other site 983548002762 Q-loop/lid; other site 983548002763 ABC transporter signature motif; other site 983548002764 Walker B; other site 983548002765 D-loop; other site 983548002766 H-loop/switch region; other site 983548002767 Coenzyme A transferase; Region: CoA_trans; cl00773 983548002768 Coenzyme A transferase; Region: CoA_trans; cl00773 983548002769 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 983548002770 Transglycosylase; Region: Transgly; cl07896 983548002771 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 983548002772 gliding motility-associated lipoprotein GldH; Region: GldH_lipo; TIGR03511 983548002773 PSP1 C-terminal conserved region; Region: PSP1; cl00770 983548002774 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 983548002775 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 983548002776 active site residue [active] 983548002777 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 983548002778 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 983548002779 hexamer interface [polypeptide binding]; other site 983548002780 Walker A motif; other site 983548002781 ATP binding site [chemical binding]; other site 983548002782 Walker B motif; other site 983548002783 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548002784 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548002785 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...; Region: Sigma70_r4; cd06171 983548002786 DNA binding residues [nucleotide binding] 983548002787 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 983548002788 putative acyl-acceptor binding pocket; other site 983548002789 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 983548002790 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 983548002791 active site 983548002792 HIGH motif; other site 983548002793 dimer interface [polypeptide binding]; other site 983548002794 KMSKS motif; other site 983548002795 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 983548002796 active site 983548002797 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983548002798 putative active site [active] 983548002799 putative metal binding site [ion binding]; other site 983548002800 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 983548002801 DHH family; Region: DHH; pfam01368 983548002802 DHHA1 domain; Region: DHHA1; pfam02272 983548002803 OsmC-like protein; Region: OsmC; cl00767 983548002804 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983548002805 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 983548002806 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 983548002807 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548002808 active site 983548002809 HIGH motif; other site 983548002810 nucleotide binding site [chemical binding]; other site 983548002811 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548002812 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548002813 active site 983548002814 KMSKS motif; other site 983548002815 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 983548002816 tRNA binding surface [nucleotide binding]; other site 983548002817 anticodon binding site; other site 983548002818 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 983548002819 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 983548002820 lipoprotein signal peptidase; Provisional; Region: PRK14787 983548002821 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 983548002822 Response regulator receiver domain; Region: Response_reg; pfam00072 983548002823 active site 983548002824 phosphorylation site [posttranslational modification] 983548002825 intermolecular recognition site; other site 983548002826 dimerization interface [polypeptide binding]; other site 983548002827 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 983548002828 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]; Region: COG4251 983548002829 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 983548002830 ATP binding site [chemical binding]; other site 983548002831 Mg2+ binding site [ion binding]; other site 983548002832 G-X-G motif; other site 983548002833 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 983548002834 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 983548002835 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 983548002836 putative active site [active] 983548002837 Zn-binding site [ion binding]; other site 983548002838 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 983548002839 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548002840 Protein of unknown function (DUF785); Region: DUF785; cl01682 983548002841 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 983548002842 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 983548002843 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 983548002844 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 983548002845 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 983548002846 active site 983548002847 nucleophile elbow; other site 983548002848 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 983548002849 Surface antigen; Region: Bac_surface_Ag; cl03097 983548002850 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 983548002851 pyruvate kinase; Provisional; Region: PRK05826 983548002852 domain interfaces; other site 983548002853 active site 983548002854 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 trans-...; Region: HisKA; cl00080 983548002855 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 983548002856 ATP binding site [chemical binding]; other site 983548002857 Mg2+ binding site [ion binding]; other site 983548002858 G-X-G motif; other site 983548002859 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 983548002860 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 post-...; Region: RIBOc; cd00593 983548002861 dimerization interface [polypeptide binding]; other site 983548002862 active site 983548002863 metal binding site [ion binding]; metal-binding site 983548002864 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...; Region: DSRM; cd00048 983548002865 dsRNA binding site [nucleotide binding]; other site 983548002866 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 983548002867 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 983548002868 dimer interface [polypeptide binding]; other site 983548002869 active site 983548002870 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548002871 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 983548002872 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 983548002873 active site 983548002874 substrate binding site [chemical binding]; other site 983548002875 cosubstrate binding site; other site 983548002876 catalytic site [active] 983548002877 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 983548002878 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 983548002879 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 983548002880 RNA/DNA hybrid binding site [nucleotide binding]; other site 983548002881 active site 983548002882 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, 2-...; Region: ribokinase_pfkB_like; cl00192 983548002883 substrate binding site [chemical binding]; other site 983548002884 ATP binding site [chemical binding]; other site 983548002885 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 983548002886 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 983548002887 active site 983548002888 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 983548002889 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 983548002890 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 983548002891 putative recombination protein RecB; Provisional; Region: PRK13909 983548002892 UvrD/REP helicase; Region: UvrD-helicase; cl14126 983548002893 UvrD/REP helicase; Region: UvrD-helicase; cl14126 983548002894 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 983548002895 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 983548002896 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), 8-amino-7-...; Region: KBL_like; cd06454 983548002897 substrate-cofactor binding pocket; other site 983548002898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548002899 catalytic residue [active] 983548002900 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548002901 ligand binding site [chemical binding]; other site 983548002902 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 983548002903 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 983548002904 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 983548002905 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 983548002906 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 983548002907 Phage integrase family; Region: Phage_integrase; pfam00589 983548002908 DNA binding site [nucleotide binding] 983548002909 Int/Topo IB signature motif; other site 983548002910 active site 983548002911 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 983548002912 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...; Region: TOPRIM_primases; cd01029 983548002913 active site 983548002914 metal binding site [ion binding]; metal-binding site 983548002915 interdomain interaction site; other site 983548002916 Virulence-associated protein E; Region: VirE; pfam05272 983548002917 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 983548002918 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 983548002919 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983548002920 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; cl11391 983548002921 MerT mercuric transport protein; Region: MerT; cl03578 983548002922 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 983548002923 metal-binding site [ion binding] 983548002924 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548002925 metal binding site 2 [ion binding]; metal-binding site 983548002926 putative DNA binding helix; other site 983548002927 metal binding site 1 [ion binding]; metal-binding site 983548002928 dimer interface [polypeptide binding]; other site 983548002929 structural Zn2+ binding site [ion binding]; other site 983548002930 Cation efflux family; Region: Cation_efflux; cl00316 983548002931 HlyD family secretion protein; Region: HlyD_2; pfam12700 983548002932 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 983548002933 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 983548002934 Outer membrane efflux protein; Region: OEP; pfam02321 983548002935 Outer membrane efflux protein; Region: OEP; pfam02321 983548002936 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548002937 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 983548002938 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 983548002939 Domain of unknown function (DUF305); Region: DUF305; pfam03713 983548002940 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 983548002941 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 983548002942 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 983548002943 metal-binding site [ion binding] 983548002944 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 983548002945 metal-binding site [ion binding] 983548002946 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 983548002947 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983548002948 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; cl11391 983548002949 voltage-gated potassium channel; Provisional; Region: PRK10537 983548002950 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 983548002951 multicopper oxidase; Provisional; Region: PRK10965 983548002952 Multicopper oxidase; Region: Cu-oxidase; cl14658 983548002953 Multicopper oxidase; Region: Cu-oxidase; cl14658 983548002954 Multicopper oxidase; Region: Cu-oxidase; cl14658 983548002955 Protein of unknown function, DUF481; Region: DUF481; cl01213 983548002956 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983548002957 Outer membrane efflux protein; Region: OEP; pfam02321 983548002958 Outer membrane efflux protein; Region: OEP; pfam02321 983548002959 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 983548002960 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 983548002961 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 983548002962 Ligand Binding Site [chemical binding]; other site 983548002963 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548002964 Coenzyme A binding pocket [chemical binding]; other site 983548002965 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 983548002966 MatE; Region: MatE; pfam01554 983548002967 MatE; Region: MatE; pfam01554 983548002968 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 983548002969 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548002970 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548002971 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 983548002972 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 983548002973 active site 983548002974 catalytic triad [active] 983548002975 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 983548002976 Zn binding site [ion binding]; other site 983548002977 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 983548002978 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 983548002979 active site 983548002980 DNA binding site [nucleotide binding] 983548002981 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88)...; Region: Peptidase_S24_S26; cl10465 983548002982 Ribonuclease P; Region: Ribonuclease_P; cl00457 983548002983 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983548002984 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 983548002985 protein binding site [polypeptide binding]; other site 983548002986 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 983548002987 Catalytic dyad [active] 983548002988 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548002989 ligand binding site [chemical binding]; other site 983548002990 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548002991 ligand binding site [chemical binding]; other site 983548002992 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548002993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548002994 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 983548002995 ribonuclease R; Region: RNase_R; TIGR02063 983548002996 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 983548002997 RNB domain; Region: RNB; pfam00773 983548002998 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an...; Region: S1_RNase_R; cd04471 983548002999 RNA binding site [nucleotide binding]; other site 983548003000 Predicted amidohydrolase [General function prediction only]; Region: COG0388 983548003001 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 983548003002 putative active site [active] 983548003003 catalytic triad [active] 983548003004 putative dimer interface [polypeptide binding]; other site 983548003005 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548003006 LysE type translocator; Region: LysE; cl00565 983548003007 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 983548003008 active site 983548003009 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; cl01381 983548003010 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 983548003011 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003012 active site 983548003013 HIGH motif; other site 983548003014 nucleotide binding site [chemical binding]; other site 983548003015 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 983548003016 KMSKS motif; other site 983548003017 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 983548003018 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 983548003019 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_4; cd03407 983548003020 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 983548003021 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 983548003022 active site 983548003023 HIGH motif; other site 983548003024 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 983548003025 active site 983548003026 KMSKS motif; other site 983548003027 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 983548003028 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; cl11520 983548003029 Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]; Region: GidA; COG0445 983548003030 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 983548003031 S-adenosylmethionine binding site [chemical binding]; other site 983548003032 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 983548003033 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 983548003034 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 983548003035 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 983548003036 substrate binding site [chemical binding]; other site 983548003037 hinge regions; other site 983548003038 ADP binding site [chemical binding]; other site 983548003039 catalytic site [active] 983548003040 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 983548003041 N-acetyl-D-glucosamine binding site [chemical binding]; other site 983548003042 catalytic residue [active] 983548003043 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 983548003044 putative peptidoglycan binding site; other site 983548003045 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 983548003046 putative peptidoglycan binding site; other site 983548003047 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 983548003048 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548003049 GH3 auxin-responsive promoter; Region: GH3; cl04006 983548003050 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 983548003051 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 983548003052 NADP-binding site; other site 983548003053 homotetramer interface [polypeptide binding]; other site 983548003054 substrate binding site [chemical binding]; other site 983548003055 homodimer interface [polypeptide binding]; other site 983548003056 active site 983548003057 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 983548003058 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 983548003059 NADP binding site [chemical binding]; other site 983548003060 active site 983548003061 putative substrate binding site [chemical binding]; other site 983548003062 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548003063 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 983548003064 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548003065 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 983548003066 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 983548003067 O-Antigen ligase; Region: Wzy_C; cl04850 983548003068 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548003069 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 983548003070 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 983548003071 putative glycosyl transferase; Provisional; Region: PRK10307 983548003072 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983548003073 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 983548003074 NAD binding site [chemical binding]; other site 983548003075 putative substrate binding site 2 [chemical binding]; other site 983548003076 putative substrate binding site 1 [chemical binding]; other site 983548003077 active site 983548003078 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 983548003079 Bacterial sugar transferase; Region: Bac_transf; cl00939 983548003080 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 983548003081 active site 983548003082 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548003083 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 983548003084 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 983548003085 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548003086 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 983548003087 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 983548003088 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 983548003089 putative active site [active] 983548003090 Nitronate monooxygenase; Region: NMO; pfam03060 983548003091 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...; Region: NPD_like; cd04730 983548003092 FMN binding site [chemical binding]; other site 983548003093 substrate binding site [chemical binding]; other site 983548003094 putative catalytic residue [active] 983548003095 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 983548003096 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 983548003097 Walker A/P-loop; other site 983548003098 ATP binding site [chemical binding]; other site 983548003099 Q-loop/lid; other site 983548003100 ABC transporter signature motif; other site 983548003101 Walker B; other site 983548003102 D-loop; other site 983548003103 H-loop/switch region; other site 983548003104 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 983548003105 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-...; Region: PA_degradation_oxidoreductase_like; cd06214 983548003106 FAD binding pocket [chemical binding]; other site 983548003107 FAD binding motif [chemical binding]; other site 983548003108 phosphate binding motif [ion binding]; other site 983548003109 beta-alpha-beta structure motif; other site 983548003110 NAD(p) ribose binding residues [chemical binding]; other site 983548003111 NAD binding pocket [chemical binding]; other site 983548003112 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 983548003113 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 983548003114 catalytic loop [active] 983548003115 iron binding site [ion binding]; other site 983548003116 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 983548003117 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 983548003118 Walker A/P-loop; other site 983548003119 ATP binding site [chemical binding]; other site 983548003120 Q-loop/lid; other site 983548003121 ABC transporter signature motif; other site 983548003122 Walker B; other site 983548003123 D-loop; other site 983548003124 H-loop/switch region; other site 983548003125 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548003126 Polymer-forming cytoskeletal; Region: Bactofilin; cl09137 983548003127 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 983548003128 ATP synthase A chain; Region: ATP-synt_A; cl00413 983548003129 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 983548003130 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 983548003131 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 983548003132 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 983548003133 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 983548003134 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 983548003135 beta subunit interaction interface [polypeptide binding]; other site 983548003136 Walker A motif; other site 983548003137 ATP binding site [chemical binding]; other site 983548003138 Walker B motif; other site 983548003139 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 983548003140 ATP synthase; Region: ATP-synt; cl00365 983548003141 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 983548003142 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 983548003143 trimer interface [polypeptide binding]; other site 983548003144 active site 983548003145 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 983548003146 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 983548003147 active site 983548003148 Substrate binding site [chemical binding]; other site 983548003149 Mg++ binding site [ion binding]; other site 983548003150 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 983548003151 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548003152 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 983548003153 binding surface 983548003154 TPR motif; other site 983548003155 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 983548003156 binding surface 983548003157 TPR motif; other site 983548003158 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 983548003159 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548003160 CsbD-like; Region: CsbD; cl01272 983548003161 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...; Region: BFIT_BACH; cd03442 983548003162 Sporulation related domain; Region: SPOR; cl10051 983548003163 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 983548003164 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 983548003165 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 983548003166 BON domain; Region: BON; cl02771 983548003167 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 983548003168 putative peptidoglycan binding site; other site 983548003169 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 983548003170 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 983548003171 active site 983548003172 (T/H)XGH motif; other site 983548003173 HopJ type III effector protein; Region: HopJ; pfam08888 983548003174 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...; Region: GMPK; cd00071 983548003175 catalytic site [active] 983548003176 G-X2-G-X-G-K; other site 983548003177 hypothetical protein; Provisional; Region: PRK11820 983548003178 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 983548003179 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 983548003180 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 983548003181 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 983548003182 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 983548003183 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 983548003184 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 983548003185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003186 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 983548003187 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 983548003188 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 983548003189 putative substrate translocation pore; other site 983548003190 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 983548003191 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 983548003192 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548003193 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 983548003194 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 D-arabino-6-...; Region: AP2Ec; cl12060 983548003195 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 983548003196 DNA interaction; other site 983548003197 Metal-binding active site; metal-binding site 983548003198 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 983548003199 FtsX-like permease family; Region: FtsX; pfam02687 983548003200 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 983548003201 Bacitracin resistance protein BacA; Region: BacA; cl00858 983548003202 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 983548003203 RNA binding site [nucleotide binding]; other site 983548003204 active site 983548003205 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548003206 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 983548003207 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 983548003208 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 983548003209 Flavin Reductases; Region: FlaRed; cl00801 983548003210 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 983548003211 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 983548003212 dimer interface [polypeptide binding]; other site 983548003213 putative tRNA-binding site [nucleotide binding]; other site 983548003214 OsmC-like protein; Region: OsmC; cl00767 983548003215 Uncharacterized conserved protein [Function unknown]; Region: COG3743 983548003216 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 983548003217 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548003218 ligand binding site [chemical binding]; other site 983548003219 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 983548003220 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548003221 tetrameric interface [polypeptide binding]; other site 983548003222 NAD binding site [chemical binding]; other site 983548003223 catalytic residues [active] 983548003224 Cupin domain; Region: Cupin_2; cl09118 983548003225 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 983548003226 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 983548003227 catalytic nucleophile [active] 983548003228 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548003229 FOG: CBS domain [General function prediction only]; Region: COG0517 983548003230 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-...; Region: CBS_pair_16; cd04629 983548003231 M28, and M42; Region: Zinc_peptidase_like; cl14876 983548003232 metal binding site [ion binding]; metal-binding site 983548003233 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 983548003234 putative NAD(P) binding site [chemical binding]; other site 983548003235 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 983548003236 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 983548003237 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 983548003238 active site 983548003239 Zn binding site [ion binding]; other site 983548003240 Ycf48-like protein; Provisional; Region: PRK13684 983548003241 VPS10 domain; Region: VPS10; smart00602 983548003242 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 983548003243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983548003244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003245 NAD(P) binding site [chemical binding]; other site 983548003246 active site 983548003247 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 983548003248 RF-1 domain; Region: RF-1; cl02875 983548003249 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 983548003250 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 983548003251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548003252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983548003253 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...; Region: 4HBT; cd00586 983548003254 active site 983548003255 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 983548003256 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983548003257 EamA-like transporter family; Region: EamA; cl01037 983548003258 EamA-like transporter family; Region: EamA; cl01037 983548003259 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 983548003260 catalytic residue [active] 983548003261 DinB superfamily; Region: DinB_2; cl00986 983548003262 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 983548003263 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 983548003264 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 983548003265 homodimer interface [polypeptide binding]; other site 983548003266 substrate-cofactor binding pocket; other site 983548003267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548003268 catalytic residue [active] 983548003269 glutamate dehydrogenase; Provisional; Region: PRK09414 983548003270 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 983548003271 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 983548003272 NAD(P) binding site [chemical binding]; other site 983548003273 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 983548003274 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 983548003275 Recombination protein O N terminal; Region: RecO_N; pfam11967 983548003276 Recombination protein O C terminal; Region: RecO_C; pfam02565 983548003277 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 983548003278 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 983548003279 N-terminal plug; other site 983548003280 ligand-binding site [chemical binding]; other site 983548003281 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 983548003282 Thymidine kinase; Region: TK; cl00631 983548003283 alanine racemase; Reviewed; Region: alr; PRK00053 983548003284 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 983548003285 active site 983548003286 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 983548003287 dimer interface [polypeptide binding]; other site 983548003288 substrate binding site [chemical binding]; other site 983548003289 catalytic residues [active] 983548003290 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 983548003291 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 983548003292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003293 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 983548003294 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 983548003295 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 983548003296 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548003297 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 983548003298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003299 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 983548003300 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 983548003301 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 983548003302 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 983548003303 dimer interface [polypeptide binding]; other site 983548003304 motif 1; other site 983548003305 active site 983548003306 motif 2; other site 983548003307 motif 3; other site 983548003308 Colicin V production protein; Region: Colicin_V; cl00567 983548003309 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 983548003310 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548003311 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548003312 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 983548003313 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 983548003314 active site clefts [active] 983548003315 zinc binding site [ion binding]; other site 983548003316 dimer interface [polypeptide binding]; other site 983548003317 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 983548003318 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548003319 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 983548003320 binding surface 983548003321 TPR motif; other site 983548003322 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 983548003323 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 983548003324 metal ion-dependent adhesion site (MIDAS); other site 983548003325 Aerotolerance regulator N-terminal; Region: BatA; cl06567 983548003326 VWA BatA type: 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-...; Region: vWA_BatA_type; cd01467 983548003327 metal ion-dependent adhesion site (MIDAS); other site 983548003328 Protein of unknown function DUF58; Region: DUF58; pfam01882 983548003329 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 983548003330 MoxR-like ATPases [General function prediction only]; Region: COG0714 983548003331 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548003332 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 983548003333 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...; Region: Aldo_ket_red; cd06660 983548003334 active site 983548003335 catalytic tetrad [active] 983548003336 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983548003337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003338 NAD(P) binding site [chemical binding]; other site 983548003339 active site 983548003340 Divergent AAA domain; Region: AAA_4; pfam04326 983548003341 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 983548003342 active site 983548003343 metal binding site [ion binding]; metal-binding site 983548003344 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 trans-...; Region: HisKA; cl00080 983548003345 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 983548003346 ATP binding site [chemical binding]; other site 983548003347 Mg2+ binding site [ion binding]; other site 983548003348 G-X-G motif; other site 