-- dump date 20120504_155803 -- class Genbank::misc_feature -- table misc_feature_note -- id note 335284000001 Protein of unknown function (DUF421); Region: DUF421; cl00990 335284000002 Competence-damaged protein; Region: CinA; cl00666 335284000003 Predicted membrane protein [Function unknown]; Region: COG3212 335284000004 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 335284000005 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 335284000006 MgtC family; Region: MgtC; pfam02308 335284000007 Protein of unknown function (DUF808); Region: DUF808; cl01002 335284000008 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 335284000009 Integral membrane protein TerC family; Region: TerC; cl10468 335284000010 potassium/proton antiporter; Reviewed; Region: PRK05326 335284000011 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 335284000012 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 335284000013 Transporter associated domain; Region: CorC_HlyC; cl08393 335284000014 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 335284000015 salt bridge; other site 335284000016 non-specific DNA binding site [nucleotide binding]; other site 335284000017 sequence-specific DNA binding site [nucleotide binding]; other site 335284000018 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 335284000019 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 335284000020 catalytic residues [active] 335284000021 catalytic nucleophile [active] 335284000022 Helix-turn-helix domains; Region: HTH; cl00088 335284000023 DNA-binding interface [nucleotide binding]; DNA binding site 335284000024 Fic/DOC family; Region: Fic; cl00960 335284000025 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 335284000026 catalytic residues [active] 335284000027 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 335284000028 catalytic nucleophile [active] 335284000029 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 335284000030 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 335284000031 DNA binding residues [nucleotide binding] 335284000032 dimer interface [polypeptide binding]; other site 335284000033 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 335284000034 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 335284000035 NAD binding site [chemical binding]; other site 335284000036 catalytic Zn binding site [ion binding]; other site 335284000037 structural Zn binding site [ion binding]; other site 335284000038 Replicase family; Region: Replicase; pfam03090 335284000039 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 335284000040 DDE superfamily endonuclease; Region: DDE_4; cl15789 335284000041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 335284000042 ParA-like protein; Provisional; Region: PHA02518 335284000043 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 335284000044 P-loop; other site 335284000045 Magnesium ion binding site [ion binding]; other site 335284000046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000047 AAA domain; Region: AAA_21; pfam13304 335284000048 Walker A/P-loop; other site 335284000049 ATP binding site [chemical binding]; other site 335284000050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000051 ABC transporter signature motif; other site 335284000052 Walker B; other site 335284000053 D-loop; other site 335284000054 H-loop/switch region; other site 335284000055 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 335284000056 Protein of unknown function (DUF497); Region: DUF497; cl01108 335284000057 RelB antitoxin; Region: RelB; cl01171 335284000058 Initiator Replication protein; Region: Rep_3; cl03080 335284000059 Protein of unknown function DUF262; Region: DUF262; cl14890 335284000060 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 335284000061 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 335284000062 S-adenosylmethionine binding site [chemical binding]; other site 335284000063 DDE superfamily endonuclease; Region: DDE_4; cl15789 335284000064 DDE superfamily endonuclease; Region: DDE_4_2; pfam13613 335284000065 DDE superfamily endonuclease; Region: DDE_4; cl15789 335284000066 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 335284000067 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 335284000068 active site 335284000069 motif I; other site 335284000070 motif II; other site 335284000071 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 335284000072 CsbD-like; Region: CsbD; cl15799 335284000073 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 335284000074 active site 335284000075 Ribonuclease P; Region: Ribonuclease_P; cl00457 335284000076 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 335284000077 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 335284000078 DnaA N-terminal domain; Region: DnaA_N; pfam11638 335284000079 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284000080 Walker A motif; other site 335284000081 ATP binding site [chemical binding]; other site 335284000082 Walker B motif; other site 335284000083 arginine finger; other site 335284000084 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 335284000085 DnaA box-binding interface [nucleotide binding]; other site 335284000086 DNA polymerase III subunit beta; Validated; Region: PRK05643 335284000087 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 335284000088 putative DNA binding surface [nucleotide binding]; other site 335284000089 dimer interface [polypeptide binding]; other site 335284000090 beta-clamp/clamp loader binding surface; other site 335284000091 beta-clamp/translesion DNA polymerase binding surface; other site 335284000092 recombination protein F; Reviewed; Region: recF; PRK00064 335284000093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000094 Walker A/P-loop; other site 335284000095 ATP binding site [chemical binding]; other site 335284000096 Q-loop/lid; other site 335284000097 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000098 ABC transporter signature motif; other site 335284000099 Walker B; other site 335284000100 D-loop; other site 335284000101 H-loop/switch region; other site 335284000102 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 335284000103 Mg2+ binding site [ion binding]; other site 335284000104 G-X-G motif; other site 335284000105 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 335284000106 anchoring element; other site 335284000107 dimer interface [polypeptide binding]; other site 335284000108 ATP binding site [chemical binding]; other site 335284000109 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 335284000110 active site 335284000111 putative metal-binding site [ion binding]; other site 335284000112 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 335284000113 