983548003349 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 983548003350 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...; Region: ADPRase_NUDT5; cd03424 983548003351 dimer interface [polypeptide binding]; other site 983548003352 ADP-ribose binding site [chemical binding]; other site 983548003353 active site 983548003354 nudix motif; other site 983548003355 metal binding site [ion binding]; metal-binding site 983548003356 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 983548003357 nucleotide binding site/active site [active] 983548003358 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 983548003359 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 983548003360 domain; Region: GreA_GreB_N; pfam03449 983548003361 C-term; Region: GreA_GreB; pfam01272 983548003362 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983548003363 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 983548003364 N-terminal plug; other site 983548003365 ligand-binding site [chemical binding]; other site 983548003366 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 983548003367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003368 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 983548003369 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 983548003370 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003371 active site 983548003372 HIGH motif; other site 983548003373 nucleotide binding site [chemical binding]; other site 983548003374 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003375 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003376 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003377 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548003378 active site 983548003379 KMSKS motif; other site 983548003380 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 983548003381 tRNA binding surface [nucleotide binding]; other site 983548003382 PQ loop repeat; Region: PQ-loop; cl12056 983548003383 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 983548003384 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 983548003385 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 983548003386 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 983548003387 catalytic residues [active] 983548003388 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 983548003389 oligomer interface [polypeptide binding]; other site 983548003390 active site residues [active] 983548003391 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 983548003392 Protein of unknown function DUF58; Region: DUF58; pfam01882 983548003393 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 983548003394 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 983548003395 metal binding site [ion binding]; metal-binding site 983548003396 dimer interface [polypeptide binding]; other site 983548003397 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 983548003398 Protein of unknown function (DUF2452); Region: DUF2452; pfam10504 983548003399 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 983548003400 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 983548003401 DNA photolyase; Region: DNA_photolyase; pfam00875 983548003402 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 983548003403 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 983548003404 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 983548003405 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 983548003406 DNA photolyase; Region: DNA_photolyase; pfam00875 983548003407 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 983548003408 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 983548003409 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 983548003410 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]; Region: COG1646 983548003411 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 983548003412 phosphate binding site [ion binding]; other site 983548003413 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 983548003414 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 983548003415 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 983548003416 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 983548003417 oligomerization interface [polypeptide binding]; other site 983548003418 active site 983548003419 NAD+ binding site [chemical binding]; other site 983548003420 TM2 domain; Region: TM2; cl00984 983548003421 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 983548003422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548003423 lysine-ketoglutarate reductase/saccharopine dehydrogenase; Region: PLN02819 983548003424 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003425 Protein of unknown function (DUF423); Region: DUF423; cl01008 983548003426 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 983548003427 active site 983548003428 substrate-binding site [chemical binding]; other site 983548003429 metal-binding site [ion binding] 983548003430 ATP binding site [chemical binding]; other site 983548003431 EamA-like transporter family; Region: EamA; cl01037 983548003432 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983548003433 EamA-like transporter family; Region: EamA; cl01037 983548003434 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 983548003435 gliding motility-associated protein GldE; Region: GldE; TIGR03520 983548003436 Domain of unknown function DUF21; Region: DUF21; pfam01595 983548003437 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 983548003438 Transporter associated domain; Region: CorC_HlyC; pfam03471 983548003439 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 983548003440 dimer interface [polypeptide binding]; other site 983548003441 ssDNA binding site [nucleotide binding]; other site 983548003442 tetramer (dimer of dimers) interface [polypeptide binding]; other site 983548003443 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983548003444 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 983548003445 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 983548003446 minor groove reading motif; other site 983548003447 helix-hairpin-helix signature motif; other site 983548003448 substrate binding pocket [chemical binding]; other site 983548003449 active site 983548003450 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 983548003451 DNA binding and oxoG recognition site [nucleotide binding] 983548003452 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 higher-...; Region: HU_IHF; cd00591 983548003453 IHF - DNA interface [nucleotide binding]; other site 983548003454 IHF dimer interface [polypeptide binding]; other site 983548003455 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 983548003456 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 983548003457 homodimer interface [polypeptide binding]; other site 983548003458 oligonucleotide binding site [chemical binding]; other site 983548003459 RecX family; Region: RecX; cl00936 983548003460 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...; Region: OM_channels; cl00284 983548003461 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 983548003462 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 983548003463 putative active site [active] 983548003464 heme pocket [chemical binding]; other site 983548003465 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 983548003466 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548003467 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 983548003468 FeoA domain; Region: FeoA; cl00838 983548003469 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...; Region: TroA-like; cl00262 983548003470 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 983548003471 intersubunit interface [polypeptide binding]; other site 983548003472 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 983548003473 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 983548003474 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 983548003475 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...; Region: TM_ABC_iron-siderophores_like; cd06550 983548003476 ABC-ATPase subunit interface; other site 983548003477 dimer interface [polypeptide binding]; other site 983548003478 putative PBP binding regions; other site 983548003479 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...; Region: TM_ABC_iron-siderophores_like; cd06550 983548003480 ABC-ATPase subunit interface; other site 983548003481 dimer interface [polypeptide binding]; other site 983548003482 putative PBP binding regions; other site 983548003483 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 983548003484 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 983548003485 G1 box; other site 983548003486 GTP/Mg2+ binding site [chemical binding]; other site 983548003487 Switch I region; other site 983548003488 G2 box; other site 983548003489 G3 box; other site 983548003490 Switch II region; other site 983548003491 G4 box; other site 983548003492 G5 box; other site 983548003493 Nucleoside recognition; Region: Gate; cl00486 983548003494 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 983548003495 Nucleoside recognition; Region: Gate; cl00486 983548003496 FeoA domain; Region: FeoA; cl00838 983548003497 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 983548003498 Cu(I) binding site [ion binding]; other site 983548003499 RIP metalloprotease RseP; Region: TIGR00054 983548003500 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 983548003501 active site 983548003502 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...; Region: PDZ_metalloprotease; cd00989 983548003503 protein binding site [polypeptide binding]; other site 983548003504 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 983548003505 putative substrate binding region [chemical binding]; other site 983548003506 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 983548003507 Calx-beta domain; Region: Calx-beta; cl02522 983548003508 Calx-beta domain; Region: Calx-beta; cl02522 983548003509 Calx-beta domain; Region: Calx-beta; cl02522 983548003510 Calx-beta domain; Region: Calx-beta; cl02522 983548003511 Calx-beta domain; Region: Calx-beta; cl02522 983548003512 Calx-beta domain; Region: Calx-beta; cl02522 983548003513 Calx-beta domain; Region: Calx-beta; cl02522 983548003514 Calx-beta domain; Region: Calx-beta; cl02522 983548003515 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548003516 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548003517 ligand binding site [chemical binding]; other site 983548003518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548003519 Peptidase family M48; Region: Peptidase_M48; cl12018 983548003520 Gram-negative bacterial tonB protein; Region: TonB; cl10048 983548003521 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548003522 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 983548003523 binding surface 983548003524 TPR motif; other site 983548003525 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 983548003526 binding surface 983548003527 TPR motif; other site 983548003528 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_e; cd04192 983548003529 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 983548003530 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 983548003531 active site 983548003532 putative DNA-binding cleft [nucleotide binding]; other site 983548003533 dimer interface [polypeptide binding]; other site 983548003534 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 983548003535 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 983548003536 FeS/SAM binding site; other site 983548003537 HemN C-terminal region; Region: HemN_C; pfam06969 983548003538 Putative cyclase; Region: Cyclase; cl00814 983548003539 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 983548003540 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 983548003541 MG2 domain; Region: A2M_N; pfam01835 983548003542 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 983548003543 Alpha-2-macroglobulin family; Region: A2M; pfam00207 983548003544 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 983548003545 surface patch; other site 983548003546 thioester region; other site 983548003547 specificity defining residues; other site 983548003548 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 983548003549 Transglycosylase; Region: Transgly; cl07896 983548003550 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 983548003551 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 983548003552 YCII-related domain; Region: YCII; cl00999 983548003553 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 983548003554 putative active site [active] 983548003555 putative metal binding residues [ion binding]; other site 983548003556 signature motif; other site 983548003557 putative dimer interface [polypeptide binding]; other site 983548003558 putative phosphate binding site [ion binding]; other site 983548003559 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 983548003560 active site 983548003561 metal binding site [ion binding]; metal-binding site 983548003562 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 983548003563 active site 983548003564 metal binding site [ion binding]; metal-binding site 983548003565 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 983548003566 NAD binding site [chemical binding]; other site 983548003567 active site 983548003568 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 983548003569 active site 983548003570 DNA polymerase IV; Validated; Region: PRK02406 983548003571 DNA binding site [nucleotide binding] 983548003572 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548003573 Peptidase family M48; Region: Peptidase_M48; cl12018 983548003574 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 983548003575 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548003576 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 983548003577 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 983548003578 metal binding site [ion binding]; metal-binding site 983548003579 putative dimer interface [polypeptide binding]; other site 983548003580 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 983548003581 putative substrate binding site [chemical binding]; other site 983548003582 putative ATP binding site [chemical binding]; other site 983548003583 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 983548003584 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 983548003585 putative substrate translocation pore; other site 983548003586 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 983548003587 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 983548003588 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 983548003589 substrate binding [chemical binding]; other site 983548003590 active site 983548003591 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 983548003592 Transcriptional regulators [Transcription]; Region: PurR; COG1609 983548003593 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 983548003594 DNA binding site [nucleotide binding] 983548003595 domain linker motif; other site 983548003596 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 983548003597 dimerization interface [polypeptide binding]; other site 983548003598 ligand binding site [chemical binding]; other site 983548003599 beta-phosphoglucomutase; Region: bPGM; TIGR01990 983548003600 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 983548003601 maltose phosphorylase; Provisional; Region: PRK13807 983548003602 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 983548003603 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 983548003604 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 983548003605 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 983548003606 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 983548003607 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 983548003608 active site 983548003609 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 983548003610 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 983548003611 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 983548003612 starch binding outer membrane protein SusD; Region: SusD; cl14779 983548003613 starch binding outer membrane protein SusD; Region: SusD; cl14779 983548003614 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548003615 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548003616 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...; Region: OM_channels; cl00284 983548003617 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548003618 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548003619 flavoprotein, HI0933 family; Region: TIGR00275 983548003620 TspO/MBR family; Region: TspO_MBR; cl01379 983548003621 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 983548003622 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 983548003623 mevalonate kinase; Region: mevalon_kin; TIGR00549 983548003624 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 983548003625 UbiA prenyltransferase family; Region: UbiA; cl00337 983548003626 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 983548003627 DNA-binding site [nucleotide binding]; DNA binding site 983548003628 RNA-binding motif; other site 983548003629 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 983548003630 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 983548003631 dimer interface [polypeptide binding]; other site 983548003632 anticodon binding site; other site 983548003633 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 983548003634 homodimer interface [polypeptide binding]; other site 983548003635 motif 1; other site 983548003636 active site 983548003637 motif 2; other site 983548003638 GAD domain; Region: GAD; pfam02938 983548003639 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 983548003640 active site 983548003641 motif 3; other site 983548003642 Protein of unknown function (DUF3050); Region: DUF3050; pfam11251 983548003643 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...; Region: HemD; cd06578 983548003644 active site 983548003645 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 983548003646 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 983548003647 Ligand binding site [chemical binding]; other site 983548003648 Putative Catalytic site [active] 983548003649 DXD motif; other site 983548003650 dihydroorotase; Reviewed; Region: PRK09236 983548003651 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 983548003652 active site 983548003653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003654 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 983548003655 NAD(P) binding site [chemical binding]; other site 983548003656 active site 983548003657 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 983548003658 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 983548003659 active site 983548003660 HIGH motif; other site 983548003661 dimer interface [polypeptide binding]; other site 983548003662 KMSKS motif; other site 983548003663 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 983548003664 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 983548003665 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548003666 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548003667 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 983548003668 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 983548003669 active site 983548003670 phosphorylation site [posttranslational modification] 983548003671 intermolecular recognition site; other site 983548003672 dimerization interface [polypeptide binding]; other site 983548003673 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...; Region: trans_reg_C; cd00383 983548003674 DNA binding site [nucleotide binding] 983548003675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548003676 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 trans-...; Region: HisKA; cd00082 983548003677 dimer interface [polypeptide binding]; other site 983548003678 phosphorylation site [posttranslational modification] 983548003679 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 983548003680 ATP binding site [chemical binding]; other site 983548003681 Mg2+ binding site [ion binding]; other site 983548003682 G-X-G motif; other site 983548003683 conserved hypothetical protein; Region: MJ1255; TIGR00661 983548003684 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 983548003685 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548003686 LysE type translocator; Region: LysE; cl00565 983548003687 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 983548003688 DNA binding site [nucleotide binding] 983548003689 active site 983548003690 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 983548003691 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 983548003692 Walker A motif; other site 983548003693 NifU-like domain; Region: NifU; cl00484 983548003694 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 983548003695 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548003696 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548003697 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 983548003698 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 983548003699 putative active site [active] 983548003700 putative metal binding site [ion binding]; other site 983548003701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548003702 ATP binding site [chemical binding]; other site 983548003703 substrate interface [chemical binding]; other site 983548003704 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 983548003705 non-specific DNA binding site [nucleotide binding]; other site 983548003706 salt bridge; other site 983548003707 sequence-specific DNA binding site [nucleotide binding]; other site 983548003708 Domain of unknown function (DUF955); Region: DUF955; cl01076 983548003709 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 983548003710 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 983548003711 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 983548003712 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 983548003713 Domain of unknown function DUF59; Region: DUF59; cl00941 983548003714 Fe-S metabolism associated domain; Region: SufE; cl00951 983548003715 META domain; Region: META; cl01245 983548003716 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548003717 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548003718 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983548003719 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 983548003720 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548003721 catalytic residue [active] 983548003722 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 983548003723 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 983548003724 FeS assembly ATPase SufC; Region: sufC; TIGR01978 983548003725 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 983548003726 Walker A/P-loop; other site 983548003727 ATP binding site [chemical binding]; other site 983548003728 Q-loop/lid; other site 983548003729 ABC transporter signature motif; other site 983548003730 Walker B; other site 983548003731 D-loop; other site 983548003732 H-loop/switch region; other site 983548003733 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548003734 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 983548003735 putative ABC transporter; Region: ycf24; CHL00085 983548003736 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 983548003737 ATP cone domain; Region: ATP-cone; pfam03477 983548003738 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 983548003739 dimer interface [polypeptide binding]; other site 983548003740 putative radical transfer pathway; other site 983548003741 diiron center [ion binding]; other site 983548003742 tyrosyl radical; other site 983548003743 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 983548003744 Class I ribonucleotide reductase; Region: RNR_I; cd01679 983548003745 active site 983548003746 dimer interface [polypeptide binding]; other site 983548003747 catalytic residues [active] 983548003748 effector binding site; other site 983548003749 R2 peptide binding site; other site 983548003750 Chlorophyllase enzyme; Region: Chlorophyllase2; cl14889 983548003751 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983548003752 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983548003753 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 983548003754 N-terminal plug; other site 983548003755 ligand-binding site [chemical binding]; other site 983548003756 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 983548003757 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983548003758 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 983548003759 thiamine-monophosphate kinase; Region: thiL; TIGR01379 983548003760 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 983548003761 ATP binding site [chemical binding]; other site 983548003762 dimerization interface [polypeptide binding]; other site 983548003763 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548003764 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 983548003765 aspartate kinase III; Validated; Region: PRK09084 983548003766 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 983548003767 nucleotide binding site [chemical binding]; other site 983548003768 substrate binding site [chemical binding]; other site 983548003769 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 983548003770 dimer interface [polypeptide binding]; other site 983548003771 allosteric regulatory binding pocket; other site 983548003772 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 983548003773 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 983548003774 proline aminopeptidase P II; Provisional; Region: PRK10879 983548003775 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 983548003776 active site 983548003777 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 983548003778 active site clefts [active] 983548003779 zinc binding site [ion binding]; other site 983548003780 dimer interface [polypeptide binding]; other site 983548003781 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 983548003782 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 983548003783 putative Iron-sulfur protein interface [polypeptide binding]; other site 983548003784 proximal heme binding site [chemical binding]; other site 983548003785 distal heme binding site [chemical binding]; other site 983548003786 putative dimer interface [polypeptide binding]; other site 983548003787 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 983548003788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548003789 domain; Region: Succ_DH_flav_C; pfam02910 983548003790 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 983548003791 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 alpha-; Region: HCP_like; cl14655 983548003792 Phosphate transporter family; Region: PHO4; cl00396 983548003793 Phosphate transporter family; Region: PHO4; cl00396 983548003794 chromosome segregation protein; Provisional; Region: PRK03918 983548003795 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548003796 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 983548003797 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...; Region: OM_channels; cl00284 983548003798 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...; Region: OM_channels; cl00284 983548003799 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 983548003800 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548003801 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 983548003802 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is...; Region: PA_subtilisin_1; cd04818 983548003803 PA/protease or protease-like domain interface [polypeptide binding]; other site 983548003804 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 983548003805 Zn binding site [ion binding]; other site 983548003806 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 983548003807 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 983548003808 TPP-binding site; other site 983548003809 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 983548003810 PYR/PP interface [polypeptide binding]; other site 983548003811 dimer interface [polypeptide binding]; other site 983548003812 TPP binding site [chemical binding]; other site 983548003813 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983548003814 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 983548003815 nucleoside/Zn binding site; other site 983548003816 dimer interface [polypeptide binding]; other site 983548003817 catalytic motif [active] 983548003818 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 983548003819 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 983548003820 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; cl14056 983548003821 Predicted amidohydrolase [General function prediction only]; Region: COG0388 983548003822 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 983548003823 putative active site [active] 983548003824 catalytic triad [active] 983548003825 putative dimer interface [polypeptide binding]; other site 983548003826 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 983548003827 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 983548003828 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 983548003829 RNA binding surface [nucleotide binding]; other site 983548003830 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 983548003831 active site 983548003832 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 983548003833 Ligand binding site [chemical binding]; other site 983548003834 Putative Catalytic site [active] 983548003835 DXD motif; other site 983548003836 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 983548003837 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 983548003838 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 983548003839 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 983548003840 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 983548003841 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 983548003842 DXD motif; other site 983548003843 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 983548003844 Ligand binding site [chemical binding]; other site 983548003845 Putative Catalytic site [active] 983548003846 DXD motif; other site 983548003847 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 983548003848 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 983548003849 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 983548003850 transcription elongation factor GreA; Region: greA; TIGR01462 983548003851 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 983548003852 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548003853 Walker A/P-loop; other site 983548003854 ATP binding site [chemical binding]; other site 983548003855 Q-loop/lid; other site 983548003856 ABC transporter signature motif; other site 983548003857 Walker B; other site 983548003858 D-loop; other site 983548003859 H-loop/switch region; other site 983548003860 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 983548003861 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 983548003862 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 983548003863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 983548003864 putative active site [active] 983548003865 putative metal binding site [ion binding]; other site 983548003866 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 983548003867 catalytic residues [active] 983548003868 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 983548003869 Integral membrane protein TerC family; Region: TerC; cl10468 983548003870 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 983548003871 transcription termination factor Rho; Provisional; Region: rho; PRK09376 983548003872 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983548003873 Conserved TM helix; Region: TM_helix; pfam05552 983548003874 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548003875 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; cl09110 983548003876 transmembrane helices; other site 983548003877 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; cl09110 983548003878 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; cl09110 983548003879 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 983548003880 universal stress protein UspE; Provisional; Region: PRK11175 983548003881 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 983548003882 Ligand Binding Site [chemical binding]; other site 983548003883 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 983548003884 Ligand Binding Site [chemical binding]; other site 983548003885 ribosome maturation protein RimP; Reviewed; Region: PRK00092 983548003886 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 983548003887 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 983548003888 Sm1 motif; other site 983548003889 D3 - B interaction site; other site 983548003890 D1 - D2 interaction site; other site 983548003891 Hfq - Hfq interaction site; other site 983548003892 RNA binding pocket [nucleotide binding]; other site 983548003893 Sm2 motif; other site 983548003894 transcription termination factor NusA; Region: NusA; TIGR01953 983548003895 NusA N-terminal domain; Region: NusA_N; pfam08529 983548003896 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...; Region: S1_NusA; cd04455 983548003897 RNA binding site [nucleotide binding]; other site 983548003898 homodimer interface [polypeptide binding]; other site 983548003899 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 983548003900 G-X-X-G motif; other site 983548003901 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 983548003902 translation initiation factor IF-2; Region: IF-2; TIGR00487 983548003903 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 983548003904 G1 box; other site 983548003905 putative GEF interaction site [polypeptide binding]; other site 983548003906 GTP/Mg2+ binding site [chemical binding]; other site 983548003907 Switch I region; other site 983548003908 G2 box; other site 983548003909 G3 box; other site 983548003910 Switch II region; other site 983548003911 G4 box; other site 983548003912 G5 box; other site 983548003913 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...; Region: IF2_mtIF2_II; cd03702 983548003914 Translation-initiation factor 2; Region: IF-2; pfam11987 983548003915 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...; Region: mtIF2_IVc; cd03692 983548003916 Sporulation related domain; Region: SPOR; cl10051 983548003917 Cytochrome c; Region: Cytochrom_C; cl11414 983548003918 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 983548003919 heme-binding residues [chemical binding]; other site 983548003920 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 983548003921 heme-binding residues [chemical binding]; other site 983548003922 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 tungsten-...; Region: Molybdopterin-Binding; cl09928 983548003923 molybdopterin cofactor binding site; other site 983548003924 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 983548003925 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 983548003926 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl01295 983548003927 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 983548003928 Uncharacterized conserved protein [Function unknown]; Region: COG3743 983548003929 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 983548003930 Cytochrome c; Region: Cytochrom_C; cl11414 983548003931 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 983548003932 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 983548003933 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...; Region: Heme_Cu_Oxidase_I; cl00275 983548003934 D-pathway; other site 983548003935 Low-spin heme binding site [chemical binding]; other site 983548003936 Putative water exit pathway; other site 983548003937 Binuclear center (active site) [active] 983548003938 K-pathway; other site 983548003939 Putative proton exit pathway; other site 983548003940 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 983548003941 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...; Region: AAA; cd00009 983548003942 Walker A motif; other site 983548003943 ATP binding site [chemical binding]; other site 983548003944 Walker B motif; other site 983548003945 arginine finger; other site 983548003946 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 983548003947 Cytochrome P450; Region: p450; cl12078 983548003948 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 983548003949 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 983548003950 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 983548003951 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983548003952 putative substrate translocation pore; other site 983548003953 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 983548003954 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 983548003955 putative substrate translocation pore; other site 983548003956 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 983548003957 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 983548003958 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 983548003959 substrate binding site [chemical binding]; other site 983548003960 ATP binding site [chemical binding]; other site 983548003961 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 983548003962 Malic enzyme, N-terminal domain; Region: malic; pfam00390 983548003963 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 983548003964 putative NAD(P) binding site [chemical binding]; other site 983548003965 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 983548003966 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 983548003967 RuvA N terminal domain; Region: RuvA_N; pfam01330 983548003968 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 983548003969 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 L-...; Region: GCS_H; cd06848 983548003970 lipoyl attachment site [posttranslational modification]; other site 983548003971 VanZ like family; Region: VanZ; cl01971 983548003972 Gram-negative bacterial tonB protein; Region: TonB; cl10048 983548003973 Gram-negative bacterial tonB protein; Region: TonB; cl10048 983548003974 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 983548003975 active site 983548003976 metal binding site [ion binding]; metal-binding site 983548003977 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548003978 UbiA prenyltransferase family; Region: UbiA; cl00337 983548003979 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 983548003980 Subunit I/III interface [polypeptide binding]; other site 983548003981 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 983548003982 Subunit I/III interface [polypeptide binding]; other site 983548003983 putrescine aminotransferase; Region: putres_am_tran; TIGR03372 983548003984 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 983548003985 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 983548003986 Cu(I) binding site [ion binding]; other site 983548003987 Protein of unknown function (DUF420); Region: DUF420; cl00989 983548003988 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983548003989 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...; Region: OM_channels; cl00284 983548003990 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548003991 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 983548003992 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983548003993 N-terminal plug; other site 983548003994 ligand-binding site [chemical binding]; other site 983548003995 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983548003996 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 983548003997 Walker A/P-loop; other site 983548003998 ATP binding site [chemical binding]; other site 983548003999 Q-loop/lid; other site 983548004000 ABC transporter signature motif; other site 983548004001 Walker B; other site 983548004002 D-loop; other site 983548004003 H-loop/switch region; other site 983548004004 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983548004005 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983548004006 FtsX-like permease family; Region: FtsX; pfam02687 983548004007 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983548004008 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983548004009 FtsX-like permease family; Region: FtsX; pfam02687 983548004010 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548004011 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2...; Region: Biotinyl_lipoyl_domains; cl11404 983548004012 Outer membrane efflux protein; Region: OEP; pfam02321 983548004013 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 983548004014 Outer membrane efflux protein; Region: OEP; pfam02321 983548004015 Outer membrane efflux protein; Region: OEP; pfam02321 983548004016 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548004017 Outer membrane efflux protein; Region: OEP; pfam02321 983548004018 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 983548004019 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548004020 Conserved TM helix; Region: TM_helix; pfam05552 983548004021 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548004022 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 983548004023 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein...; Region: SSP411; cd02955 983548004024 catalytic residues [active] 983548004025 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; cl06815 983548004026 Protein of unknown function (DUF1458); Region: DUF1458; cl01328 983548004027 Domain of unknown function (DUF477); Region: DUF477; cl01535 983548004028 Domain of unknown function (DUF477); Region: DUF477; cl01535 983548004029 LemA family; Region: LemA; cl00742 983548004030 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 983548004031 DNA binding residues [nucleotide binding] 983548004032 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548004033 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 983548004034 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 983548004035 motif 1; other site 983548004036 active site 983548004037 motif 2; other site 983548004038 motif 3; other site 983548004039 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 983548004040 GSCFA family; Region: GSCFA; pfam08885 983548004041 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 983548004042 active site residue [active] 983548004043 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 983548004044 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 983548004045 cofactor binding site; other site 983548004046 metal binding site [ion binding]; metal-binding site 983548004047 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 983548004048 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 983548004049 substrate binding site [chemical binding]; other site 983548004050 oxyanion hole (OAH) forming residues; other site 983548004051 trimer interface [polypeptide binding]; other site 983548004052 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)...; Region: Trp-synth-beta_II; cl00342 983548004053 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548004054 catalytic residue [active] 983548004055 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 983548004056 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 983548004057 putative peptidoglycan binding site; other site 983548004058 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 983548004059 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 983548004060 inhibitor-cofactor binding pocket; inhibition site 983548004061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548004062 catalytic residue [active] 983548004063 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 983548004064 active site 983548004065 Predicted membrane protein [Function unknown]; Region: COG4682 983548004066 yiaA/B two helix domain; Region: YiaAB; cl01759 983548004067 yiaA/B two helix domain; Region: YiaAB; cl01759 983548004068 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 983548004069 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 983548004070 catalytic residues [active] 983548004071 EthD protein; Region: EthD; cl06234 983548004072 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548004073 NAD(P) binding site [chemical binding]; other site 983548004074 active site 983548004075 Uncharacterized conserved protein [Function unknown]; Region: COG2128 983548004076 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 983548004077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548004078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983548004079 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 983548004080 active site 983548004081 purine riboside binding site [chemical binding]; other site 983548004082 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 983548004083 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 983548004084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 983548004085 Family of unknown function (DUF695); Region: DUF695; pfam05117 983548004086 TIGR01619 family protein; Region: hyp_HI0040 983548004087 Protein of unknown function (DUF1260); Region: DUF1260; cl01170 983548004088 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 983548004089 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 983548004090 dimer interface [polypeptide binding]; other site 983548004091 putative anticodon binding site; other site 983548004092 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 983548004093 motif 1; other site 983548004094 active site 983548004095 motif 2; other site 983548004096 motif 3; other site 983548004097 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 983548004098 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 983548004099 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 983548004100 RNA/DNA hybrid binding site [nucleotide binding]; other site 983548004101 active site 983548004102 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 983548004103 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 983548004104 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 983548004105 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...; Region: DnaE_OBF; cd04485 983548004106 generic binding surface I; other site 983548004107 generic binding surface II; other site 983548004108 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 983548004109 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 983548004110 active site 983548004111 DNA binding site [nucleotide binding] 983548004112 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548004113 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983548004114 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548004115 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548004116 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983548004117 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548004118 EamA-like transporter family; Region: EamA; cl01037 983548004119 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983548004120 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 983548004121 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 983548004122 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 983548004123 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 983548004124 rod shape-determining protein MreC; Region: MreC; pfam04085 983548004125 rod shape-determining protein MreB; Provisional; Region: PRK13927 983548004126 Cell division protein FtsA; Region: FtsA; cl11496 983548004127 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 983548004128 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 983548004129 purine monophosphate binding site [chemical binding]; other site 983548004130 dimer interface [polypeptide binding]; other site 983548004131 putative catalytic residues [active] 983548004132 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 983548004133 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 983548004134 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 983548004135 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983548004136 FtsX-like permease family; Region: FtsX; pfam02687 983548004137 GAF domain; Region: GAF; cl00853 983548004138 Predicted membrane protein [Function unknown]; Region: COG4083 983548004139 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 983548004140 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; cl00207 983548004141 Uncharacterized conserved protein [Function unknown]; Region: COG3391 983548004142 NHL repeat; Region: NHL; pfam01436 983548004143 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 983548004144 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 983548004145 metal-binding site [ion binding] 983548004146 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 983548004147 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 983548004148 ring oligomerisation interface [polypeptide binding]; other site 983548004149 ATP/Mg binding site [chemical binding]; other site 983548004150 stacking interactions; other site 983548004151 hinge regions; other site 983548004152 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...; Region: cpn10; cd00320 983548004153 oligomerisation interface [polypeptide binding]; other site 983548004154 mobile loop; other site 983548004155 roof hairpin; other site 983548004156 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...; Region: AAA; cd00009 983548004157 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983548004158 Walker A motif; other site 983548004159 ATP binding site [chemical binding]; other site 983548004160 Walker B motif; other site 983548004161 arginine finger; other site 983548004162 Bacterial regulatory protein, Fis family; Region: HTH_8; cl01091 983548004163 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 983548004164 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 983548004165 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; cl14056 983548004166 TRAM domain; Region: TRAM; cl01282 983548004167 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 983548004168 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 983548004169 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 983548004170 active site 983548004171 interdomain interaction site; other site 983548004172 putative metal-binding site [ion binding]; other site 983548004173 nucleotide binding site [chemical binding]; other site 983548004174 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...; Region: TOP1Ac; cd00186 983548004175 domain I; other site 983548004176 DNA binding groove [nucleotide binding] 983548004177 phosphate binding site [ion binding]; other site 983548004178 domain II; other site 983548004179 domain III; other site 983548004180 nucleotide binding site [chemical binding]; other site 983548004181 catalytic site [active] 983548004182 domain IV; other site 983548004183 Arginase family; Region: Arginase; cl00306 983548004184 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 983548004185 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 983548004186 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 983548004187 GldM N-terminal domain; Region: GldM_N; pfam12081 983548004188 GldM C-terminal domain; Region: GldM_C; pfam12080 983548004189 gliding motility associated protien GldN; Region: GldN; TIGR03523 983548004190 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 983548004191 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 983548004192 Ca2+-dependent lipid-binding protein, contains C2 domain [General function prediction only]; Region: COG5038 983548004193 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 983548004194 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548004195 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548004196 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548004197 ABC transporter; Region: ABC_tran_2; pfam12848 983548004198 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548004199 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548004200 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 983548004201 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 983548004202 Outer membrane efflux protein; Region: OEP; pfam02321 983548004203 Outer membrane efflux protein; Region: OEP; pfam02321 983548004204 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 983548004205 Phage integrase family; Region: Phage_integrase; pfam00589 983548004206 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 include the bacteriophage lambda integrase, the...; Region: INT_REC_C; cd01182 983548004207 DNA binding site [nucleotide binding] 983548004208 Int/Topo IB signature motif; other site 983548004209 active site 983548004210 catalytic residues [active] 983548004211 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 983548004212 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 983548004213 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 983548004214 ATP binding site [chemical binding]; other site 983548004215 putative Mg++ binding site [ion binding]; other site 983548004216 HsdM N-terminal domain; Region: HsdM_N; pfam12161 983548004217 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 983548004218 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548004219 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 983548004220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 983548004221 recombination protein F; Reviewed; Region: recF; PRK00064 983548004222 NADP-dependent malic enzyme; Provisional; Region: PTZ00317 983548004223 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 983548004224 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548004225 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 983548004226 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 983548004227 putative active site [active] 983548004228 Zn-binding site [ion binding]; other site 983548004229 YeeE/YedE family (DUF395); Region: DUF395; cl01018 983548004230 YeeE/YedE family (DUF395); Region: DUF395; cl01018 983548004231 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 983548004232 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 983548004233 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 983548004234 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 983548004235 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 983548004236 N-terminal plug; other site 983548004237 ligand-binding site [chemical binding]; other site 983548004238 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 983548004239 Ferritin-like domain; Region: Ferritin; pfam00210 983548004240 dimerization interface [polypeptide binding]; other site 983548004241 DPS ferroxidase diiron center [ion binding]; other site 983548004242 ion pore; other site 983548004243 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548004244 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 983548004245 active site residue [active] 983548004246 peroxiredoxin; Provisional; Region: PRK13189 983548004247 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 983548004248 dimer interface [polypeptide binding]; other site 983548004249 decamer (pentamer of dimers) interface [polypeptide binding]; other site 983548004250 catalytic triad [active] 983548004251 cysteine synthases; Region: cysKM; TIGR01136 983548004252 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 983548004253 dimer interface [polypeptide binding]; other site 983548004254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548004255 catalytic residue [active] 983548004256 serine O-acetyltransferase; Region: cysE; TIGR01172 983548004257 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 L-...; Region: LbH_SAT; cd03354 983548004258 trimer interface [polypeptide binding]; other site 983548004259 active site 983548004260 substrate binding site [chemical binding]; other site 983548004261 CoA binding site [chemical binding]; other site 983548004262 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 983548004263 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 983548004264 active site 983548004265 zinc binding site [ion binding]; other site 983548004266 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 983548004267 Cytochrome c; Region: Cytochrom_C; cl11414 983548004268 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 983548004269 Domain of unknown function DUF; Region: DUF202; cl09954 983548004270 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; cl00207 983548004271 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 983548004272 active site residue [active] 983548004273 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 983548004274 active site residue [active] 983548004275 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548004276 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 983548004277 active site residue [active] 983548004278 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 983548004279 active site residue [active] 983548004280 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548004281 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 983548004282 active site residue [active] 983548004283 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 983548004284 active site residue [active] 983548004285 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 983548004286 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983548004287 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983548004288 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 983548004289 ligand binding site [chemical binding]; other site 983548004290 flexible hinge region; other site 983548004291 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548004292 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 983548004293 Outer membrane efflux protein; Region: OEP; pfam02321 983548004294 Outer membrane efflux protein; Region: OEP; pfam02321 983548004295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 983548004296 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 983548004297 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548004298 GTPase Era; Reviewed; Region: era; PRK00089 983548004299 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 983548004300 G1 box; other site 983548004301 GTP/Mg2+ binding site [chemical binding]; other site 983548004302 Switch I region; other site 983548004303 G2 box; other site 983548004304 Switch II region; other site 983548004305 G3 box; other site 983548004306 G4 box; other site 983548004307 G5 box; other site 983548004308 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains...; Region: KH-I; cl00098 983548004309 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548004310 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 983548004311 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 983548004312 Uncharacterized conserved protein [Function unknown]; Region: COG3743 983548004313 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 983548004314 GH3 auxin-responsive promoter; Region: GH3; cl04006 983548004315 Astacin (Peptidase family M12A); Region: Astacin; pfam01400 983548004316 Zinc-dependent metalloprotease, astacin_like subfamily or peptidase family M12A, a group of zinc-dependent proteolytic enzymes with a HExxH zinc-binding site/active site. Members of this family may have an amino terminal propeptide, which is cleaved to...; Region: ZnMc_astacin_like; cd04280 983548004317 active site 983548004318 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 983548004319 catalytic motif [active] 983548004320 Catalytic residue [active] 983548004321 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 983548004322 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 983548004323 active site 983548004324 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548004325 putative acyl-acceptor binding pocket; other site 983548004326 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 983548004327 active site/substrate binding site [active] 983548004328 tetramer interface [polypeptide binding]; other site 983548004329 Equine herpesvirus glycoprotein gp2; Region: Herpes_gp2; pfam05955 983548004330 flagellin; Validated; Region: PRK08026 983548004331 Equine herpesvirus glycoprotein gp2; Region: Herpes_gp2; pfam05955 983548004332 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548004333 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 983548004334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548004335 ligand binding site [chemical binding]; other site 983548004336 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 983548004337 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 983548004338 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 983548004339 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 983548004340 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 983548004341 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 983548004342 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 983548004343 NeuB family; Region: NeuB; cl00496 983548004344 Flavin Reductases; Region: FlaRed; cl00801 983548004345 magnesium protoporphyrin O-methyltransferase; Region: BchM-ChlM; TIGR02021 983548004346 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 983548004347 S-adenosylmethionine binding site [chemical binding]; other site 983548004348 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 983548004349 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 983548004350 Putative zinc ribbon domain; Region: DUF164; pfam02591 983548004351 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 983548004352 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 983548004353 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 983548004354 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 983548004355 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 983548004356 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 983548004357 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 trans-...; Region: HisKA; cl00080 983548004358 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 983548004359 ATP binding site [chemical binding]; other site 983548004360 Mg2+ binding site [ion binding]; other site 983548004361 G-X-G motif; other site 983548004362 Response regulator receiver domain; Region: Response_reg; pfam00072 983548004363 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 983548004364 active site 983548004365 phosphorylation site [posttranslational modification] 983548004366 intermolecular recognition site; other site 983548004367 dimerization interface [polypeptide binding]; other site 983548004368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548004369 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 983548004370 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 983548004371 lipoyl synthase; Provisional; Region: PRK05481 983548004372 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; cl14056 983548004373 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 983548004374 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 983548004375 Domain of unknown function DUF143; Region: DUF143; cl00519 983548004376 FtsH Extracellular; Region: FtsH_ext; pfam06480 983548004377 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 983548004378 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...; Region: AAA; cd00009 983548004379 Walker A motif; other site 983548004380 ATP binding site [chemical binding]; other site 983548004381 Walker B motif; other site 983548004382 arginine finger; other site 983548004383 Peptidase family M41; Region: Peptidase_M41; pfam01434 983548004384 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 983548004385 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 983548004386 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 983548004387 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 983548004388 acyl-CoA binding pocket [chemical binding]; other site 983548004389 CoA binding site [chemical binding]; other site 983548004390 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 983548004391 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 983548004392 active site 983548004393 HIGH motif; other site 983548004394 nucleotide binding site [chemical binding]; other site 983548004395 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 983548004396 active site 983548004397 KMSKS motif; other site 983548004398 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 983548004399 tRNA binding surface [nucleotide binding]; other site 983548004400 anticodon binding site; other site 983548004401 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 983548004402 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 983548004403 aspartate aminotransferase; Provisional; Region: PRK06836 983548004404 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 983548004405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548004406 homodimer interface [polypeptide binding]; other site 983548004407 catalytic residue [active] 983548004408 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 983548004409 FAD binding domain; Region: FAD_binding_4; pfam01565 983548004410 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 983548004411 Fasciclin domain; Region: Fasciclin; cl02663 983548004412 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 983548004413 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548004414 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...; Region: Sigma70_r4; cd06171 983548004415 DNA binding residues [nucleotide binding] 983548004416 Anti-sigma-K factor rskA; Region: RskA; cl02208 983548004417 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 983548004418 active site 983548004419 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548004420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548004421 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...; Region: Sigma70_r4; cl01055 983548004422 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 983548004423 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 983548004424 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 983548004425 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 983548004426 EamA-like transporter family; Region: EamA; cl01037 983548004427 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 983548004428 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 983548004429 replicative DNA helicase; Region: DnaB; TIGR00665 983548004430 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 983548004431 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 983548004432 Walker A motif; other site 983548004433 ATP binding site [chemical binding]; other site 983548004434 Walker B motif; other site 983548004435 DNA binding loops [nucleotide binding] 983548004436 PhoD-like phosphatase; Region: PhoD; pfam09423 983548004437 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 983548004438 putative active site [active] 983548004439 putative metal binding site [ion binding]; other site 983548004440 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983548004441 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 983548004442 asparagine synthetase B; Provisional; Region: asnB; PRK09431 983548004443 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 983548004444 active site 983548004445 dimer interface [polypeptide binding]; other site 983548004446 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes...; Region: Asn_Synthase_B_C; cd01991 983548004447 Ligand Binding Site [chemical binding]; other site 983548004448 Molecular Tunnel; other site 983548004449 Major royal jelly protein; Region: MRJP; pfam03022 983548004450 MarC family integral membrane protein; Region: MarC; cl00919 983548004451 hypothetical protein; Reviewed; Region: PRK00024 983548004452 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 983548004453 MPN+ (JAMM) motif; other site 983548004454 Zinc-binding site [ion binding]; other site 983548004455 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 983548004456 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 983548004457 motif II; other site 983548004458 recombination factor protein RarA; Reviewed; Region: PRK13342 983548004459 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...; Region: AAA; cd00009 983548004460 Walker A motif; other site 983548004461 ATP binding site [chemical binding]; other site 983548004462 Walker B motif; other site 983548004463 arginine finger; other site 983548004464 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 983548004465 Rhomboid family; Region: Rhomboid; cl11446 983548004466 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 983548004467 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 983548004468 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548004469 starch binding outer membrane protein SusD; Region: SusD; cl14779 983548004470 starch binding outer membrane protein SusD; Region: SusD; cl14779 983548004471 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548004472 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...; Region: OM_channels; cl00284 983548004473 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...; Region: OM_channels; cl00284 983548004474 starch binding outer membrane protein SusD; Region: SusD; cl14779 983548004475 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548004476 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548004477 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...; Region: OM_channels; cl00284 983548004478 starch binding outer membrane protein SusD; Region: SusD; cd08977 983548004479 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548004480 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548004481 Surface antigen; Region: Bac_surface_Ag; cl03097 983548004482 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 983548004483 S17 interaction site [polypeptide binding]; other site 983548004484 S8 interaction site; other site 983548004485 16S rRNA interaction site [nucleotide binding]; other site 983548004486 streptomycin interaction site [chemical binding]; other site 983548004487 23S rRNA interaction site [nucleotide binding]; other site 983548004488 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 983548004489 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 983548004490 elongation factor G; Reviewed; Region: PRK12739 983548004491 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 983548004492 G1 box; other site 983548004493 putative GEF interaction site [polypeptide binding]; other site 983548004494 GTP/Mg2+ binding site [chemical binding]; other site 983548004495 Switch I region; other site 983548004496 G2 box; other site 983548004497 G3 box; other site 983548004498 Switch II region; other site 983548004499 G4 box; other site 983548004500 G5 box; other site 983548004501 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...; Region: EFG_mtEFG_II; cd04088 983548004502 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...; Region: EFG_mtEFG1_IV; cd01434 983548004503 