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 335284000114 Predicted membrane protein [Function unknown]; Region: COG1971 335284000115 Domain of unknown function DUF; Region: DUF204; pfam02659 335284000116 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 335284000117 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 335284000118 S-adenosylmethionine binding site [chemical binding]; other site 335284000119 LysE type translocator; Region: LysE; cl00565 335284000120 enoyl-CoA hydratase; Provisional; Region: PRK06563 335284000121 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 335284000122 substrate binding site [chemical binding]; other site 335284000123 oxyanion hole (OAH) forming residues; other site 335284000124 trimer interface [polypeptide binding]; other site 335284000125 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 335284000126 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 335284000127 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284000128 homodimer interface [polypeptide binding]; other site 335284000129 catalytic residue [active] 335284000130 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 335284000131 uncharacterized ygcE-like proteins, N-terminal domain; Region: FGGY_ygcE_like; cd07779 335284000132 putative N- and C-terminal domain interface [polypeptide binding]; other site 335284000133 putative active site [active] 335284000134 putative MgATP binding site [chemical binding]; other site 335284000135 catalytic site [active] 335284000136 metal binding site [ion binding]; metal-binding site 335284000137 putative carbohydrate binding site [chemical binding]; other site 335284000138 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 335284000139 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 335284000140 FAD binding domain; Region: FAD_binding_4; pfam01565 335284000141 GMP synthase; Reviewed; Region: guaA; PRK00074 335284000142 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 335284000143 AMP/PPi binding site [chemical binding]; other site 335284000144 candidate oxyanion hole; other site 335284000145 catalytic triad [active] 335284000146 potential glutamine specificity residues [chemical binding]; other site 335284000147 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 335284000148 ATP Binding subdomain [chemical binding]; other site 335284000149 Ligand Binding sites [chemical binding]; other site 335284000150 Dimerization subdomain; other site 335284000151 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 335284000152 active site 335284000153 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 335284000154 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 335284000155 NADP binding site [chemical binding]; other site 335284000156 dimer interface [polypeptide binding]; other site 335284000157 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 335284000158 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 335284000159 putative NAD(P) binding site [chemical binding]; other site 335284000160 putative dimer interface [polypeptide binding]; other site 335284000161 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 335284000162 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 335284000163 aspartate racemase; Region: asp_race; TIGR00035 335284000164 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 335284000165 MatE; Region: MatE; cl10513 335284000166 MatE; Region: MatE; cl10513 335284000167 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 335284000168 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284000169 Nitronate monooxygenase; Region: NMO; pfam03060 335284000170 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 335284000171 FMN binding site [chemical binding]; other site 335284000172 substrate binding site [chemical binding]; other site 335284000173 putative catalytic residue [active] 335284000174 Archaeal ATPase; Region: Arch_ATPase; pfam01637 335284000175 Archaeal ATPase; Region: Arch_ATPase; pfam01637 335284000176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000177 DsrE/DsrF-like family; Region: DrsE; cl00672 335284000178 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 335284000179 active site 335284000180 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 335284000181 Uncharacterized conserved protein [Function unknown]; Region: COG1739 335284000182 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 335284000183 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 335284000184 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 335284000185 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 335284000186 RNA binding surface [nucleotide binding]; other site 335284000187 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 335284000188 active site 335284000189 uracil binding [chemical binding]; other site 335284000190 Disulfide bond isomerase protein N-terminus; Region: DsbC_N; pfam10411 335284000191 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 335284000192 dimerization domain [polypeptide binding]; other site 335284000193 dimer interface [polypeptide binding]; other site 335284000194 catalytic residues [active] 335284000195 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 335284000196 chaperone protein DnaJ; Provisional; Region: PRK10767 335284000197 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 335284000198 HSP70 interaction site [polypeptide binding]; other site 335284000199 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 335284000200 substrate binding site [polypeptide binding]; other site 335284000201 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 335284000202 Zn binding sites [ion binding]; other site 335284000203 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 335284000204 dimer interface [polypeptide binding]; other site 335284000205 dihydrodipicolinate reductase; Provisional; Region: PRK00048 335284000206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000207 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 335284000208 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 335284000209 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 335284000210 dimer interface [polypeptide binding]; other site 335284000211 active site 335284000212 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284000213 catalytic residues [active] 335284000214 substrate binding site [chemical binding]; other site 335284000215 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 335284000216 active site 335284000217 catalytic residues [active] 335284000218 metal binding site [ion binding]; metal-binding site 335284000219 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 335284000220 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 335284000221 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 335284000222 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284000223 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 335284000224 NlpE N-terminal domain; Region: NlpE; cl01138 335284000225 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 335284000226 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 335284000227 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 335284000228 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 335284000229 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000230 Walker A/P-loop; other site 335284000231 ATP binding site [chemical binding]; other site 335284000232 Q-loop/lid; other site 335284000233 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 335284000234 ABC transporter; Region: ABC_tran_2; pfam12848 335284000235 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 335284000236 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 335284000237 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 335284000238 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 335284000239 HSP70 interaction site [polypeptide binding]; other site 335284000240 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 335284000241 substrate binding site [polypeptide binding]; other site 335284000242 dimer interface [polypeptide binding]; other site 335284000243 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 335284000244 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 335284000245 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 335284000246 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cl08294 335284000247 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 335284000248 Substrate-binding/catalytic site; other site 335284000249 Zn-binding sites [ion binding]; other site 335284000250 interface (dimer of trimers) [polypeptide binding]; other site 335284000251 Isochorismatase family; Region: Isochorismatase; pfam00857 335284000252 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 335284000253 catalytic triad [active] 335284000254 conserved cis-peptide bond; other site 335284000255 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 335284000256 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 335284000257 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 335284000258 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 335284000259 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 335284000260 S-adenosylmethionine binding site [chemical binding]; other site 335284000261 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 335284000262 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 335284000263 active site 335284000264 Int/Topo IB signature motif; other site 335284000265 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 335284000266 S-adenosylmethionine binding site [chemical binding]; other site 335284000267 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 335284000268 CPxP motif; other site 335284000269 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 335284000270 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 335284000271 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 335284000272 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 335284000273 Walker A/P-loop; other site 335284000274 ATP binding site [chemical binding]; other site 335284000275 Q-loop/lid; other site 335284000276 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 335284000277 ABC transporter signature motif; other site 335284000278 Walker B; other site 335284000279 D-loop; other site 335284000280 H-loop/switch region; other site 335284000281 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 335284000282 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 335284000283 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 335284000284 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 335284000285 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 335284000286 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 335284000287 CoA-binding site [chemical binding]; other site 335284000288 ATP-binding [chemical binding]; other site 335284000289 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 335284000290 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 335284000291 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 335284000292 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 335284000293 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 335284000294 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 335284000295 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 335284000296 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 335284000297 Walker A motif; other site 335284000298 ATP binding site [chemical binding]; other site 335284000299 Walker B motif; other site 335284000300 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 335284000301 substrate binding site [chemical binding]; other site 335284000302 dimer interface [polypeptide binding]; other site 335284000303 catalytic triad [active] 335284000304 Preprotein translocase SecG subunit; Region: SecG; cl09123 335284000305 ribosome maturation protein RimP; Reviewed; Region: PRK00092 335284000306 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 335284000307 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 335284000308 Sm1 motif; other site 335284000309 D1 - D2 interaction site; other site 335284000310 D3 - B interaction site; other site 335284000311 Hfq - Hfq interaction site; other site 335284000312 RNA binding pocket [nucleotide binding]; other site 335284000313 Sm2 motif; other site 335284000314 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 335284000315 NusA N-terminal domain; Region: NusA_N; pfam08529 335284000316 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 335284000317 RNA binding site [nucleotide binding]; other site 335284000318 homodimer interface [polypeptide binding]; other site 335284000319 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 335284000320 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 335284000321 G-X-X-G motif; other site 335284000322 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 335284000323 translation initiation factor IF-2; Validated; Region: infB; PRK05306 335284000324 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 335284000325 translation initiation factor IF-2; Region: IF-2; TIGR00487 335284000326 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 335284000327 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 335284000328 G1 box; other site 335284000329 putative GEF interaction site [polypeptide binding]; other site 335284000330 GTP/Mg2+ binding site [chemical binding]; other site 335284000331 Switch I region; other