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...; Region: EFG_mtEFG_C; cd03713 983548004504 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 983548004505 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 983548004506 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 983548004507 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 983548004508 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 983548004509 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 983548004510 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 983548004511 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 983548004512 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 983548004513 putative translocon binding site; other site 983548004514 protein-rRNA interface [nucleotide binding]; other site 983548004515 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 983548004516 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...; Region: 30S_S3_KH; cd02412 983548004517 G-X-X-G motif; other site 983548004518 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 983548004519 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 983548004520 23S rRNA interface [nucleotide binding]; other site 983548004521 5S rRNA interface [nucleotide binding]; other site 983548004522 putative antibiotic binding site [chemical binding]; other site 983548004523 L25 interface [polypeptide binding]; other site 983548004524 L27 interface [polypeptide binding]; other site 983548004525 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...; Region: Ribosomal_L29_HIP; cd00427 983548004526 23S rRNA interface [nucleotide binding]; other site 983548004527 putative translocon interaction site; other site 983548004528 signal recognition particle (SRP54) interaction site; other site 983548004529 L23 interface [polypeptide binding]; other site 983548004530 trigger factor interaction site; other site 983548004531 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 983548004532 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 983548004533 KOW motif; Region: KOW; cl00354 983548004534 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 983548004535 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 983548004536 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 983548004537 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 983548004538 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 983548004539 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 983548004540 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 983548004541 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 983548004542 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 983548004543 23S rRNA interface [nucleotide binding]; other site 983548004544 L21e interface [polypeptide binding]; other site 983548004545 5S rRNA interface [nucleotide binding]; other site 983548004546 L27 interface [polypeptide binding]; other site 983548004547 L5 interface [polypeptide binding]; other site 983548004548 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 983548004549 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 983548004550 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 983548004551 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...; Region: Ribosomal_L30; cd01658 983548004552 23S rRNA binding site [nucleotide binding]; other site 983548004553 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 983548004554 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 983548004555 SecY translocase; Region: SecY; pfam00344 983548004556 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 983548004557 rRNA binding site [nucleotide binding]; other site 983548004558 predicted 30S ribosome binding site; other site 983548004559 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 983548004560 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 983548004561 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 983548004562 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 983548004563 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 983548004564 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 983548004565 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 983548004566 RNA binding surface [nucleotide binding]; other site 983548004567 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 983548004568 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 983548004569 alphaNTD homodimer interface [polypeptide binding]; other site 983548004570 alphaNTD - beta interaction site [polypeptide binding]; other site 983548004571 alphaNTD - beta' interaction site [polypeptide binding]; other site 983548004572 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 983548004573 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 983548004574 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 983548004575 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 983548004576 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 983548004577 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 983548004578 catalytic site [active] 983548004579 subunit interface [polypeptide binding]; other site 983548004580 enolase; Provisional; Region: eno; PRK00077 983548004581 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 983548004582 dimer interface [polypeptide binding]; other site 983548004583 metal binding site [ion binding]; metal-binding site 983548004584 substrate binding pocket [chemical binding]; other site 983548004585 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 983548004586 dimer interface [polypeptide binding]; other site 983548004587 Citrate synthase; Region: Citrate_synt; pfam00285 983548004588 active site 983548004589 citrylCoA binding site [chemical binding]; other site 983548004590 NADH binding [chemical binding]; other site 983548004591 cationic pore residues; other site 983548004592 oxalacetate/citrate binding site [chemical binding]; other site 983548004593 coenzyme A binding site [chemical binding]; other site 983548004594 catalytic triad [active] 983548004595 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 983548004596 Amidinotransferase; Region: Amidinotransf; cl12043 983548004597 MepB protein; Region: MepB; cl01985 983548004598 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 983548004599 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548004600 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 983548004601 aspartate aminotransferase; Provisional; Region: PRK08361 983548004602 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 983548004603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548004604 homodimer interface [polypeptide binding]; other site 983548004605 catalytic residue [active] 983548004606 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 983548004607 putative di-iron ligands [ion binding]; other site 983548004608 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These...; Region: Delta6-FADS-like; cd03506 983548004609 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 983548004610 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548004611 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 983548004612 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548004613 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...; Region: Sigma70_r4; cd06171 983548004614 DNA binding residues [nucleotide binding] 983548004615 Protein of unknown function (DUF724); Region: DUF724; pfam05266 983548004616 DNA primase; Validated; Region: dnaG; PRK05667 983548004617 CHC2 zinc finger; Region: zf-CHC2; cl02597 983548004618 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 983548004619 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 983548004620 active site 983548004621 metal binding site [ion binding]; metal-binding site 983548004622 interdomain interaction site; other site 983548004623 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983548004624 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 983548004625 active site 983548004626 phosphorylation site [posttranslational modification] 983548004627 intermolecular recognition site; other site 983548004628 dimerization interface [polypeptide binding]; other site 983548004629 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...; Region: LuxR_C_like; cd06170 983548004630 DNA binding residues [nucleotide binding] 983548004631 dimerization interface [polypeptide binding]; other site 983548004632 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 983548004633 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...; Region: NAD_synthase; cd00553 983548004634 homodimer interface [polypeptide binding]; other site 983548004635 NAD binding pocket [chemical binding]; other site 983548004636 ATP binding pocket [chemical binding]; other site 983548004637 Mg binding site [ion binding]; other site 983548004638 active-site loop [active] 983548004639 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 983548004640 gliding motility-associated protein GldC; Region: GldC; TIGR03515 983548004641 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 983548004642 G1 box; other site 983548004643 GTP/Mg2+ binding site [chemical binding]; other site 983548004644 Switch I region; other site 983548004645 G2 box; other site 983548004646 G3 box; other site 983548004647 Switch II region; other site 983548004648 G4 box; other site 983548004649 G5 box; other site 983548004650 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548004651 cell division protein MraZ; Reviewed; Region: PRK00326 983548004652 MraZ protein; Region: MraZ; pfam02381 983548004653 MraZ protein; Region: MraZ; pfam02381 983548004654 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 983548004655 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548004656 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 983548004657 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 983548004658 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 983548004659 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 983548004660 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 983548004661 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983548004662 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548004663 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983548004664 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 983548004665 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 983548004666 Mg++ binding site [ion binding]; other site 983548004667 putative catalytic motif [active] 983548004668 putative substrate binding site [chemical binding]; other site 983548004669 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 983548004670 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548004671 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983548004672 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 983548004673 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 983548004674 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...; Region: GT1_MurG; cd03785 983548004675 active site 983548004676 homodimer interface [polypeptide binding]; other site 983548004677 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 983548004678 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 983548004679 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548004680 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 983548004681 Cell division protein FtsQ; Region: FtsQ; pfam03799 983548004682 cell division protein FtsA; Region: ftsA; TIGR01174 983548004683 Cell division protein FtsA; Region: FtsA; cl11496 983548004684 Cell division protein FtsA; Region: FtsA; cl11496 983548004685 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 983548004686 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...; Region: FtsZ_type1; cd02201 983548004687 nucleotide binding site [chemical binding]; other site 983548004688 SulA interaction site; other site 983548004689 GatB domain; Region: GatB_Yqey; cl11497 983548004690 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 983548004691 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 983548004692 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 983548004693 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548004694 ligand binding site [chemical binding]; other site 983548004695 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 983548004696 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548004697 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548004698 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 983548004699 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548004700 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 983548004701 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 983548004702 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl01469 983548004703 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 983548004704 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 983548004705 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 983548004706 FAD binding pocket [chemical binding]; other site 983548004707 conserved FAD binding motif [chemical binding]; other site 983548004708 phosphate binding motif [ion binding]; other site 983548004709 beta-alpha-beta structure motif; other site 983548004710 NAD binding pocket [chemical binding]; other site 983548004711 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 983548004712 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548004713 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...; Region: Sigma70_r4; cl01055 983548004714 Anti-sigma-K factor rskA; Region: RskA; cl02208 983548004715 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548004716 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 983548004717 binding surface 983548004718 TPR motif; other site 983548004719 BAX inhibitor (BI)-1 like protein family. Mammalian members of this family of small transmembrane proteins have been shown to have an antiapoptotic effect either by stimulating the antiapoptotic function of Bcl-2, a well characterized oncogene, or...; Region: BI-1-like; cd06181 983548004720 Transglycosylase; Region: Transgly; cl07896 983548004721 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 983548004722 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...; Region: RPE; cd00429 983548004723 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 983548004724 substrate binding site [chemical binding]; other site 983548004725 hexamer interface [polypeptide binding]; other site 983548004726 metal binding site [ion binding]; metal-binding site 983548004727 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 983548004728 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 983548004729 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548004730 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 983548004731 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...; Region: Sigma70_r4; cd06171 983548004732 DNA binding residues [nucleotide binding] 983548004733 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 983548004734 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 983548004735 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548004736 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...; Region: metallo-dependent_hydrolases; cl00281 983548004737 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 983548004738 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 983548004739 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 983548004740 putative NAD(P) binding site [chemical binding]; other site 983548004741 putative active site [active] 983548004742 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548004743 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 983548004744 NAD binding site [chemical binding]; other site 983548004745 catalytic residues [active] 983548004746 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 983548004747 homotrimer interaction site [polypeptide binding]; other site 983548004748 putative active site [active] 983548004749 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 983548004750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548004751 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983548004752 kynureninase; Region: kynureninase; TIGR01814 983548004753 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 983548004754 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548004755 catalytic residue [active] 983548004756 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 983548004757 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 983548004758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983548004759 putative substrate translocation pore; other site 983548004760 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 983548004761 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; cl14056 983548004762 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 983548004763 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 983548004764 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 983548004765 Protein export membrane protein; Region: SecD_SecF; cl14618 983548004766 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 983548004767 Protein export membrane protein; Region: SecD_SecF; cl14618 983548004768 malate dehydrogenase; Reviewed; Region: PRK06223 983548004769 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 983548004770 dimer interface [polypeptide binding]; other site 983548004771 NAD(P) binding site [chemical binding]; other site 983548004772 tetramer (dimer of dimers) interface [polypeptide binding]; other site 983548004773 substrate binding site [chemical binding]; other site 983548004774 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 983548004775 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 983548004776 ATP binding site [chemical binding]; other site 983548004777 Mg2+ binding site [ion binding]; other site 983548004778 G-X-G motif; other site 983548004779 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 983548004780 anchoring element; other site 983548004781 dimer interface [polypeptide binding]; other site 983548004782 ATP binding site [chemical binding]; other site 983548004783 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 983548004784 active site 983548004785 putative metal-binding site [ion binding]; other site 983548004786 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 983548004787 DinB superfamily; Region: DinB_2; cl00986 983548004788 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 983548004789 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 983548004790 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 983548004791 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 983548004792 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 983548004793 amidase; Provisional; Region: PRK06707 983548004794 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 983548004795 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 983548004796 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 983548004797 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; cl14056 983548004798 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 983548004799 putative active site [active] 983548004800 Zn-binding site [ion binding]; other site 983548004801 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 983548004802 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 983548004803 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 983548004804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 983548004805 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548004806 Surface antigen; Region: Bac_surface_Ag; cl03097 983548004807 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...; Region: APP_MetAP; cl00279 983548004808 active site 983548004809 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548004810 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 983548004811 active site 983548004812 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983548004813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548004814 NAD(P) binding site [chemical binding]; other site 983548004815 active site 983548004816 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 983548004817 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 983548004818 active site lid residues [active] 983548004819 substrate binding pocket [chemical binding]; other site 983548004820 catalytic residues [active] 983548004821 substrate-Mg2+ binding site; other site 983548004822 aspartate-rich region 1; other site 983548004823 aspartate-rich region 2; other site 983548004824 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 983548004825 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548004826 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 983548004827 DNA binding residues [nucleotide binding] 983548004828 shikimate kinase; Reviewed; Region: aroK; PRK00131 983548004829 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...; Region: SK; cd00464 983548004830 ADP binding site [chemical binding]; other site 983548004831 magnesium binding site [ion binding]; other site 983548004832 putative shikimate binding site; other site 983548004833 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548004834 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 983548004835 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 983548004836 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 983548004837 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 983548004838 PYR/PP interface [polypeptide binding]; other site 983548004839 dimer interface [polypeptide binding]; other site 983548004840 TPP binding site [chemical binding]; other site 983548004841 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983548004842 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 983548004843 TPP-binding site [chemical binding]; other site 983548004844 dimer interface [polypeptide binding]; other site 983548004845 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 983548004846 hydrophobic ligand binding site; other site 983548004847 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548004848 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 983548004849 active site 983548004850 Ap6A binding site [chemical binding]; other site 983548004851 nudix motif; other site 983548004852 metal binding site [ion binding]; metal-binding site 983548004853 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_4; cd06241 983548004854 putative active site [active] 983548004855 Zn-binding site [ion binding]; other site 983548004856 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 983548004857 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 983548004858 Protein of unknown function (DUF328); Region: DUF328; cl01143 983548004859 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 983548004860 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 983548004861 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 983548004862 active site 983548004863 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis...; Region: PASTA_pknB; cd06577 983548004864 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 983548004865 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 983548004866 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 983548004867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548004868 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 983548004869 active site 983548004870 (T/H)XGH motif; other site 983548004871 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 983548004872 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...; Region: Tryptophan_synthase_alpha; cd04724 983548004873 substrate binding site [chemical binding]; other site 983548004874 active site 983548004875 catalytic residues [active] 983548004876 heterodimer interface [polypeptide binding]; other site 983548004877 tryptophan synthase, beta chain; Region: PLN02618 983548004878 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 983548004879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548004880 catalytic residue [active] 983548004881 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 983548004882 active site 983548004883 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 983548004884 active site 983548004885 ribulose/triose binding site [chemical binding]; other site 983548004886 phosphate binding site [ion binding]; other site 983548004887 substrate (anthranilate) binding pocket [chemical binding]; other site 983548004888 product (indole) binding pocket [chemical binding]; other site 983548004889 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 983548004890 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 983548004891 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 983548004892 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 983548004893 Glutamine amidotransferase class-I; Region: GATase; pfam00117 983548004894 glutamine binding [chemical binding]; other site 983548004895 catalytic triad [active] 983548004896 anthranilate synthase component I, non-proteobacterial lineages; Region: trpE_most; TIGR00564 983548004897 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 983548004898 chorismate binding enzyme; Region: Chorismate_bind; cl10555 983548004899 YceI-like domain; Region: YceI; cl01001 983548004900 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548004901 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...; Region: TlpA_like_family; cd02966 983548004902 catalytic residues [active] 983548004903 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 983548004904 putative catalytic residue [active] 983548004905 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548004906 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 983548004907 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 983548004908 active site residue [active] 983548004909 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 983548004910 active site residue [active] 983548004911 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 983548004912 active site residue [active] 983548004913 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 983548004914 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 983548004915 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; cl09110 983548004916 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 983548004917 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 983548004918 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 983548004919 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 983548004920 active site 983548004921 catalytic residues [active] 983548004922 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 983548004923 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 983548004924 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 983548004925 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 983548004926 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 983548004927 MoxR-like ATPases [General function prediction only]; Region: COG0714 983548004928 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...; Region: AAA; cd00009 983548004929 Walker A motif; other site 983548004930 ATP binding site [chemical binding]; other site 983548004931 Walker B motif; other site 983548004932 arginine finger; other site 983548004933 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 983548004934 Protein of unknown function DUF58; Region: DUF58; pfam01882 983548004935 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 983548004936 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 983548004937 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 983548004938 FAD binding domain; Region: FAD_binding_4; pfam01565 983548004939 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 983548004940 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 983548004941 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 983548004942 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 983548004943 motif II; other site 983548004944 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 983548004945 lysine-ketoglutarate reductase/saccharopine dehydrogenase; Region: PLN02819 983548004946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548004947 TIGR01777 family protein; Region: yfcH 983548004948 NAD(P) binding site [chemical binding]; other site 983548004949 active site 983548004950 YceI-like domain; Region: YceI; cl01001 983548004951 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 983548004952 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 983548004953 dimer interface [polypeptide binding]; other site 983548004954 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 983548004955 chaperone protein DnaJ; Provisional; Region: PRK14289 983548004956 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...; Region: DnaJ; cd06257 983548004957 HSP70 interaction site [polypeptide binding]; other site 983548004958 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 983548004959 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 983548004960 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 983548004961 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 983548004962 Walker A/P-loop; other site 983548004963 ATP binding site [chemical binding]; other site 983548004964 Q-loop/lid; other site 983548004965 ABC transporter signature motif; other site 983548004966 Walker B; other site 983548004967 D-loop; other site 983548004968 H-loop/switch region; other site 983548004969 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 983548004970 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548004971 Response regulator receiver domain; Region: Response_reg; pfam00072 983548004972 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 983548004973 active site 983548004974 phosphorylation site [posttranslational modification] 983548004975 intermolecular recognition site; other site 983548004976 dimerization interface [polypeptide binding]; other site 983548004977 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...; Region: AAA; cd00009 983548004978 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 983548004979 Walker A motif; other site 983548004980 ATP binding site [chemical binding]; other site 983548004981 Walker B motif; other site 983548004982 arginine finger; other site 983548004983 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 983548004984 M28, and M42; Region: Zinc_peptidase_like; cl14876 983548004985 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions...; Region: PA_M28_2; cd04815 983548004986 PA/protease or protease-like domain interface [polypeptide binding]; other site 983548004987 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 983548004988 metal binding site [ion binding]; metal-binding site 983548004989 multidrug efflux protein; Reviewed; Region: PRK01766 983548004990 MatE; Region: MatE; pfam01554 983548004991 MatE; Region: MatE; pfam01554 983548004992 PAP2_like_4 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_4; cd03395 983548004993 active site 983548004994 membrane ATPase/protein kinase; Provisional; Region: PRK09435 983548004995 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 983548004996 Walker A; other site 983548004997 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 983548004998 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548004999 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548005000 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...; Region: Sigma70_r4; cd06171 983548005001 DNA binding residues [nucleotide binding] 983548005002 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548005003 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 983548005004 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 983548005005 active site 983548005006 motif I; other site 983548005007 motif II; other site 983548005008 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; cl11391 983548005009 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 983548005010 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 983548005011 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 983548005012 nucleotide binding region [chemical binding]; other site 983548005013 ATP-binding site [chemical binding]; other site 983548005014 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 983548005015 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 983548005016 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983548005017 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 983548005018 Walker A/P-loop; other site 983548005019 ATP binding site [chemical binding]; other site 983548005020 Q-loop/lid; other site 983548005021 ABC transporter signature motif; other site 983548005022 Walker B; other site 983548005023 D-loop; other site 983548005024 H-loop/switch region; other site 983548005025 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 983548005026 S-adenosylmethionine binding site [chemical binding]; other site 983548005027 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 983548005028 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548005029 Walker A/P-loop; other site 983548005030 ATP binding site [chemical binding]; other site 983548005031 ABC transporter signature motif; other site 983548005032 Walker B; other site 983548005033 D-loop; other site 983548005034 H-loop/switch region; other site 983548005035 ABC transporter; Region: ABC_tran_2; pfam12848 983548005036 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548005037 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 983548005038 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983548005039 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 983548005040 Chain length determinant protein; Region: Wzz; cl01623 983548005041 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 983548005042 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 983548005043 Nucleotide binding site [chemical binding]; other site 983548005044 P loop; other site 983548005045 DTAP/Switch II; other site 983548005046 ABC-2 type transporter; Region: ABC2_membrane; cl11417 983548005047 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 983548005048 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 983548005049 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 983548005050 Walker A/P-loop; other site 983548005051 ATP binding site [chemical binding]; other site 983548005052 Q-loop/lid; other site 983548005053 ABC transporter signature motif; other site 983548005054 Walker B; other site 983548005055 D-loop; other site 983548005056 H-loop/switch region; other site 983548005057 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548005058 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548005059 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 983548005060 metal binding site [ion binding]; metal-binding site 983548005061 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 983548005062 active site 983548005063 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548005064 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 983548005065 active site 983548005066 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 983548005067 active site 983548005068 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548005069 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 983548005070 active site 983548005071 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548005072 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 983548005073 active site 983548005074 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548005075 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 983548005076 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 983548005077 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005078 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 983548005079 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 983548005080 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005081 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548005082 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 983548005083 active site 983548005084 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548005085 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 983548005086 ligand binding site [chemical binding]; other site 983548005087 tetramer interface [polypeptide binding]; other site 983548005088 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 983548005089 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; cl11391 983548005090 NeuB family; Region: NeuB; cl00496 983548005091 diacylglycerol glucosyltransferase; Provisional; Region: PRK13609 983548005092 MBOAT family; Region: MBOAT; cl00738 983548005093 Fibrobacter succinogenes paralogous family TIGR02171; Region: Fb_sc_TIGR02171 983548005094 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005095 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 983548005096 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548005097 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 983548005098 active site 983548005099 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548005100 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 983548005101 active site 983548005102 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 983548005103 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 L-...; Region: LbH_SAT; cd03354 983548005104 trimer interface [polypeptide binding]; other site 983548005105 active site 983548005106 substrate binding site [chemical binding]; other site 983548005107 CoA binding site [chemical binding]; other site 983548005108 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005109 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 983548005110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005111 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 983548005112 O-Antigen ligase; Region: Wzy_C; cl04850 983548005113 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 983548005114 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 983548005115 Bacterial sugar transferase; Region: Bac_transf; cl00939 983548005116 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 983548005117 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548005118 CoA-ligase; Region: Ligase_CoA; pfam00549 983548005119 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 983548005120 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 983548005121 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548005122 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 983548005123 active site 983548005124 catalytic residues [active] 983548005125 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 983548005126 substrate binding site [chemical binding]; other site 983548005127 dimer interface [polypeptide binding]; other site 983548005128 catalytic triad [active] 983548005129 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...; Region: TM_PBP2; cd06261 983548005130 dimer interface [polypeptide binding]; other site 983548005131 conserved gate region; other site 983548005132 putative PBP binding loops; other site 983548005133 ABC-ATPase subunit interface; other site 983548005134 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 983548005135 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 983548005136 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 983548005137 dihydropteroate synthase; Region: DHPS; TIGR01496 983548005138 substrate binding pocket [chemical binding]; other site 983548005139 dimer interface [polypeptide binding]; other site 983548005140 inhibitor binding site; inhibition site 983548005141 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 983548005142 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548005143 Walker A/P-loop; other site 983548005144 ATP binding site [chemical binding]; other site 983548005145 Q-loop/lid; other site 983548005146 ABC transporter signature motif; other site 983548005147 Walker B; other site 983548005148 D-loop; other site 983548005149 H-loop/switch region; other site 983548005150 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 983548005151 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 983548005152 active site 983548005153 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 983548005154 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 983548005155 active site 983548005156 Cupin domain; Region: Cupin_2; cl09118 983548005157 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005158 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 983548005159 putative ADP-binding pocket [chemical binding]; other site 983548005160 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 983548005161 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 983548005162 putative trimer interface [polypeptide binding]; other site 983548005163 putative CoA binding site [chemical binding]; other site 983548005164 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 983548005165 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983548005166 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 983548005167 inhibitor-cofactor binding pocket; inhibition site 983548005168 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548005169 catalytic residue [active] 983548005170 FemAB family; Region: FemAB; cl11444 983548005171 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 983548005172 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 983548005173 G1 box; other site 983548005174 putative GEF interaction site [polypeptide binding]; other site 983548005175 GTP/Mg2+ binding site [chemical binding]; other site 983548005176 Switch I region; other site 983548005177 G2 box; other site 983548005178 G3 box; other site 983548005179 Switch II region; other site 983548005180 G4 box; other site 983548005181 G5 box; other site 983548005182 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 983548005183 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...; Region: BipA_TypA_C; cd03710 983548005184 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 983548005185 active site 983548005186 multimer interface [polypeptide binding]; other site 983548005187 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 983548005188 DHH family; Region: DHH; pfam01368 983548005189 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 983548005190 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 983548005191 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 983548005192 active site 983548005193 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 983548005194 aminoacyl-histidine dipeptidase; Region: aa-his-dipept; TIGR01893 983548005195 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 983548005196 metal binding site [ion binding]; metal-binding site 983548005197 dimer interface [polypeptide binding]; other site 983548005198 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 983548005199 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 983548005200 23S rRNA binding site [nucleotide binding]; other site 983548005201 L21 binding site [polypeptide binding]; other site 983548005202 L13 binding site [polypeptide binding]; other site 983548005203 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 983548005204 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 983548005205 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 983548005206 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 983548005207 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...; Region: TGS_ThrRS_N; cd01667 983548005208 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 983548005209 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 983548005210 active site 983548005211 dimer interface [polypeptide binding]; other site 983548005212 motif 1; other site 983548005213 motif 2; other site 983548005214 motif 3; other site 983548005215 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 983548005216 anticodon binding site; other site 983548005217 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...; Region: DnaE_OBF; cd04485 983548005218 generic binding surface I; other site 983548005219 generic binding surface II; other site 983548005220 ZIP Zinc transporter; Region: Zip; pfam02535 983548005221 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 983548005222 THUMP domain; Region: THUMP; cl12076 983548005223 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548005224 TRAM domain; Region: TRAM; cl01282 983548005225 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 983548005226 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 983548005227 S-adenosylmethionine binding site [chemical binding]; other site 983548005228 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 983548005229 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 983548005230 inhibitor-cofactor binding pocket; inhibition site 983548005231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548005232 catalytic residue [active] 983548005233 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 983548005234 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983548005235 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 983548005236 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548005237 catalytic residue [active] 983548005238 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548005239 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 983548005240 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...; Region: OM_channels; cl00284 983548005241 Peptidase family M23; Region: Peptidase_M23; pfam01551 983548005242 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548005243 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...; Region: OM_channels; cl00284 983548005244 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 983548005245 Monomeric isocitrate dehydrogenase; Region: IDH; pfam03971 983548005246 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 983548005247 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 983548005248 prolyl-tRNA synthetase; Provisional; Region: PRK08661 983548005249 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_arch_euk; cd00778 983548005250 dimer interface [polypeptide binding]; other site 983548005251 motif 1; other site 983548005252 active site 983548005253 motif 2; other site 983548005254 motif 3; other site 983548005255 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity...; Region: ProRS_anticodon_zinc; cd00862 983548005256 anticodon binding site; other site 983548005257 zinc-binding site [ion binding]; other site 983548005258 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 983548005259 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 983548005260 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548005261 alpha-amylase; Reviewed; Region: malS; PRK09505 983548005262 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 983548005263 UbiA prenyltransferase family; Region: UbiA; cl00337 983548005264 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 higher-...; Region: HU_IHF; cd00591 983548005265 IHF - DNA interface [nucleotide binding]; other site 983548005266 IHF dimer interface [polypeptide binding]; other site 983548005267 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 983548005268 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 983548005269 putative active site [active] 983548005270 substrate binding site [chemical binding]; other site 983548005271 putative cosubstrate binding site; other site 983548005272 catalytic site [active] 983548005273 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 983548005274 substrate binding site [chemical binding]; other site 983548005275 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 983548005276 ATP binding site [chemical binding]; other site 983548005277 putative Mg++ binding site [ion binding]; other site 983548005278 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 983548005279 nucleotide binding region [chemical binding]; other site 983548005280 ATP-binding site [chemical binding]; other site 983548005281 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 983548005282 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; cl01238 983548005283 Protein of unknown function (DUF493); Region: DUF493; cl01102 983548005284 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 983548005285 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 983548005286 hinge; other site 983548005287 active site 983548005288 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 983548005289 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 983548005290 putative active site [active] 983548005291 catalytic site [active] 983548005292 putative metal binding site [ion binding]; other site 983548005293 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 983548005294 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 983548005295 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; cl14056 983548005296 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548005297 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 983548005298 CoenzymeA binding site [chemical binding]; other site 983548005299 subunit interaction site [polypeptide binding]; other site 983548005300 PHB binding site; other site 983548005301 chorismate binding enzyme; Region: Chorismate_bind; cl10555 983548005302 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 983548005303 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 983548005304 dimer interface [polypeptide binding]; other site 983548005305 tetramer interface [polypeptide binding]; other site 983548005306 PYR/PP interface [polypeptide binding]; other site 983548005307 TPP binding site [chemical binding]; other site 983548005308 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 983548005309 TPP-binding site; other site 983548005310 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 983548005311 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 983548005312 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; cl00298 983548005313 active site 983548005314 naphthoate synthase; Validated; Region: PRK08321 983548005315 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 983548005316 substrate binding site [chemical binding]; other site 983548005317 oxyanion hole (OAH) forming residues; other site 983548005318 trimer interface [polypeptide binding]; other site 983548005319 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 983548005320 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 983548005321 oligomer interface [polypeptide binding]; other site 983548005322 active site 983548005323 metal binding site [ion binding]; metal-binding site 983548005324 DinB superfamily; Region: DinB_2; cl00986 983548005325 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 983548005326 putative active site [active] 983548005327 Cell division protein ZapA; Region: ZapA; cl01146 983548005328 phosphodiesterase; Provisional; Region: PRK12704 983548005329 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548005330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548005331 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548005332 Coenzyme A binding pocket [chemical binding]; other site 983548005333 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 983548005334 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 983548005335 Ligand Binding Site [chemical binding]; other site 983548005336 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 983548005337 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005338 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 983548005339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005340 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 983548005341 acetylornithine aminotransferase; Provisional; Region: PRK02627 983548005342 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 983548005343 inhibitor-cofactor binding pocket; inhibition site 983548005344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548005345 catalytic residue [active] 983548005346 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 983548005347 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 983548005348 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 983548005349 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 983548005350 nucleotide binding site [chemical binding]; other site 983548005351 N-acetyl-L-glutamate binding site [chemical binding]; other site 983548005352 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 983548005353 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 983548005354 metal binding site [ion binding]; metal-binding site 983548005355 dimer interface [polypeptide binding]; other site 983548005356 Lyase; Region: Lyase_1; pfam00206 983548005357 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 983548005358 active sites [active] 983548005359 tetramer interface [polypeptide binding]; other site 983548005360 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 983548005361 isocitrate dehydrogenase; Validated; Region: PRK06451 983548005362 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 3-...; Region: IPMI_Swivel; cd01577 983548005363 substrate binding site [chemical binding]; other site 983548005364 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 983548005365 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 983548005366 substrate binding site [chemical binding]; other site 983548005367 ligand binding site [chemical binding]; other site 983548005368 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 983548005369 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 983548005370 active site 983548005371 catalytic residues [active] 983548005372 metal binding site [ion binding]; metal-binding site 983548005373 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 983548005374 EamA-like transporter family; Region: EamA; cl01037 983548005375 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 983548005376 active site 983548005377 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 983548005378 oligomerization interface [polypeptide binding]; other site 983548005379 active site 983548005380 metal binding site [ion binding]; metal-binding site 983548005381 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 983548005382 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 983548005383 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 983548005384 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 983548005385 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548005386 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548005387 Coenzyme A binding pocket [chemical binding]; other site 983548005388 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 983548005389 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 983548005390 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 983548005391 14-3-3 protein; Region: 14-3-3; cl02098 983548005392 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 983548005393 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...; Region: metallo-dependent_hydrolases; cl00281 983548005394 active site 983548005395 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 983548005396 putative dimer interface [polypeptide binding]; other site 983548005397 excinuclease ABC subunit B; Provisional; Region: PRK05298 983548005398 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 983548005399 ATP binding site [chemical binding]; other site 983548005400 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 983548005401 nucleotide binding region [chemical binding]; other site 983548005402 ATP-binding site [chemical binding]; other site 983548005403 Ultra-violet resistance protein B; Region: UvrB; pfam12344 983548005404 UvrB/uvrC motif; Region: UVR; pfam02151 983548005405 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 983548005406 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 983548005407 inhibitor-cofactor binding pocket; inhibition site 983548005408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548005409 catalytic residue [active] 983548005410 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 983548005411 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983548005412 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 983548005413 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548005414 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 983548005415 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983548005416 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 983548005417 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548005418 DNA recombination protein RmuC; Provisional; Region: PRK10361 983548005419 RmuC family; Region: RmuC; pfam02646 983548005420 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 983548005421 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 983548005422 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 983548005423 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 983548005424 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 983548005425 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...; Region: TM_ABC_iron-siderophores_like; cd06550 983548005426 ABC-ATPase subunit interface; other site 983548005427 dimer interface [polypeptide binding]; other site 983548005428 putative PBP binding regions; other site 983548005429 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 983548005430 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 983548005431 putative ligand binding site [chemical binding]; other site 983548005432 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...; Region: OM_channels; cl00284 983548005433 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 983548005434 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 983548005435 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 983548005436 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983548005437 carboxyl-terminal processing protease; Provisional; Region: PLN00049 983548005438 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 983548005439 Catalytic dyad [active] 983548005440 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...; Region: OM_channels; cl00284 983548005441 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 983548005442 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 983548005443 FtsX-like permease family; Region: FtsX; pfam02687 983548005444 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 983548005445 Zn binding site [ion binding]; other site 983548005446 DsrE/DsrF-like family; Region: DrsE; cl00672 983548005447 Brp/Blh family; Region: blh_monoox; TIGR03753 983548005448 Bacteriorhodopsin-like protein; Region: Bac_rhodopsin; cl02333 983548005449 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 983548005450 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 983548005451 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 983548005452 Transcription termination factor [Transcription]; Region: Rho; COG1158 983548005453 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...; Region: Rho_CSD; cd04459 983548005454 RNA binding site [nucleotide binding]; other site 983548005455 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...; Region: rho_factor; cd01128 983548005456 multimer interface [polypeptide binding]; other site 983548005457 Walker A motif; other site 983548005458 ATP binding site [chemical binding]; other site 983548005459 Walker B motif; other site 983548005460 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 983548005461 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548005462 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548005463 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 983548005464 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 983548005465 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983548005466 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 983548005467 ligand binding site [chemical binding]; other site 983548005468 flexible hinge region; other site 983548005469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548005470 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 983548005471 Histidine kinase; Region: His_kinase; pfam06580 983548005472 Integral membrane protein TerC family; Region: TerC; cl10468 983548005473 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 983548005474 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 983548005475 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_2; cd06239 983548005476 putative active site [active] 983548005477 Zn-binding site [ion binding]; other site 983548005478 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 983548005479 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548005480 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; cl11391 983548005481 DinB superfamily; Region: DinB_2; cl00986 983548005482 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 983548005483 active site 983548005484 dimer interface [polypeptide binding]; other site 983548005485 metal binding site [ion binding]; metal-binding site 983548005486 Proline dehydrogenase; Region: Pro_dh; cl03282 983548005487 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 983548005488 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; cd00229 983548005489 active site 983548005490 catalytic triad [active] 983548005491 oxyanion hole [active] 983548005492 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 983548005493 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 983548005494 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548005495 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 983548005496 binding surface 983548005497 TPR motif; other site 983548005498 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 983548005499 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 983548005500 putative active site [active] 983548005501 putative NTP binding site [chemical binding]; other site 983548005502 putative nucleic acid binding site [nucleotide binding]; other site 983548005503 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 983548005504 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548005505 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 983548005506 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 983548005507 putative active site [active] 983548005508 putative NTP binding site [chemical binding]; other site 983548005509 putative nucleic acid binding site [nucleotide binding]; other site 983548005510 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 983548005511 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 983548005512 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 983548005513 DNA binding site [nucleotide binding] 983548005514 Int/Topo IB signature motif; other site 983548005515 active site 983548005516 Protein of unknown function (DUF819); Region: DUF819; cl02317 983548005517 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 983548005518 putative ligand binding site [chemical binding]; other site 983548005519 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 983548005520 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983548005521 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 C-...; Region: PDZ_serine_protease; cd00987 983548005522 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548005523 S1/P1 Nuclease; Region: S1-P1_nuclease; pfam02265 983548005524 Cupin domain; Region: Cupin_2; cl09118 983548005525 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983548005526 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 983548005527 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 983548005528 Predicted membrane protein [Function unknown]; Region: COG4270 983548005529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005530 NAD(P) binding site [chemical binding]; other site 983548005531 active site 983548005532 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 983548005533 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 983548005534 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 983548005535 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 983548005536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548005537 catalytic residue [active] 983548005538 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 983548005539 non-specific DNA binding site [nucleotide binding]; other site 983548005540 salt bridge; other site 983548005541 sequence-specific DNA binding site [nucleotide binding]; other site 983548005542 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 983548005543 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548005544 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 983548005545 active site 983548005546 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 983548005547 putative active site [active] 983548005548 putative CoA binding site [chemical binding]; other site 983548005549 nudix motif; other site 983548005550 metal binding site [ion binding]; metal-binding site 983548005551 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 983548005552 putative acyl-acceptor binding pocket; other site 983548005553 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548005554 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 983548005555 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548005556 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...; Region: OM_channels; cl00284 983548005557 Protein of unknown function DUF124; Region: DUF124; cl00884 983548005558 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 983548005559 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548005560 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 983548005561 dimerization interface [polypeptide binding]; other site 983548005562 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 983548005563 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 983548005564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005565 Sodium:solute symporter family; Region: SSF; cl00456 983548005566 Sodium:solute symporter family; Region: SSF; cl00456 983548005567 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 983548005568 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548005569 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 983548005570 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 983548005571 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 983548005572 active site 983548005573 dimer interface [polypeptide binding]; other site 983548005574 UbiA prenyltransferase family; Region: UbiA; cl00337 983548005575 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 983548005576 active site 983548005577 motif I; other site 983548005578 motif II; other site 983548005579 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 983548005580 Uncharacterized conserved protein [Function unknown]; Region: COG5495 983548005581 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 983548005582 ResB-like family; Region: ResB; pfam05140 983548005583 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 983548005584 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 983548005585 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 983548005586 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 983548005587 fumarate hydratase; Reviewed; Region: fumC; PRK00485 983548005588 Class II fumarases; Region: Fumarase_classII; cd01362 983548005589 active site 983548005590 tetramer interface [polypeptide binding]; other site 983548005591 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548005592 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983548005593 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548005594 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548005595 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983548005596 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548005597 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548005598 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 983548005599 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 983548005600 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548005601 GTP-binding protein YchF; Reviewed; Region: PRK09601 983548005602 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 983548005603 G1 box; other site 983548005604 GTP/Mg2+ binding site [chemical binding]; other site 983548005605 Switch I region; other site 983548005606 G2 box; other site 983548005607 Switch II region; other site 983548005608 G3 box; other site 983548005609 G4 box; other site 983548005610 G5 box; other site 983548005611 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 983548005612 Sensors of blue-light using FAD; Region: BLUF; pfam04940 983548005613 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 983548005614 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 983548005615 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 983548005616 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 983548005617 ATP binding site [chemical binding]; other site 983548005618 putative Mg++ binding site [ion binding]; other site 983548005619 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 983548005620 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 983548005621 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 983548005622 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 983548005623 HsdM N-terminal domain; Region: HsdM_N; pfam12161 983548005624 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548005625 ligand binding site [chemical binding]; other site 983548005626 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 983548005627 Domain of unknown function DUF11; Region: DUF11; cl03172 983548005628 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 983548005629 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 983548005630 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 983548005631 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 983548005632 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005633 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 983548005634 UvrD/REP helicase; Region: UvrD-helicase; cl14126 983548005635 UvrD/REP helicase; Region: UvrD-helicase; cl14126 983548005636 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 983548005637 active site 983548005638 catalytic site [active] 983548005639 substrate binding site [chemical binding]; other site 983548005640 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 983548005641 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 983548005642 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 983548005643 Sensors of blue-light using FAD; Region: BLUF; pfam04940 983548005644 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 983548005645 dimer interface [polypeptide binding]; other site 983548005646 Protein of unknown function (DUF421); Region: DUF421; cl00990 983548005647 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 983548005648 Ligand Binding Site [chemical binding]; other site 983548005649 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 983548005650 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 983548005651 active site 983548005652 nucleophile elbow; other site 983548005653 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548005654 