site 335284000332 G2 box; other site 335284000333 G3 box; other site 335284000334 Switch II region; other site 335284000335 G4 box; other site 335284000336 G5 box; other site 335284000337 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 335284000338 Translation-initiation factor 2; Region: IF-2; pfam11987 335284000339 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 335284000340 Ribosome-binding factor A; Region: RBFA; cl00542 335284000341 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 335284000342 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 335284000343 RNA binding site [nucleotide binding]; other site 335284000344 active site 335284000345 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 335284000346 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 335284000347 intracellular protease, PfpI family; Region: PfpI; TIGR01382 335284000348 proposed catalytic triad [active] 335284000349 conserved cys residue [active] 335284000350 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 335284000351 16S/18S rRNA binding site [nucleotide binding]; other site 335284000352 S13e-L30e interaction site [polypeptide binding]; other site 335284000353 25S rRNA binding site [nucleotide binding]; other site 335284000354 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 335284000355 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 335284000356 RNase E interface [polypeptide binding]; other site 335284000357 trimer interface [polypeptide binding]; other site 335284000358 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 335284000359 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 335284000360 RNase E interface [polypeptide binding]; other site 335284000361 trimer interface [polypeptide binding]; other site 335284000362 active site 335284000363 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 335284000364 putative nucleic acid binding region [nucleotide binding]; other site 335284000365 G-X-X-G motif; other site 335284000366 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 335284000367 RNA binding site [nucleotide binding]; other site 335284000368 domain interface; other site 335284000369 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 335284000370 hypothetical protein; Validated; Region: PRK09039 335284000371 Probable metal-binding protein (DUF2387); Region: DUF2387; cl01410 335284000372 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 335284000373 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 335284000374 active site 335284000375 Zn binding site [ion binding]; other site 335284000376 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 335284000377 putative catalytic site [active] 335284000378 putative metal binding site [ion binding]; other site 335284000379 putative phosphate binding site [ion binding]; other site 335284000380 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 335284000381 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 335284000382 putative NAD(P) binding site [chemical binding]; other site 335284000383 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 335284000384 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284000385 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 335284000386 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 335284000387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000388 Walker A/P-loop; other site 335284000389 ATP binding site [chemical binding]; other site 335284000390 Q-loop/lid; other site 335284000391 ABC transporter signature motif; other site 335284000392 Walker B; other site 335284000393 D-loop; other site 335284000394 H-loop/switch region; other site 335284000395 Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria; Region: FBP_aldolase_I_bact; cd00949 335284000396 putative active site [active] 335284000397 catalytic residue [active] 335284000398 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 335284000399 ThiC-associated domain; Region: ThiC-associated; pfam13667 335284000400 ThiC family; Region: ThiC; cl08031 335284000401 Bacterial Fe(2+) trafficking; Region: Iron_traffic; cl01104 335284000402 argininosuccinate lyase; Provisional; Region: PRK00855 335284000403 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 335284000404 active sites [active] 335284000405 tetramer interface [polypeptide binding]; other site 335284000406 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 335284000407 Histidine kinase; Region: His_kinase; pfam06580 335284000408 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 335284000409 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 335284000410 active site 335284000411 phosphorylation site [posttranslational modification] 335284000412 intermolecular recognition site; other site 335284000413 dimerization interface [polypeptide binding]; other site 335284000414 LytTr DNA-binding domain; Region: LytTR; cl04498 335284000415 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 335284000416 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 335284000417 domain interfaces; other site 335284000418 active site 335284000419 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 335284000420 active site 335284000421 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 335284000422 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 335284000423 active site 335284000424 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 335284000425 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 335284000426 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 335284000427 dimerization interface [polypeptide binding]; other site 335284000428 active site 335284000429 recombination factor protein RarA; Reviewed; Region: PRK13342 335284000430 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284000431 Walker A motif; other site 335284000432 ATP binding site [chemical binding]; other site 335284000433 Walker B motif; other site 335284000434 arginine finger; other site 335284000435 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 335284000436 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 335284000437 dimer interface [polypeptide binding]; other site 335284000438 Citrate synthase; Region: Citrate_synt; pfam00285 335284000439 active site 335284000440 citrylCoA binding site [chemical binding]; other site 335284000441 NADH binding [chemical binding]; other site 335284000442 cationic pore residues; other site 335284000443 oxalacetate/citrate binding site [chemical binding]; other site 335284000444 coenzyme A binding site [chemical binding]; other site 335284000445 catalytic triad [active] 335284000446 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 335284000447 Iron-sulfur protein interface; other site 335284000448 proximal quinone binding site [chemical binding]; other site 335284000449 SdhD (CybS) interface [polypeptide binding]; other site 335284000450 proximal heme binding site [chemical binding]; other site 335284000451 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 335284000452 SdhC subunit interface [polypeptide binding]; other site 335284000453 proximal heme binding site [chemical binding]; other site 335284000454 cardiolipin binding site; other site 335284000455 Iron-sulfur protein interface; other site 335284000456 proximal quinone binding site [chemical binding]; other site 335284000457 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 335284000458 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000459 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 335284000460 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 335284000461 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 335284000462 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 335284000463 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 335284000464 TPP-binding site [chemical binding]; other site 335284000465 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 335284000466 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 335284000467 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 335284000468 E3 interaction surface; other site 335284000469 lipoyl attachment site [posttranslational modification]; other site 335284000470 e3 binding domain; Region: E3_binding; pfam02817 335284000471 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 335284000472 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 335284000473 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284000474 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 335284000475 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 335284000476 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284000477 CoA-ligase; Region: Ligase_CoA; cl02894 335284000478 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 335284000479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000480 CoA-ligase; Region: Ligase_CoA; cl02894 335284000481 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 335284000482 UDP-glucose 4-epimerase; Region: PLN02240 335284000483 NAD binding site [chemical binding]; other site 335284000484 homodimer interface [polypeptide binding]; other site 335284000485 active site 335284000486 substrate binding site [chemical binding]; other site 335284000487 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 335284000488 active site 335284000489 tetramer interface; other site 335284000490 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 335284000491 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 335284000492 active site 335284000493 dimer interface [polypeptide binding]; other site 335284000494 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 335284000495 dimer interface [polypeptide binding]; other site 335284000496 active site 335284000497 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 335284000498 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 335284000499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000500 phosphomannomutase CpsG; Provisional; Region: PRK15414 335284000501 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 335284000502 active site 335284000503 substrate binding site [chemical binding]; other site 335284000504 metal binding site [ion binding]; metal-binding site 335284000505 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 335284000506 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 335284000507 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 335284000508 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 335284000509 poly(A) polymerase; Region: pcnB; TIGR01942 335284000510 active site 335284000511 NTP binding site [chemical binding]; other site 335284000512 metal binding triad [ion binding]; metal-binding site 335284000513 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 335284000514 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 335284000515 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 335284000516 catalytic center binding site [active] 335284000517 ATP binding site [chemical binding]; other site 335284000518 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 335284000519 oligomerization interface [polypeptide binding]; other site 335284000520 active site 335284000521 metal binding site [ion binding]; metal-binding site 335284000522 Pantoate-beta-alanine ligase; Region: PanC; cd00560 335284000523 pantoate--beta-alanine ligase; Region: panC; TIGR00018 335284000524 active site 335284000525 ATP-binding site [chemical binding]; other site 335284000526 pantoate-binding site; other site 335284000527 HXXH motif; other site 335284000528 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 335284000529 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 335284000530 Protein of unknown function (DUF615); Region: DUF615; cl01147 335284000531 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 335284000532 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 335284000533 catalytic residues [active] 335284000534 hinge region; other site 335284000535 alpha helical domain; other site 335284000536 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 335284000537 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 335284000538 S-adenosylmethionine binding site [chemical binding]; other site 335284000539 phosphoglycolate phosphatase; Provisional; Region: PRK13222 335284000540 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 335284000541 motif II; other site 335284000542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000543 short chain dehydrogenase; Provisional; Region: PRK08703 335284000544 NAD(P) binding site [chemical binding]; other site 335284000545 active site 335284000546 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 335284000547 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 335284000548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000549 osmolarity response regulator; Provisional; Region: ompR; PRK09468 335284000550 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 335284000551 active site 335284000552 phosphorylation site [posttranslational modification] 335284000553 intermolecular recognition site; other site 335284000554 dimerization interface [polypeptide binding]; other site 335284000555 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284000556 DNA binding site [nucleotide binding] 335284000557 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 335284000558 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 335284000559 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 335284000560 