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cl00250 983548005655 30S subunit binding site; other site 983548005656 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 983548005657 Ligand Binding Site [chemical binding]; other site 983548005658 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 983548005659 Ligand Binding Site [chemical binding]; other site 983548005660 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 983548005661 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548005662 DinB superfamily; Region: DinB_2; cl00986 983548005663 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 983548005664 chaperone protein DnaJ; Provisional; Region: PRK14299 983548005665 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...; Region: DnaJ; cd06257 983548005666 HSP70 interaction site [polypeptide binding]; other site 983548005667 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 983548005668 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 983548005669 PAS domain S-box; Region: sensory_box; TIGR00229 983548005670 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 983548005671 putative active site [active] 983548005672 heme pocket [chemical binding]; other site 983548005673 PAS domain S-box; Region: sensory_box; TIGR00229 983548005674 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 983548005675 putative active site [active] 983548005676 heme pocket [chemical binding]; other site 983548005677 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 trans-...; Region: HisKA; cd00082 983548005678 dimer interface [polypeptide binding]; other site 983548005679 phosphorylation site [posttranslational modification] 983548005680 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 983548005681 ATP binding site [chemical binding]; other site 983548005682 Mg2+ binding site [ion binding]; other site 983548005683 G-X-G motif; other site 983548005684 Response regulator receiver domain; Region: Response_reg; pfam00072 983548005685 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 983548005686 active site 983548005687 phosphorylation site [posttranslational modification] 983548005688 intermolecular recognition site; other site 983548005689 dimerization interface [polypeptide binding]; other site 983548005690 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983548005691 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 983548005692 ligand binding site [chemical binding]; other site 983548005693 flexible hinge region; other site 983548005694 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548005695 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 983548005696 Ligand Binding Site [chemical binding]; other site 983548005697 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 983548005698 Ligand Binding Site [chemical binding]; other site 983548005699 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 983548005700 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 983548005701 Ligand Binding Site [chemical binding]; other site 983548005702 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 983548005703 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 983548005704 Ligand Binding Site [chemical binding]; other site 983548005705 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 983548005706 Ligand Binding Site [chemical binding]; other site 983548005707 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 983548005708 Ligand Binding Site [chemical binding]; other site 983548005709 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 983548005710 Ligand Binding Site [chemical binding]; other site 983548005711 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 983548005712 Ligand Binding Site [chemical binding]; other site 983548005713 ATP cone domain; Region: ATP-cone; pfam03477 983548005714 Restriction endonuclease; Region: Mrr_cat; cl00747 983548005715 FOG: CBS domain [General function prediction only]; Region: COG0517 983548005716 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-...; Region: CBS_pair; cl10010 983548005717 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 983548005718 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 983548005719 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; cl00207 983548005720 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 983548005721 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; cl11391 983548005722 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 983548005723 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 983548005724 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...; Region: cbb3_Oxidase_I; cd01661 983548005725 Low-spin heme binding site [chemical binding]; other site 983548005726 Putative water exit pathway; other site 983548005727 Binuclear center (active site) [active] 983548005728 Putative proton exit pathway; other site 983548005729 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 983548005730 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 983548005731 Cytochrome c; Region: Cytochrom_C; cl11414 983548005732 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 983548005733 4Fe-4S binding domain; Region: Fer4_5; pfam12801 983548005734 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 983548005735 FixH; Region: FixH; cl01254 983548005736 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 983548005737 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 983548005738 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; cl14056 983548005739 HemN C-terminal region; Region: HemN_C; pfam06969 983548005740 Response regulator receiver domain; Region: Response_reg; pfam00072 983548005741 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 983548005742 active site 983548005743 phosphorylation site [posttranslational modification] 983548005744 intermolecular recognition site; other site 983548005745 dimerization interface [polypeptide binding]; other site 983548005746 Heme NO binding; Region: HNOB; pfam07700 983548005747 PAS domain S-box; Region: sensory_box; TIGR00229 983548005748 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 983548005749 putative active site [active] 983548005750 heme pocket [chemical binding]; other site 983548005751 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 983548005752 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 983548005753 putative active site [active] 983548005754 heme pocket [chemical binding]; other site 983548005755 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 trans-...; Region: HisKA; cd00082 983548005756 dimer interface [polypeptide binding]; other site 983548005757 phosphorylation site [posttranslational modification] 983548005758 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 983548005759 ATP binding site [chemical binding]; other site 983548005760 Mg2+ binding site [ion binding]; other site 983548005761 G-X-G motif; other site 983548005762 Uncharacterized conserved protein [Function unknown]; Region: COG3287 983548005763 FIST N domain; Region: FIST; pfam08495 983548005764 FIST C domain; Region: FIST_C; pfam10442 983548005765 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 trans-...; Region: HisKA; cd00082 983548005766 dimer interface [polypeptide binding]; other site 983548005767 phosphorylation site [posttranslational modification] 983548005768 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 983548005769 ATP binding site [chemical binding]; other site 983548005770 Mg2+ binding site [ion binding]; other site 983548005771 G-X-G motif; other site 983548005772 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 983548005773 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983548005774 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 983548005775 active site 983548005776 phosphorylation site [posttranslational modification] 983548005777 intermolecular recognition site; other site 983548005778 dimerization interface [polypeptide binding]; other site 983548005779 LytTr DNA-binding domain; Region: LytTR; cl04498 983548005780 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 983548005781 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548005782 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 983548005783 binding surface 983548005784 TPR motif; other site 983548005785 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 983548005786 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 983548005787 putative active site [active] 983548005788 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 983548005789 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548005790 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 983548005791 Endo-beta-mannanase [Carbohydrate transport and metabolism]; Region: COG3934 983548005792 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl14895 983548005793 Predicted integral membrane protein [Function unknown]; Region: COG5617 983548005794 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 983548005795 Ligand binding site [chemical binding]; other site 983548005796 Ligand binding site [chemical binding]; other site 983548005797 Ligand binding site [chemical binding]; other site 983548005798 Putative Catalytic site [active] 983548005799 DXD motif; other site 983548005800 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 983548005801 mannose-6-phosphate isomerase; Provisional; Region: PRK15131; cl14659 983548005802 Secreted protein acidic and rich in cysteine Ca binding region; Region: SPARC_Ca_bdg; pfam10591 983548005803 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 983548005804 Cu(I) binding site [ion binding]; other site 983548005805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 983548005806 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 983548005807 Histidine kinase; Region: His_kinase; pfam06580 983548005808 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983548005809 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 983548005810 active site 983548005811 phosphorylation site [posttranslational modification] 983548005812 intermolecular recognition site; other site 983548005813 dimerization interface [polypeptide binding]; other site 983548005814 LytTr DNA-binding domain; Region: LytTR; cl04498 983548005815 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 983548005816 FMN binding site [chemical binding]; other site 983548005817 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 983548005818 substrate binding site [chemical binding]; other site 983548005819 putative catalytic residue [active] 983548005820 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 983548005821 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 983548005822 active site 983548005823 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 983548005824 active site 983548005825 Acyl transferase domain; Region: Acyl_transf_1; cl08282 983548005826 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 983548005827 dimer interface [polypeptide binding]; other site 983548005828 active site 1 [active] 983548005829 active site 2 [active] 983548005830 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 983548005831 dimer interface [polypeptide binding]; other site 983548005832 active site 1 [active] 983548005833 active site 2 [active] 983548005834 potential frameshift: common BLAST hit: gi|298492699|ref|YP_003722876.1| polyketide-type polyunsaturated fatty acid synthase PfaA 983548005835 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 983548005836 putative NADP binding site [chemical binding]; other site 983548005837 active site 983548005838 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 983548005839 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 983548005840 active site 983548005841 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 983548005842 Acyl transferase domain; Region: Acyl_transf_1; cl08282 983548005843 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548005844 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548005845 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548005846 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548005847 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548005848 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983548005849 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 983548005850 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 983548005851 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548005852 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...; Region: OM_channels; cl00284 983548005853 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 983548005854 FecR protein; Region: FecR; pfam04773 983548005855 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 983548005856 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548005857 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...; Region: Sigma70_r4; cd06171 983548005858 DNA binding residues [nucleotide binding] 983548005859 fumarylacetoacetase; Region: PLN02856 983548005860 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 983548005861 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 983548005862 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...; Region: SHMT; cd00378 983548005863 dimer interface [polypeptide binding]; other site 983548005864 glycine-pyridoxal phosphate binding site [chemical binding]; other site 983548005865 active site 983548005866 folate binding site [chemical binding]; other site 983548005867 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 983548005868 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 983548005869 Outer membrane protein (OmpH-like); Region: OmpH; cl08146 983548005870 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 983548005871 PPIC-type PPIASE domain; Region: Rotamase; cl08278 983548005872 PPIC-type PPIASE domain; Region: Rotamase; cl08278 983548005873 SurA N-terminal domain; Region: SurA_N; pfam09312 983548005874 PPIC-type PPIASE domain; Region: Rotamase; cl08278 983548005875 PPIC-type PPIASE domain; Region: Rotamase; cl08278 983548005876 MoxR-like ATPases [General function prediction only]; Region: COG0714 983548005877 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...; Region: AAA; cd00009 983548005878 Walker A motif; other site 983548005879 ATP binding site [chemical binding]; other site 983548005880 Walker B motif; other site 983548005881 arginine finger; other site 983548005882 aconitate hydratase; Validated; Region: PRK07229 983548005883 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 983548005884 substrate binding site [chemical binding]; other site 983548005885 ligand binding site [chemical binding]; other site 983548005886 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 983548005887 substrate binding site [chemical binding]; other site 983548005888 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 983548005889 active site 983548005890 metal binding site [ion binding]; metal-binding site 983548005891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548005892 putative diguanylate cyclase; Provisional; Region: PRK09776 983548005893 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 983548005894 putative active site [active] 983548005895 heme pocket [chemical binding]; other site 983548005896 PAS fold; Region: PAS_4; pfam08448 983548005897 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 983548005898 putative active site [active] 983548005899 heme pocket [chemical binding]; other site 983548005900 PAS fold; Region: PAS_3; pfam08447 983548005901 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 983548005902 heme pocket [chemical binding]; other site 983548005903 putative active site [active] 983548005904 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 trans-...; Region: HisKA; cd00082 983548005905 dimer interface [polypeptide binding]; other site 983548005906 phosphorylation site [posttranslational modification] 983548005907 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 983548005908 ATP binding site [chemical binding]; other site 983548005909 Mg2+ binding site [ion binding]; other site 983548005910 G-X-G motif; other site 983548005911 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 983548005912 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 983548005913 active site 983548005914 phosphorylation site [posttranslational modification] 983548005915 intermolecular recognition site; other site 983548005916 dimerization interface [polypeptide binding]; other site 983548005917 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548005918 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 983548005919 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 983548005920 N-terminal plug; other site 983548005921 ligand-binding site [chemical binding]; other site 983548005922 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 983548005923 binding surface 983548005924 TPR motif; other site 983548005925 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 983548005926 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...; Region: GltS_FMN; cd02808 983548005927 active site 983548005928 FMN binding site [chemical binding]; other site 983548005929 substrate binding site [chemical binding]; other site 983548005930 3Fe-4S cluster binding site [ion binding]; other site 983548005931 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 983548005932 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...; Region: metallo-dependent_hydrolases; cl00281 983548005933 active site 983548005934 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 983548005935 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 983548005936 active site 983548005937 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...; Region: metallo-dependent_hydrolases; cl00281 983548005938 active site 983548005939 homoserine kinase; Provisional; Region: PRK01212 983548005940 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 983548005941 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 983548005942 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 983548005943 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 983548005944 putative catalytic residues [active] 983548005945 nucleotide binding site [chemical binding]; other site 983548005946 aspartate binding site [chemical binding]; other site 983548005947 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 983548005948 dimer interface [polypeptide binding]; other site 983548005949 putative threonine allosteric regulatory site; other site 983548005950 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 983548005951 putative threonine allosteric regulatory site; other site 983548005952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005953 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 983548005954 putative carbohydrate kinase; Provisional; Region: PRK10565 983548005955 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 983548005956 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 983548005957 putative substrate binding site [chemical binding]; other site 983548005958 putative ATP binding site [chemical binding]; other site 983548005959 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548005960 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 983548005961 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...; Region: OM_channels; cl00284 983548005962 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 983548005963 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 983548005964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548005965 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 983548005966 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548005967 catalytic residue [active] 983548005968 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 983548005969 NAD(P) binding site [chemical binding]; other site 983548005970 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 983548005971 Sulfate transporter family; Region: Sulfate_transp; cl00967 983548005972 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 983548005973 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 983548005974 Ligand Binding Site [chemical binding]; other site 983548005975 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 983548005976 catalytic residues [active] 983548005977 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 983548005978 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 983548005979 motif II; other site 983548005980 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 983548005981 conserved cys residue [active] 983548005982 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 983548005983 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983548005984 putative substrate translocation pore; other site 983548005985 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains...; Region: Peptidase_M14-like_1_1; cd06238 983548005986 putative active site [active] 983548005987 Zn-binding site [ion binding]; other site 983548005988 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 983548005989 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 983548005990 Domain of unknown function DUF20; Region: UPF0118; cl00465 983548005991 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_18; cd08357 983548005992 putative metal binding site [ion binding]; other site 983548005993 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 983548005994 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)-formimino-5-; Region: HisF; cd04731 983548005995 substrate binding site [chemical binding]; other site 983548005996 glutamase interaction surface [polypeptide binding]; other site 983548005997 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 983548005998 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 983548005999 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 983548006000 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983548006001 Active site serine [active] 983548006002 LytTr DNA-binding domain; Region: LytTR; cl04498 983548006003 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 983548006004 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 983548006005 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 983548006006 active site 983548006007 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 983548006008 proposed catalytic triad [active] 983548006009 conserved cys residue [active] 983548006010 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 983548006011 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548006012 ligand binding site [chemical binding]; other site 983548006013 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 983548006014 putative FMN binding site [chemical binding]; other site 983548006015 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cd00552 983548006016 30S subunit binding site; other site 983548006017 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548006018 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548006019 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 983548006020 NAD(P) binding site [chemical binding]; other site 983548006021 catalytic residues [active] 983548006022 Protein of unknown function DUF72; Region: DUF72; cl00777 983548006023 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 983548006024 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 983548006025 ATP-binding site [chemical binding]; other site 983548006026 Gluconate-6-phosphate binding site [chemical binding]; other site 983548006027 gluconate transporter; Region: gntP; TIGR00791 983548006028 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; cl09110 983548006029 adenylosuccinate lyase; Provisional; Region: PRK09285 983548006030 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 983548006031 tetramer interface [polypeptide binding]; other site 983548006032 active site 983548006033 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 983548006034 Protein of unknown function DUF58; Region: DUF58; pfam01882 983548006035 MoxR-like ATPases [General function prediction only]; Region: COG0714 983548006036 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...; Region: AAA; cd00009 983548006037 Walker A motif; other site 983548006038 ATP binding site [chemical binding]; other site 983548006039 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548006040 Walker B motif; other site 983548006041 arginine finger; other site 983548006042 Integral membrane protein DUF95; Region: DUF95; cl00572 983548006043 RDD family; Region: RDD; cl00746 983548006044 Predicted membrane protein [Function unknown]; Region: COG2860 983548006045 UPF0126 domain; Region: UPF0126; pfam03458 983548006046 UPF0126 domain; Region: UPF0126; pfam03458 983548006047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006048 Sodium:solute symporter family; Region: SSF; cl00456 983548006049 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 983548006050 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 983548006051 FtsX-like permease family; Region: FtsX; pfam02687 983548006052 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 983548006053 motif 1; other site 983548006054 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 983548006055 active site 983548006056 dimer interface [polypeptide binding]; other site 983548006057 motif 2; other site 983548006058 motif 3; other site 983548006059 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 983548006060 anticodon binding site; other site 983548006061 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 983548006062 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 983548006063 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 983548006064 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 983548006065 conserved hypothetical protein; Region: TIGR02231 983548006066 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548006067 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548006068 conserved hypothetical protein; Region: TIGR02231 983548006069 Protein of unknown function, DUF393; Region: DUF393; cl01136 983548006070 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 983548006071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548006072 Walker A/P-loop; other site 983548006073 ATP binding site [chemical binding]; other site 983548006074 Q-loop/lid; other site 983548006075 ABC transporter signature motif; other site 983548006076 Walker B; other site 983548006077 D-loop; other site 983548006078 H-loop/switch region; other site 983548006079 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 983548006080 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 983548006081 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 983548006082 Polyphosphate kinase; Region: PP_kinase; pfam02503 983548006083 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 983548006084 domain interface [polypeptide binding]; other site 983548006085 active site 983548006086 catalytic site [active] 983548006087 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 983548006088 domain interface [polypeptide binding]; other site 983548006089 active site 983548006090 catalytic site [active] 983548006091 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 983548006092 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two...; Region: SUI1_eIF1; cl00229 983548006093 Predicted RNA interaction site [nucleotide binding]; other site 983548006094 putative binding site; other site 983548006095 Mutations affecting start-site selection; other site 983548006096 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 983548006097 flavanone-3-hydroxylase; Provisional; Region: PLN03176 983548006098 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 983548006099 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 983548006100 NAD(P) binding site [chemical binding]; other site 983548006101 putative active site [active] 983548006102 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548006103 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 983548006104 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548006105 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 983548006106 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 983548006107 tetramer interface [polypeptide binding]; other site 983548006108 TPP-binding site [chemical binding]; other site 983548006109 heterodimer interface [polypeptide binding]; other site 983548006110 phosphorylation loop region [posttranslational modification] 983548006111 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 983548006112 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 983548006113 alpha subunit interface [polypeptide binding]; other site 983548006114 TPP binding site [chemical binding]; other site 983548006115 heterodimer interface [polypeptide binding]; other site 983548006116 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983548006117 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548006118 ligand binding site [chemical binding]; other site 983548006119 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 983548006120 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 983548006121 S-adenosylmethionine binding site [chemical binding]; other site 983548006122 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 983548006123 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical...; Region: CHS_like; cd00831 983548006124 malonyl-CoA binding site [chemical binding]; other site 983548006125 dimer interface [polypeptide binding]; other site 983548006126 active site 983548006127 product binding site; other site 983548006128 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983548006129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006130 NAD(P) binding site [chemical binding]; other site 983548006131 active site 983548006132 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid...; Region: FabA_FabZ; cd00493 983548006133 active site 2 [active] 983548006134 dimer interface [polypeptide binding]; other site 983548006135 active site 1 [active] 983548006136 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 983548006137 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 983548006138 dimer interface [polypeptide binding]; other site 983548006139 active site 983548006140 Phosphopantetheine attachment site; Region: PP-binding; cl09936 983548006141 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 983548006142 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 983548006143 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 983548006144 ATP binding site [chemical binding]; other site 983548006145 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both...; Region: TOPRIM_TopoIIA_like; cd01030 983548006146 active site 983548006147 putative metal-binding site [ion binding]; other site 983548006148 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 983548006149 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 983548006150 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cl00148 983548006151 CAP-like domain; other site 983548006152 Active site [active] 983548006153 primary dimer interface [polypeptide binding]; other site 983548006154 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 983548006155 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 983548006156 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 983548006157 Response regulator receiver domain; Region: Response_reg; pfam00072 983548006158 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 983548006159 active site 983548006160 phosphorylation site [posttranslational modification] 983548006161 intermolecular recognition site; other site 983548006162 dimerization interface [polypeptide binding]; other site 983548006163 PglZ domain; Region: PglZ; pfam08665 983548006164 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 983548006165 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548006166 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 983548006167 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 983548006168 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-2,3-...; Region: LbH_LpxD; cd03352 983548006169 trimer interface [polypeptide binding]; other site 983548006170 active site 983548006171 UDP-GlcNAc binding site [chemical binding]; other site 983548006172 lipid binding site [chemical binding]; lipid-binding site 983548006173 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 983548006174 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 983548006175 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 983548006176 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 983548006177 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...; Region: LbH_UDP-GlcNAc_AT; cd03351 983548006178 active site 983548006179 elongation factor P; Validated; Region: PRK00529 983548006180 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 983548006181 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 983548006182 RNA binding site [nucleotide binding]; other site 983548006183 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 983548006184 RNA binding site [nucleotide binding]; other site 983548006185 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 983548006186 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 983548006187 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-2,3-...; Region: LbH_LpxD; cd03352 983548006188 trimer interface [polypeptide binding]; other site 983548006189 active site 983548006190 UDP-GlcNAc binding site [chemical binding]; other site 983548006191 lipid binding site [chemical binding]; lipid-binding site 983548006192 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 983548006193 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 983548006194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006195 CoA-ligase; Region: Ligase_CoA; pfam00549 983548006196 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 983548006197 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 983548006198 NAD(P) binding site [chemical binding]; other site 983548006199 homotetramer interface [polypeptide binding]; other site 983548006200 homodimer interface [polypeptide binding]; other site 983548006201 active site 983548006202 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 983548006203 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_1; cd03400 983548006204 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 983548006205 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 983548006206 Uncharacterized conserved protein [Function unknown]; Region: COG3743 983548006207 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 983548006208 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548006209 ligand binding site [chemical binding]; other site 983548006210 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 983548006211 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 983548006212 HisG, C-terminal domain; Region: HisG_C; cl06867 983548006213 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 983548006214 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 983548006215 NAD binding site [chemical binding]; other site 983548006216 dimerization interface [polypeptide binding]; other site 983548006217 product binding site; other site 983548006218 substrate binding site [chemical binding]; other site 983548006219 zinc binding site [ion binding]; other site 983548006220 catalytic residues [active] 983548006221 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 983548006222 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 983548006223 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548006224 homodimer interface [polypeptide binding]; other site 983548006225 