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 335284000561 RNA binding site [nucleotide binding]; other site 335284000562 Uncharacterized conserved protein [Function unknown]; Region: COG3268 335284000563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000564 NAD(P) binding site [chemical binding]; other site 335284000565 active site 335284000566 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 335284000567 aromatic arch; other site 335284000568 DCoH dimer interaction site [polypeptide binding]; other site 335284000569 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 335284000570 DCoH tetramer interaction site [polypeptide binding]; other site 335284000571 substrate binding site [chemical binding]; other site 335284000572 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284000573 Fatty acid desaturase; Region: FA_desaturase; pfam00487 335284000574 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 335284000575 putative di-iron ligands [ion binding]; other site 335284000576 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 335284000577 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 335284000578 FAD binding pocket [chemical binding]; other site 335284000579 FAD binding motif [chemical binding]; other site 335284000580 phosphate binding motif [ion binding]; other site 335284000581 beta-alpha-beta structure motif; other site 335284000582 NAD binding pocket [chemical binding]; other site 335284000583 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 335284000584 catalytic loop [active] 335284000585 iron binding site [ion binding]; other site 335284000586 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 335284000587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000588 Walker A/P-loop; other site 335284000589 ATP binding site [chemical binding]; other site 335284000590 Q-loop/lid; other site 335284000591 ABC transporter signature motif; other site 335284000592 Walker B; other site 335284000593 D-loop; other site 335284000594 H-loop/switch region; other site 335284000595 ABC transporter; Region: ABC_tran_2; pfam12848 335284000596 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 335284000597 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 335284000598 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 335284000599 putative acyl-acceptor binding pocket; other site 335284000600 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 335284000601 putative deacylase active site [active] 335284000602 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 335284000603 putative substrate binding pocket [chemical binding]; other site 335284000604 trimer interface [polypeptide binding]; other site 335284000605 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 335284000606 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 335284000607 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284000608 active site 335284000609 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 335284000610 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 335284000611 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 335284000612 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 335284000613 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 335284000614 shikimate binding site; other site 335284000615 NAD(P) binding site [chemical binding]; other site 335284000616 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 335284000617 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284000618 catalytic residue [active] 335284000619 Dam-replacing family; Region: DRP; pfam06044 335284000620 YceG-like family; Region: YceG; pfam02618 335284000621 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 335284000622 dimerization interface [polypeptide binding]; other site 335284000623 thymidylate kinase; Validated; Region: tmk; PRK00698 335284000624 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 335284000625 TMP-binding site; other site 335284000626 ATP-binding site [chemical binding]; other site 335284000627 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 335284000628 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 335284000629 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 335284000630 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 335284000631 protein binding site [polypeptide binding]; other site 335284000632 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 335284000633 protein binding site [polypeptide binding]; other site 335284000634 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 335284000635 dihydrodipicolinate synthase; Region: dapA; TIGR00674 335284000636 dimer interface [polypeptide binding]; other site 335284000637 active site 335284000638 catalytic residue [active] 335284000639 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 335284000640 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 335284000641 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 335284000642 ATP binding site [chemical binding]; other site 335284000643 active site 335284000644 substrate binding site [chemical binding]; other site 335284000645 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 335284000646 active site 335284000647 DNA binding site [nucleotide binding] 335284000648 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 335284000649 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 335284000650 CsbD-like; Region: CsbD; cl15799 335284000651 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 335284000652 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to...; Region: MopB_1; cd02762 335284000653 putative [Fe4-S4] binding site [ion binding]; other site 335284000654 putative molybdopterin cofactor binding site [chemical binding]; other site 335284000655 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 335284000656 putative molybdopterin cofactor binding site; other site 335284000657 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 335284000658 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 335284000659 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 335284000660 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 335284000661 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 335284000662 PhnA protein; Region: PhnA; pfam03831 335284000663 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 335284000664 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 335284000665 inhibitor-cofactor binding pocket; inhibition site 335284000666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284000667 catalytic residue [active] 335284000668 Protein of unknown function (DUF962); Region: DUF962; cl01879 335284000669 exopolyphosphatase; Provisional; Region: PRK10854 335284000670 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 335284000671 