catalytic residue [active] 983548006226 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 983548006227 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 983548006228 active site 983548006229 motif I; other site 983548006230 motif II; other site 983548006231 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 983548006232 putative active site pocket [active] 983548006233 4-fold oligomerization interface [polypeptide binding]; other site 983548006234 metal binding residues [ion binding]; metal-binding site 983548006235 3-fold/trimer interface [polypeptide binding]; other site 983548006236 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 983548006237 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 983548006238 putative active site [active] 983548006239 oxyanion strand; other site 983548006240 catalytic triad [active] 983548006241 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 983548006242 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 983548006243 catalytic residues [active] 983548006244 DinB superfamily; Region: DinB_2; cl00986 983548006245 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548006246 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548006247 Cupin domain; Region: Cupin_2; cl09118 983548006248 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 983548006249 Zonular occludens toxin (Zot); Region: Zot; cl01706 983548006250 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 983548006251 homotrimer interaction site [polypeptide binding]; other site 983548006252 putative active site [active] 983548006253 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 983548006254 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 983548006255 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 983548006256 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548006257 Walker A/P-loop; other site 983548006258 ATP binding site [chemical binding]; other site 983548006259 Q-loop/lid; other site 983548006260 ABC transporter signature motif; other site 983548006261 Walker B; other site 983548006262 D-loop; other site 983548006263 H-loop/switch region; other site 983548006264 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 983548006265 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 983548006266 Preprotein translocase subunit; Region: YajC; cl00806 983548006267 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 983548006268 E-class dimer interface [polypeptide binding]; other site 983548006269 P-class dimer interface [polypeptide binding]; other site 983548006270 active site 983548006271 Cu2+ binding site [ion binding]; other site 983548006272 Zn2+ binding site [ion binding]; other site 983548006273 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 983548006274 OsmC-like protein; Region: OsmC; cl00767 983548006275 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 983548006276 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 983548006277 Ycf48-like protein; Provisional; Region: PRK13684 983548006278 Ycf48-like protein; Provisional; Region: PRK13684 983548006279 Fasciclin domain; Region: Fasciclin; cl02663 983548006280 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 983548006281 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 983548006282 metal ion-dependent adhesion site (MIDAS); other site 983548006283 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 983548006284 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 983548006285 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 983548006286 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 983548006287 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 983548006288 NAD+ binding site [chemical binding]; other site 983548006289 substrate binding site [chemical binding]; other site 983548006290 Zn binding site [ion binding]; other site 983548006291 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548006292 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 983548006293 putative catalytic residues [active] 983548006294 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548006295 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 983548006296 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 983548006297 ATP binding site [chemical binding]; other site 983548006298 Mg++ binding site [ion binding]; other site 983548006299 motif III; other site 983548006300 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 983548006301 nucleotide binding region [chemical binding]; other site 983548006302 ATP-binding site [chemical binding]; other site 983548006303 DbpA RNA binding domain; Region: DbpA; pfam03880 983548006304 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 Ham1-...; Region: HAM1; cd00515 983548006305 active site 983548006306 dimerization interface [polypeptide binding]; other site 983548006307 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 983548006308 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 983548006309 nicotinate-nucleotide diphosphorylase (carboxylating); Region: PLN02716 983548006310 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 983548006311 dimerization interface [polypeptide binding]; other site 983548006312 active site 983548006313 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 983548006314 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 983548006315 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 983548006316 primosome assembly protein PriA; Validated; Region: PRK05580 983548006317 primosome assembly protein PriA; Validated; Region: PRK05580 983548006318 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 983548006319 ATP binding site [chemical binding]; other site 983548006320 putative Mg++ binding site [ion binding]; other site 983548006321 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; cl14882 983548006322 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983548006323 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 983548006324 active site 983548006325 phosphorylation site [posttranslational modification] 983548006326 intermolecular recognition site; other site 983548006327 dimerization interface [polypeptide binding]; other site 983548006328 LytTr DNA-binding domain; Region: LytTR; cl04498 983548006329 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 983548006330 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 983548006331 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 983548006332 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 983548006333 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 983548006334 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 983548006335 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; cl14882 983548006336 ATP binding site [chemical binding]; other site 983548006337 putative Mg++ binding site [ion binding]; other site 983548006338 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 983548006339 nucleotide binding region [chemical binding]; other site 983548006340 ATP-binding site [chemical binding]; other site 983548006341 DbpA RNA binding domain; Region: DbpA; pfam03880 983548006342 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548006343 Haemolysin-III related; Region: HlyIII; cl03831 983548006344 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...; Region: TlpA_like_family; cd02966 983548006345 catalytic residues [active] 983548006346 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 983548006347 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548006348 ligand binding site [chemical binding]; other site 983548006349 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548006350 ligand binding site [chemical binding]; other site 983548006351 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 983548006352 Clp amino terminal domain; Region: Clp_N; pfam02861 983548006353 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...; Region: AAA; cd00009 983548006354 Walker A motif; other site 983548006355 ATP binding site [chemical binding]; other site 983548006356 Walker B motif; other site 983548006357 arginine finger; other site 983548006358 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...; Region: AAA; cd00009 983548006359 Walker A motif; other site 983548006360 ATP binding site [chemical binding]; other site 983548006361 Walker B motif; other site 983548006362 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 983548006363 Protein of unknown function (DUF2847); Region: DUF2847; cl12579 983548006364 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 983548006365 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 983548006366 DNA-binding site [nucleotide binding]; DNA binding site 983548006367 RNA-binding motif; other site 983548006368 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 983548006369 putative active site [active] 983548006370 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548006371 heme pocket [chemical binding]; other site 983548006372 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 983548006373 ATP binding site [chemical binding]; other site 983548006374 Mg2+ binding site [ion binding]; other site 983548006375 G-X-G motif; other site 983548006376 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...; Region: DnaJ; cd06257 983548006377 HSP70 interaction site [polypeptide binding]; other site 983548006378 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 983548006379 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983548006380 ATP binding site [chemical binding]; other site 983548006381 Mg++ binding site [ion binding]; other site 983548006382 motif III; other site 983548006383 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 983548006384 nucleotide binding region [chemical binding]; other site 983548006385 ATP-binding site [chemical binding]; other site 983548006386 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among Gram-...; Region: OMPLA; cl00248 983548006387 substrate binding site [chemical binding]; other site 983548006388 dimerization interface [polypeptide binding]; other site 983548006389 active site 983548006390 calcium binding site [ion binding]; other site 983548006391 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 983548006392 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 983548006393 active site 983548006394 Zn binding site [ion binding]; other site 983548006395 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983548006396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006397 NAD(P) binding site [chemical binding]; other site 983548006398 active site 983548006399 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 983548006400 active site 983548006401 catalytic triad [active] 983548006402 oxyanion hole [active] 983548006403 switch loop; other site 983548006404 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 983548006405 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 983548006406 Walker A/P-loop; other site 983548006407 ATP binding site [chemical binding]; other site 983548006408 Q-loop/lid; other site 983548006409 ABC transporter signature motif; other site 983548006410 Walker B; other site 983548006411 D-loop; other site 983548006412 H-loop/switch region; other site 983548006413 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 983548006414 FtsX-like permease family; Region: FtsX; pfam02687 983548006415 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 983548006416 potential catalytic triad [active] 983548006417 conserved cys residue [active] 983548006418 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 983548006419 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 983548006420 dimer interface [polypeptide binding]; other site 983548006421 active site 983548006422 metal binding site [ion binding]; metal-binding site 983548006423 Prostaglandin dehydrogenases; Region: PGDH; cd05288 983548006424 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 983548006425 NAD(P) binding site [chemical binding]; other site 983548006426 substrate binding site [chemical binding]; other site 983548006427 dimer interface [polypeptide binding]; other site 983548006428 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 983548006429 dimer interface [polypeptide binding]; other site 983548006430 FMN binding site [chemical binding]; other site 983548006431 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 983548006432 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 983548006433 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 983548006434 EamA-like transporter family; Region: EamA; cl01037 983548006435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006436 NAD(P) binding site [chemical binding]; other site 983548006437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006438 active site 983548006439 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 983548006440 DNA-binding site [nucleotide binding]; DNA binding site 983548006441 RNA-binding motif; other site 983548006442 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- (beta-...; Region: TMP_TenI; cd00564 983548006443 thiamine phosphate binding site [chemical binding]; other site 983548006444 active site 983548006445 pyrophosphate binding site [ion binding]; other site 983548006446 Fasciclin domain; Region: Fasciclin; cl02663 983548006447 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 983548006448 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; cl09110 983548006449 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; cl09110 983548006450 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 983548006451 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 983548006452 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...; Region: ThiF_MoeB_HesA_family; cd00757 983548006453 ATP binding site [chemical binding]; other site 983548006454 substrate interface [chemical binding]; other site 983548006455 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 983548006456 active site residue [active] 983548006457 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 983548006458 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 983548006459 FeS/SAM binding site; other site 983548006460 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 983548006461 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 983548006462 ThiS interaction site; other site 983548006463 putative active site [active] 983548006464 tetramer interface [polypeptide binding]; other site 983548006465 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- (beta-...; Region: TMP_TenI; cd00564 983548006466 thiamine phosphate binding site [chemical binding]; other site 983548006467 active site 983548006468 pyrophosphate binding site [ion binding]; other site 983548006469 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 983548006470 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 983548006471 substrate binding site [chemical binding]; other site 983548006472 dimer interface [polypeptide binding]; other site 983548006473 ATP binding site [chemical binding]; other site 983548006474 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- (beta-...; Region: TMP_TenI; cd00564 983548006475 thiamine phosphate binding site [chemical binding]; other site 983548006476 active site 983548006477 pyrophosphate binding site [ion binding]; other site 983548006478 ThiC family; Region: ThiC; cl08031 983548006479 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 983548006480 thiS-thiF/thiG interaction site; other site 983548006481 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 983548006482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 983548006483 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 trans-...; Region: HisKA; cd00082 983548006484 dimer interface [polypeptide binding]; other site 983548006485 phosphorylation site [posttranslational modification] 983548006486 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 983548006487 ATP binding site [chemical binding]; other site 983548006488 Mg2+ binding site [ion binding]; other site 983548006489 G-X-G motif; other site 983548006490 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 983548006491 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 983548006492 binding surface 983548006493 TPR motif; other site 983548006494 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 trans-...; Region: HisKA; cd00082 983548006495 dimer interface [polypeptide binding]; other site 983548006496 phosphorylation site [posttranslational modification] 983548006497 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 983548006498 ATP binding site [chemical binding]; other site 983548006499 Mg2+ binding site [ion binding]; other site 983548006500 G-X-G motif; other site 983548006501 Response regulator receiver domain; Region: Response_reg; pfam00072 983548006502 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 983548006503 active site 983548006504 phosphorylation site [posttranslational modification] 983548006505 intermolecular recognition site; other site 983548006506 dimerization interface [polypeptide binding]; other site 983548006507 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 983548006508 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 983548006509 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 983548006510 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 983548006511 nucleoside/Zn binding site; other site 983548006512 dimer interface [polypeptide binding]; other site 983548006513 catalytic motif [active] 983548006514 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 983548006515 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 983548006516 NAD(P) binding site [chemical binding]; other site 983548006517 catalytic residues [active] 983548006518 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 983548006519 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics...; Region: rDP_like; cd01301 983548006520 active site 983548006521 dimer interface [polypeptide binding]; other site 983548006522 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 983548006523 ATP binding site [chemical binding]; other site 983548006524 putative Mg++ binding site [ion binding]; other site 983548006525 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 983548006526 nucleotide binding region [chemical binding]; other site 983548006527 ATP-binding site [chemical binding]; other site 983548006528 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 983548006529 homodecamer interface [polypeptide binding]; other site 983548006530 GTP cyclohydrolase I; Provisional; Region: PLN03044 983548006531 active site 983548006532 putative catalytic site residues [active] 983548006533 zinc binding site [ion binding]; other site 983548006534 GTP-CH-I/GFRP interaction surface; other site 983548006535 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 983548006536 putative ligand binding site [chemical binding]; other site 983548006537 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 983548006538 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 983548006539 Walker A/P-loop; other site 983548006540 ATP binding site [chemical binding]; other site 983548006541 Q-loop/lid; other site 983548006542 ABC transporter signature motif; other site 983548006543 Walker B; other site 983548006544 D-loop; other site 983548006545 H-loop/switch region; other site 983548006546 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 983548006547 GAF domain; Region: GAF; cl00853 983548006548 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 trans-...; Region: HisKA; cd00082 983548006549 dimer interface [polypeptide binding]; other site 983548006550 phosphorylation site [posttranslational modification] 983548006551 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 983548006552 ATP binding site [chemical binding]; other site 983548006553 Mg2+ binding site [ion binding]; other site 983548006554 G-X-G motif; other site 983548006555 Aerotolerance regulator N-terminal; Region: BatA; cl06567 983548006556 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 983548006557 dihydroorotase; Validated; Region: pyrC; PRK09357 983548006558 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 983548006559 active site 983548006560 Chloroplast import component protein (Tic20); Region: Tic20; cl09892 983548006561 Predicted esterase [General function prediction only]; Region: COG0400 983548006562 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548006563 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548006564 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...; Region: PRX_BCP; cd03017 983548006565 catalytic triad [active] 983548006566 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 983548006567 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 983548006568 minor groove reading motif; other site 983548006569 helix-hairpin-helix signature motif; other site 983548006570 substrate binding pocket [chemical binding]; other site 983548006571 active site 983548006572 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 983548006573 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548006574 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...; Region: Sigma70_r4; cd06171 983548006575 DNA binding residues [nucleotide binding] 983548006576 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 983548006577 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 983548006578 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 983548006579 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 983548006580 IKI3 family; Region: IKI3; pfam04762 983548006581 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 983548006582 putative ligand binding site [chemical binding]; other site 983548006583 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 983548006584 putative metal binding site [ion binding]; other site 983548006585 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 983548006586 Interdomain contacts; other site 983548006587 Cytokine receptor motif; other site 983548006588 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 983548006589 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 983548006590 metal binding site [ion binding]; metal-binding site 983548006591 putative dimer interface [polypeptide binding]; other site 983548006592 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 983548006593 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548006594 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 983548006595 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 983548006596 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 983548006597 metal binding site [ion binding]; metal-binding site 983548006598 putative dimer interface [polypeptide binding]; other site 983548006599 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548006600 Peptidase family M48; Region: Peptidase_M48; cl12018 983548006601 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 983548006602 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 983548006603 EamA-like transporter family; Region: EamA; cl01037 983548006604 EamA-like transporter family; Region: EamA; cl01037 983548006605 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 983548006606 ligand binding site [chemical binding]; other site 983548006607 flexible hinge region; other site 983548006608 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 983548006609 Di-iron ligands [ion binding]; other site 983548006610 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 983548006611 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 983548006612 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 983548006613 Predicted dehydrogenase [General function prediction only]; Region: COG0579 983548006614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548006615 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 983548006616 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 983548006617 Surface antigen; Region: Bac_surface_Ag; cl03097 983548006618 Family of unknown function (DUF490); Region: DUF490; pfam04357 983548006619 Fasciclin domain; Region: Fasciclin; cl02663 983548006620 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 983548006621 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 983548006622 putative NAD(P) binding site [chemical binding]; other site 983548006623 putative substrate binding site [chemical binding]; other site 983548006624 catalytic Zn binding site [ion binding]; other site 983548006625 structural Zn binding site [ion binding]; other site 983548006626 dimer interface [polypeptide binding]; other site 983548006627 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 983548006628 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 983548006629 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 983548006630 FMN binding site [chemical binding]; other site 983548006631 active site 983548006632 substrate binding site [chemical binding]; other site 983548006633 catalytic residue [active] 983548006634 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...; Region: EFh; cl09501 983548006635 Ca2+ binding site [ion binding]; other site 983548006636 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 983548006637 active site 983548006638 substrate binding site [chemical binding]; other site 983548006639 catalytic site [active] 983548006640 Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]; Region: UvrC; COG0322 983548006641 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 983548006642 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548006643 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 983548006644 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 983548006645 active site 983548006646 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 983548006647 DNA-binding site [nucleotide binding]; DNA binding site 983548006648 RNA-binding motif; other site 983548006649 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 983548006650 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 983548006651 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 983548006652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548006653 Walker A/P-loop; other site 983548006654 ATP binding site [chemical binding]; other site 983548006655 Q-loop/lid; other site 983548006656 ABC transporter signature motif; other site 983548006657 Walker B; other site 983548006658 D-loop; other site 983548006659 H-loop/switch region; other site 983548006660 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 983548006661 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 983548006662 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 983548006663 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548006664 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 983548006665 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...; Region: Sigma70_r4; cd06171 983548006666 DNA binding residues [nucleotide binding] 983548006667 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 983548006668 16S rRNA methyltransferase B; Provisional; Region: PRK14902 983548006669 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 983548006670 Uncharacterized conserved protein [Function unknown]; Region: COG1572 983548006671 CARDB; Region: CARDB; pfam07705 983548006672 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 983548006673 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 983548006674 dimerization interface [polypeptide binding]; other site 983548006675 ATP binding site [chemical binding]; other site 983548006676 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 983548006677 dimerization interface [polypeptide binding]; other site 983548006678 ATP binding site [chemical binding]; other site 983548006679 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 983548006680 putative active site [active] 983548006681 catalytic triad [active] 983548006682 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548006683 active site 983548006684 Zn-binding site [ion binding]; other site 983548006685 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 983548006686 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 983548006687 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548006688 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 983548006689 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 983548006690 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 983548006691 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 983548006692 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 983548006693 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 983548006694 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 983548006695 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983548006696 Zn binding site [ion binding]; other site 983548006697 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 983548006698 tetramer interface [polypeptide binding]; other site 983548006699 TPP-binding site [chemical binding]; other site 983548006700 heterodimer interface [polypeptide binding]; other site 983548006701 phosphorylation loop region [posttranslational modification] 983548006702 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 983548006703 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 983548006704 PYR/PP interface [polypeptide binding]; other site 983548006705 dimer interface [polypeptide binding]; other site 983548006706 TPP binding site [chemical binding]; other site 983548006707 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 983548006708 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 983548006709 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 983548006710 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 983548006711 Zn2+ binding site [ion binding]; other site 983548006712 Mg2+ binding site [ion binding]; other site 983548006713 acetyl-CoA C-acetyltransferase; Region: PLN02644 983548006714 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 983548006715 dimer interface [polypeptide binding]; other site 983548006716 active site 983548006717 NlpC/P60 family; Region: NLPC_P60; cl11438 983548006718 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 983548006719 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 983548006720 binding surface 983548006721 TPR motif; other site 983548006722 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 983548006723 binding surface 983548006724 TPR motif; other site 983548006725 DNA gyrase subunit A; Validated; Region: PRK05560 983548006726 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 983548006727 CAP-like domain; other site 983548006728 Active site [active] 983548006729 primary dimer interface [polypeptide binding]; other site 983548006730 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006731 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006732 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006733 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006734 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006735 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 983548006736 Clp protease ATP binding subunit; Region: clpC; CHL00095 983548006737 Clp amino terminal domain; Region: Clp_N; pfam02861 983548006738 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...; Region: AAA; cd00009 983548006739 Walker A motif; other site 983548006740 ATP binding site [chemical binding]; other site 983548006741 Walker B motif; other site 983548006742 arginine finger; other site 983548006743 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...; Region: AAA; cd00009 983548006744 Walker A motif; other site 983548006745 ATP binding site [chemical binding]; other site 983548006746 Walker B motif; other site 983548006747 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 983548006748 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 983548006749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006750 NAD(P) binding site [chemical binding]; other site 983548006751 active site 983548006752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 983548006753 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 983548006754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 983548006755 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 983548006756 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 983548006757 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 983548006758 G1 box; other site 983548006759 GTP/Mg2+ binding site [chemical binding]; other site 983548006760 Switch I region; other site 983548006761 G2 box; other site 983548006762 Switch II region; other site 983548006763 G3 box; other site 983548006764 G4 box; other site 983548006765 G5 box; other site 983548006766 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 983548006767 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 983548006768 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983548006769 putative catalytic site [active] 983548006770 putative metal binding site [ion binding]; other site 983548006771 putative phosphate binding site [ion binding]; other site 983548006772 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 983548006773 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 983548006774 active site 983548006775 FMN binding site [chemical binding]; other site 983548006776 substrate binding site [chemical binding]; other site 983548006777 homotetramer interface [polypeptide binding]; other site 983548006778 catalytic residue [active] 983548006779 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 983548006780 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 983548006781 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 983548006782 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 983548006783 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983548006784 SLBB domain; Region: SLBB; pfam10531 983548006785 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 983548006786 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 983548006787 NAD(P) binding site [chemical binding]; other site 983548006788 homodimer interface [polypeptide binding]; other site 983548006789 substrate binding site [chemical binding]; other site 983548006790 active site 983548006791 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983548006792 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 983548006793 inhibitor-cofactor binding pocket; inhibition site 983548006794 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548006795 catalytic residue [active] 983548006796 Bacterial sugar transferase; Region: Bac_transf; cl00939 983548006797 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 983548006798 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 983548006799 putative trimer interface [polypeptide binding]; other site 983548006800 putative CoA binding site [chemical binding]; other site 983548006801 Bacterial sugar transferase; Region: Bac_transf; cl00939 983548006802 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 983548006803 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548006804 putative ADP-binding pocket [chemical binding]; other site 983548006805 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548006806 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 983548006807 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 983548006808 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues...; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 983548006809 active site 983548006810 homodimer interface [polypeptide binding]; other site 983548006811 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006812 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 983548006813 NAD(P) binding site [chemical binding]; other site 983548006814 active site 983548006815 Cupin domain; Region: Cupin_2; cl09118 983548006816 Cupin domain; Region: Cupin_2; cl09118 983548006817 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 983548006818 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 983548006819 NAD(P) binding site [chemical binding]; other site 983548006820 homodimer interface [polypeptide binding]; other site 983548006821 substrate binding site [chemical binding]; other site 983548006822 active site 983548006823 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 983548006824 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the 6-...; Region: LbH_MAT_like; cd04647 983548006825 trimer interface [polypeptide binding]; other site 983548006826 CoA binding site [chemical binding]; other site 983548006827 active site 983548006828 FOG: CBS domain [General function prediction only]; Region: COG0517 983548006829 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-...; Region: CBS_pair; cl10010 983548006830 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 983548006831 Substrate binding site [chemical binding]; other site 983548006832 metal binding site [ion binding]; metal-binding site 983548006833 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 983548006834 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 983548006835 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548006836 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548006837 hypothetical protein; Provisional; Region: PRK07206 983548006838 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548006839 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 983548006840 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 983548006841 inhibitor-cofactor binding pocket; inhibition site 983548006842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548006843 catalytic residue [active] 983548006844 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 983548006845 MatE; Region: MatE; pfam01554 983548006846 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 983548006847 NAD(P) binding site [chemical binding]; other site 983548006848 homodimer interface [polypeptide binding]; other site 983548006849 substrate binding site [chemical binding]; other site 983548006850 active site 983548006851 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983548006852 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 983548006853 NAD binding site [chemical binding]; other site 983548006854 putative substrate binding site 2 [chemical binding]; other site 983548006855 putative substrate binding site 1 [chemical binding]; other site 983548006856 active site 983548006857 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 983548006858 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 983548006859 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 983548006860 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 983548006861 SLBB domain; Region: SLBB; pfam10531 983548006862 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 983548006863 SLBB-domain like (DUF1017); Region: DUF1017; pfam06251 983548006864 probable UDP-glucose 6-dehydrogenase; Region: PLN02353 983548006865 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 983548006866 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 983548006867 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 983548006868 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 983548006869 putative NAD(P) binding site [chemical binding]; other site 983548006870 active site 983548006871 putative substrate binding site [chemical binding]; other site 983548006872 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 983548006873 active site 983548006874 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 983548006875 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 983548006876 NADP binding site [chemical binding]; other site 983548006877 active site 983548006878 putative substrate binding site [chemical binding]; other site 983548006879 Cupin domain; Region: Cupin_2; cl09118 983548006880 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 983548006881 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 983548006882 substrate binding site [chemical binding]; other site 983548006883 tetramer interface [polypeptide binding]; other site 983548006884 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 983548006885 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 983548006886 NAD binding site [chemical binding]; other site 983548006887 substrate binding site [chemical binding]; other site 983548006888 homodimer interface [polypeptide binding]; other site 983548006889 active site 983548006890 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 983548006891 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 983548006892 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 983548006893 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 983548006894 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 983548006895 NAD binding site [chemical binding]; other site 983548006896 substrate binding site [chemical binding]; other site 983548006897 homodimer interface [polypeptide binding]; other site 983548006898 active site 983548006899 Ferritin-like domain; Region: Ferritin; pfam00210 983548006900 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 983548006901 dimerization interface [polypeptide binding]; other site 983548006902 DPS ferroxidase diiron center [ion binding]; other site 983548006903 ion pore; other site 983548006904 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 983548006905 putative acyl-acceptor binding pocket; other site 983548006906 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 983548006907 Ligand binding site [chemical binding]; other site 983548006908 oligomer interface [polypeptide binding]; other site 983548006909 RecD/TraA family; Region: recD_rel; TIGR01448 983548006910 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 983548006911 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 983548006912 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 983548006913 S-adenosylmethionine binding site [chemical binding]; other site 983548006914 phosphoenolpyruvate carboxylase; Provisional; Region: PTZ00398 983548006915 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 983548006916 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548006917 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548006918 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 983548006919 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 983548006920 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 983548006921 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 983548006922 Domain of unknown function DUF20; Region: UPF0118; cl00465 983548006923 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 983548006924 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 983548006925 S-adenosylmethionine binding site [chemical binding]; other site 983548006926 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 983548006927 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein...; Region: CSP_CDS; cd04458 983548006928 DNA-binding site [nucleotide binding]; DNA binding site 983548006929 RNA-binding motif; other site 983548006930 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 983548006931 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 983548006932 RNA binding surface [nucleotide binding]; other site 983548006933 PseudoU_synth_RluF_like: Pseudouridine synthase, Escherichia coli RluF like. This group is comprised of bacterial proteins similar to Escherichia coli RluF. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_RluF; cd02554 983548006934 probable active site [active] 983548006935 Protein of unknown function (DUF541); Region: SIMPL; cl01077 983548006936 Rhomboid family; Region: Rhomboid; cl11446 983548006937 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 983548006938 putative acyl-acceptor binding pocket; other site 983548006939 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 983548006940 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 983548006941 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548006942 catalytic residue [active] 983548006943 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 983548006944 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)...; Region: phosphohexomutase; cl03757 983548006945 active site 983548006946 substrate binding site [chemical binding]; other site 983548006947 metal binding site [ion binding]; metal-binding site 983548006948 Protein of unknown function, DUF479; Region: DUF479; cl01203 983548006949 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 983548006950 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 983548006951 Beta-lactamase; Region: Beta-lactamase; cl01009 983548006952 TLC ATP/ADP transporter; Region: TLC; cl03940 983548006953 Beta-lactamase; Region: Beta-lactamase; cl01009 983548006954 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 983548006955 GAF domain; Region: GAF; cl00853 983548006956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 983548006957 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 983548006958 ATP binding site [chemical binding]; other site 983548006959 Mg2+ binding site [ion binding]; other site 983548006960 G-X-G motif; other site 983548006961 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548006962 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 983548006963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548006964 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 983548006965 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 983548006966 substrate binding site [chemical binding]; other site 983548006967 oxyanion hole (OAH) forming residues; other site 983548006968 trimer interface [polypeptide binding]; other site 983548006969 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 983548006970 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 983548006971 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 983548006972 dimer interface [polypeptide binding]; other site 983548006973 active site 983548006974 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 983548006975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 983548006976 active site 983548006977 pyruvate carboxylase; Reviewed; Region: PRK12999 983548006978 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 983548006979 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 983548006980 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 983548006981 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 983548006982 active site 983548006983 catalytic residues [active] 983548006984 metal binding site [ion binding]; metal-binding site 983548006985 homodimer binding site [polypeptide binding]; other site 983548006986 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 983548006987 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 983548006988 carboxyltransferase (CT) interaction site; other site 983548006989 biotinylation site [posttranslational modification]; other site 983548006990 Predicted HKD family nuclease [DNA replication, recombination, and repair]; Region: COG3886 983548006991 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 983548006992 putative homodimer interface [polypeptide binding]; other site 983548006993 putative active site [active] 983548006994 catalytic site [active] 983548006995 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 983548006996 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 983548006997 ATP binding site [chemical binding]; other site 983548006998 putative Mg++ binding site [ion binding]; other site 983548006999 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 983548007000 nucleotide binding region [chemical binding]; other site 983548007001 ATP-binding site [chemical binding]; other site 983548007002 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 983548007003 Predicted transcriptional regulator [Transcription]; Region: COG2932 983548007004 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 (...; Region: S24_LexA-like; cd06529 983548007005 Catalytic site [active] 983548007006 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 983548007007 active site 983548007008 8-oxo-dGMP binding site [chemical binding]; other site 983548007009 nudix motif; other site 983548007010 metal binding site [ion binding]; metal-binding site 983548007011 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 983548007012 putative substrate translocation pore; other site 983548007013 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983548007014 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...; Region: DUS_like_FMN; cd02801 983548007015 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 983548007016 FMN binding site [chemical binding]; other site 983548007017 active site 983548007018 catalytic residues [active] 983548007019 substrate binding site [chemical binding]; other site 983548007020 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548007021 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548007022 M28, and M42; Region: Zinc_peptidase_like; cl14876 983548007023 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain...; Region: PA; cl08238 983548007024 PA/protease or protease-like domain interface [polypeptide binding]; other site 983548007025 M28, and M42; Region: Zinc_peptidase_like; cl14876 983548007026 metal binding site [ion binding]; metal-binding site 983548007027 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 983548007028 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548007029 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 983548007030 Radical SAM; Region: Elp3; smart00729 983548007031 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; cl14056 983548007032 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 983548007033 active site 983548007034 catalytic residues [active] 983548007035 metal binding site [ion binding]; metal-binding site 983548007036 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 983548007037 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548007038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548007039 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 983548007040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548007041 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 983548007042 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 983548007043 6-phosphofructokinase; Provisional; Region: PRK03202 983548007044 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases...; Region: PFK; cl00204 983548007045 active site 983548007046 ADP/pyrophosphate binding site [chemical binding]; other site 983548007047 dimerization interface [polypeptide binding]; other site 983548007048 allosteric effector site; other site 983548007049 fructose-1,6-bisphosphate binding site; other site 983548007050 Family of unknown function (DUF490); Region: DUF490; pfam04357 983548007051 Family of unknown function (DUF490); Region: DUF490; pfam04357 983548007052 UGMP family protein; Validated; Region: PRK09604 983548007053 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 983548007054 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 983548007055 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 983548007056 exopolyphosphatase; Region: exo_poly_only; TIGR03706 983548007057 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 983548007058 Polyphosphate kinase; Region: PP_kinase; pfam02503 983548007059 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 983548007060 domain interface [polypeptide binding]; other site 983548007061 active site 983548007062 catalytic site [active] 983548007063 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 983548007064 domain interface [polypeptide binding]; other site 983548007065 active site 983548007066 catalytic site [active] 983548007067 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 983548007068 catalytic core [active] 983548007069 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 983548007070 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 983548007071 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 983548007072 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548007073 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 983548007074 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 983548007075 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 983548007076 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548007077 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 983548007078 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 983548007079 LysE type translocator; Region: LysE; cl00565 983548007080 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...; Region: DHOD_2_like; cd04738 983548007081 quinone interaction residues [chemical binding]; other site 983548007082 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 983548007083 active site 983548007084 catalytic residues [active] 983548007085 FMN binding site [chemical binding]; other site 983548007086 substrate binding site [chemical binding]; other site 983548007087 peptidase T; Region: peptidase-T; TIGR01882 983548007088 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 983548007089 metal binding site [ion binding]; metal-binding site 983548007090 dimer interface [polypeptide binding]; other site 983548007091 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 983548007092 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 983548007093 active site 983548007094 phosphorylation site [posttranslational modification] 983548007095 intermolecular recognition site; other site 983548007096 dimerization interface [polypeptide binding]; other site 983548007097 LytTr DNA-binding domain; Region: LytTR; cl04498 983548007098 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 983548007099 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...; Region: metallo-dependent_hydrolases; cl00281 983548007100 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...; Region: metallo-dependent_hydrolases; cl00281 983548007101 active site 983548007102 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 983548007103 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...; Region: AAA; cd00009 983548007104 Walker A motif; other site 983548007105 ATP binding site [chemical binding]; other site 983548007106 Walker B motif; other site 983548007107 arginine finger; other site 983548007108 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 983548007109 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 983548007110 active site 983548007111 dinuclear metal binding site [ion binding]; other site 983548007112 dimerization interface [polypeptide binding]; other site 983548007113 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...; Region: TlpA_like_family; cd02966 983548007114 catalytic residues [active] 983548007115 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 983548007116 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 983548007117 ligand binding site [chemical binding]; other site 983548007118 flexible hinge region; other site 983548007119 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 983548007120 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 983548007121 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548007122 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 983548007123 catalytic motif [active] 983548007124 Catalytic residue [active] 983548007125 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 983548007126 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 983548007127 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 983548007128 putative active site [active] 983548007129 putative NTP binding site [chemical binding]; other site 983548007130 putative nucleic acid binding site [nucleotide binding]; other site 983548007131 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...; Region: TlpA_like_family; cd02966 983548007132 catalytic residues [active] 983548007133 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 983548007134 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 983548007135 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 983548007136 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 983548007137 putative active site [active] 983548007138 catalytic site [active] 983548007139 putative metal binding site [ion binding]; other site 983548007140 oligomer interface [polypeptide binding]; other site 983548007141 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 983548007142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 983548007143 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 983548007144 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 983548007145 Zn binding site [ion binding]; other site 983548007146 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 983548007147 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 four-...; Region: RecG_wedge_OBF; cd04488 983548007148 ssDNA binding site; other site 983548007149 generic binding surface II; other site 983548007150 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 983548007151 ATP binding site [chemical binding]; other site 983548007152 putative Mg++ binding site [ion binding]; other site 983548007153 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 983548007154 nucleotide binding region [chemical binding]; other site 983548007155 ATP-binding site [chemical binding]; other site 983548007156 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...; Region: TlpA_like_family; cd02966 983548007157 catalytic residues [active] 983548007158 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 983548007159 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 983548007160 putative tRNA-binding site [nucleotide binding]; other site 983548007161 B3/4 domain; Region: B3_4; cl11458 983548007162 tRNA synthetase B5 domain; Region: B5; cl08394 983548007163 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 983548007164 dimer interface [polypeptide binding]; other site 983548007165 motif 1; other site 983548007166 motif 3; other site 983548007167 motif 2; other site 983548007168 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 983548007169 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 983548007170 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548007171 Walker A/P-loop; other site 983548007172 ATP binding site [chemical binding]; other site 983548007173 Q-loop/lid; other site 983548007174 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548007175 ABC transporter; Region: ABC_tran_2; pfam12848 983548007176 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548007177 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548007178 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 983548007179 active site 983548007180 intersubunit interactions; other site 983548007181 catalytic residue [active] 983548007182 short chain dehydrogenase; Provisional; Region: PRK05693 983548007183 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 983548007184 NADP binding site [chemical binding]; other site 983548007185 active site 983548007186 steroid binding site; other site 983548007187 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 983548007188 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 983548007189 dimer interface [polypeptide binding]; other site 983548007190 FMN binding site [chemical binding]; other site 983548007191 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...; Region: BFIT_BACH; cd03442 983548007192 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 983548007193 putative active site [active] 983548007194 ABC-2 type transporter; Region: ABC2_membrane; cl11417 983548007195 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 983548007196 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 983548007197 DNA polymerase III subunit beta; Validated; Region: PRK05643 983548007198 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...; Region: beta_clamp; cd00140 983548007199 putative DNA binding surface [nucleotide binding]; other site 983548007200 dimer interface [polypeptide binding]; other site 983548007201 beta-clamp/clamp loader binding surface; other site 983548007202 beta-clamp/translesion DNA polymerase binding surface; other site 983548007203 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 983548007204 metal binding site [ion binding]; metal-binding site 983548007205 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 983548007206 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 983548007207 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 983548007208 homodimer interface [polypeptide binding]; other site 983548007209 substrate-cofactor binding pocket; other site 983548007210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548007211 catalytic residue [active] 983548007212 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 983548007213 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 983548007214 Coenzyme A binding pocket [chemical binding]; other site 983548007215 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548007216 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 983548007217 hypothetical protein; Provisional; Region: PRK09897 983548007218 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 983548007219 transcription elongation factor regulatory protein; Validated; Region: PRK06342 983548007220 C-term; Region: GreA_GreB; pfam01272 983548007221 Pirin-related protein [General function prediction only]; Region: COG1741 983548007222 Cupin domain; Region: Cupin_2; cl09118 983548007223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548007224 Domain of unknown function (DUF74); Region: DUF74; cl00426 983548007225 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983548007226 putative catalytic site [active] 983548007227 putative metal binding site [ion binding]; other site 983548007228 putative phosphate binding site [ion binding]; other site 983548007229 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 983548007230 putative ligand binding pocket/active site [active] 983548007231 putative metal binding site [ion binding]; other site 983548007232 Surface antigen; Region: Bac_surface_Ag; cl03097 983548007233 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 983548007234 active site 983548007235 metal binding site [ion binding]; metal-binding site 983548007236 Surface antigen; Region: Bac_surface_Ag; cl03097 983548007237 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548007238 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...; Region: TlpA_like_family; cd02966 983548007239 catalytic residues [active] 983548007240 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 983548007241 putative catalytic site [active] 983548007242 putative metal binding site [ion binding]; other site 983548007243 putative phosphate binding site [ion binding]; other site 983548007244 Mechanosensitive ion channel; Region: MS_channel; pfam00924 983548007245 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 983548007246 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 983548007247 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 983548007248 catalytic residue [active] 983548007249 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 983548007250 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 983548007251 dimer interface [polypeptide binding]; other site 983548007252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548007253 catalytic residue [active] 983548007254 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 983548007255 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 983548007256 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 983548007257 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 983548007258 ligand binding site [chemical binding]; other site 983548007259 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 983548007260 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 983548007261 tetramer interface [polypeptide binding]; other site 983548007262 pyridoxal 5'-phosphate binding site [chemical binding]; other site 983548007263 catalytic residue [active] 983548007264 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 983548007265 active site 983548007266 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 983548007267 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 983548007268 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...; Region: Sigma70_r4; cl01055 983548007269 membrane protein insertase; Provisional; Region: PRK01318 983548007270 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 983548007271 CTP synthetase; Validated; Region: pyrG; PRK05380 983548007272 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...; Region: CTGs; cd03113 983548007273 Catalytic site [active] 983548007274 Active site [active] 983548007275 UTP binding site [chemical binding]; other site 983548007276 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 983548007277 active site 983548007278 putative oxyanion hole; other site 983548007279 catalytic triad [active] 983548007280 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 983548007281 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 983548007282 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 983548007283 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 983548007284 active site 983548007285 The M14 family of metallocarboxypeptidases (MCPs) are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key...; Region: Peptidase_M14_like; cl11393 983548007286 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 983548007287 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 983548007288 N-terminal plug; other site 983548007289 ligand-binding site [chemical binding]; other site 983548007290 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 983548007291 Imelysin; Region: Peptidase_M75; cl09159 983548007292 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 983548007293 DEAD-like helicases superfamily; Region: DEXDc; smart00487 983548007294 ATP binding site [chemical binding]; other site 983548007295 Mg++ binding site [ion binding]; other site 983548007296 motif III; other site 983548007297 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 983548007298 nucleotide binding region [chemical binding]; other site 983548007299 ATP-binding site [chemical binding]; other site 983548007300 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 983548007301 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 983548007302 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 983548007303 active site 983548007304 NTP binding site [chemical binding]; other site 983548007305 metal binding triad [ion binding]; metal-binding site 983548007306 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 983548007307 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 983548007308 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 983548007309 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 983548007310 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 983548007311 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 983548007312 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 983548007313 ATP binding site [chemical binding]; other site 983548007314 Mg++ binding site [ion binding]; other site 983548007315 motif III; other site 983548007316 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 983548007317 nucleotide binding region [chemical binding]; other site 983548007318 ATP-binding site [chemical binding]; other site 983548007319 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 983548007320 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 983548007321 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 983548007322 Walker A/P-loop; other site 983548007323 ATP binding site [chemical binding]; other site 983548007324 Q-loop/lid; other site 983548007325 ABC transporter signature motif; other site 983548007326 Walker B; other site 983548007327 D-loop; other site 983548007328 H-loop/switch region; other site 983548007329 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 983548007330 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 983548007331 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 983548007332 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 983548007333 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548007334 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; cl14644 983548007335 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 983548007336 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 983548007337 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 983548007338 putative hydrophobic ligand binding site [chemical binding]; other site 983548007339 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 983548007340 classical (c) SDRs; Region: SDR_c; cd05233 983548007341 NAD(P) binding site [chemical binding]; other site 983548007342 active site 983548007343 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 983548007344 DNA photolyase; Region: DNA_photolyase; pfam00875 983548007345 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 983548007346 short chain dehydrogenase; Provisional; Region: PRK12939 983548007347 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 983548007348 NADP binding site [chemical binding]; other site 983548007349 homodimer interface [polypeptide binding]; other site 983548007350 active site 983548007351 substrate binding site [chemical binding]; other site 983548007352 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 983548007353 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 983548007354 putative metal binding site [ion binding]; other site 983548007355 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 983548007356 dimer interface [polypeptide binding]; other site 983548007357 putative metal binding site [ion binding]; other site 983548007358 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 983548007359 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 983548007360 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 983548007361 Walker A/P-loop; other site 983548007362 ATP binding site [chemical binding]; other site 983548007363 Q-loop/lid; other site 983548007364 ABC transporter signature motif; other site 983548007365 Walker B; other site 983548007366 D-loop; other site 983548007367 H-loop/switch region; other site 983548007368 ABC transporter; Region: ABC_tran_2; pfam12848 983548007369 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 983548007370 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 983548007371 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 983548007372 putative active site [active] 983548007373 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 983548007374 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 983548007375 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 983548007376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 983548007377 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 983548007378 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 983548007379 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 983548007380 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 983548007381 Uncharacterized conserved protein [Function unknown]; Region: COG1739 983548007382 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 983548007383 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...; Region: 4HBT; cd00586 983548007384 active site