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 335284000672 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 335284000673 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 335284000674 Ligand Binding Site [chemical binding]; other site 335284000675 TilS substrate binding domain; Region: TilS; pfam09179 335284000676 B3/4 domain; Region: B3_4; cl11458 335284000677 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 335284000678 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284000679 Coenzyme A binding pocket [chemical binding]; other site 335284000680 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 335284000681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000682 YGGT family; Region: YGGT; cl00508 335284000683 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 335284000684 dimer interface [polypeptide binding]; other site 335284000685 substrate binding site [chemical binding]; other site 335284000686 ATP binding site [chemical binding]; other site 335284000687 RDD family; Region: RDD; cl00746 335284000688 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 335284000689 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 335284000690 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 335284000691 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cl00540 335284000692 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 335284000693 putative active site [active] 335284000694 catalytic residue [active] 335284000695 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 335284000696 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 335284000697 5S rRNA interface [nucleotide binding]; other site 335284000698 CTC domain interface [polypeptide binding]; other site 335284000699 L16 interface [polypeptide binding]; other site 335284000700 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 335284000701 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 335284000702 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284000703 active site 335284000704 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 335284000705 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 335284000706 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 335284000707 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 335284000708 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 335284000709 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 335284000710 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 335284000711 tRNA; other site 335284000712 putative tRNA binding site [nucleotide binding]; other site 335284000713 putative NADP binding site [chemical binding]; other site 335284000714 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 335284000715 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 335284000716 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 335284000717 catalytic residue [active] 335284000718 Predicted transporter component [General function prediction only]; Region: COG2391 335284000719 Predicted transporter component [General function prediction only]; Region: COG2391 335284000720 Sulphur transport; Region: Sulf_transp; cl01018 335284000721 acyl-CoA synthetase; Validated; Region: PRK08162 335284000722 AMP-binding enzyme; Region: AMP-binding; cl15778 335284000723 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284000724 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 335284000725 active site 335284000726 FMN binding site [chemical binding]; other site 335284000727 2,4-decadienoyl-CoA binding site; other site 335284000728 catalytic residue [active] 335284000729 4Fe-4S cluster binding site [ion binding]; other site 335284000730 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 335284000731 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284000732 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 335284000733 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 335284000734 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 335284000735 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 335284000736 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 335284000737 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284000738 catalytic residue [active] 335284000739 EamA-like transporter family; Region: EamA; cl01037 335284000740 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 335284000741 EamA-like transporter family; Region: EamA; cl01037 335284000742 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 335284000743 FMN binding site [chemical binding]; other site 335284000744 active site 335284000745 substrate binding site [chemical binding]; other site 335284000746 catalytic residue [active] 335284000747 HI0933-like protein; Region: HI0933_like; pfam03486 335284000748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000749 acetyl-CoA synthetase; Provisional; Region: PRK00174 335284000750 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 335284000751 AMP-binding enzyme; Region: AMP-binding; cl15778 335284000752 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284000753 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 335284000754 MgtC family; Region: MgtC; pfam02308 335284000755 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 335284000756 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 335284000757 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 335284000758 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 335284000759 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 domain...; Region: PurM-like; cl10019 335284000760 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 domain...; Region: PurM-like; cl10019 335284000761 dimerization interface [polypeptide binding]; other site 335284000762 ATP binding site [chemical binding]; other site 335284000763 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 335284000764 dimerization interface [polypeptide binding]; other site 335284000765 ATP binding site [chemical binding]; other site 335284000766 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 335284000767 putative active site [active] 335284000768 catalytic triad [active] 335284000769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000770 Walker A/P-loop; other site 335284000771 ATP binding site [chemical binding]; other site 335284000772 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 335284000773 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 335284000774 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 335284000775 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 335284000776 amidase catalytic site [active] 335284000777 Zn binding residues [ion binding]; other site 335284000778 substrate binding site [chemical binding]; other site 335284000779 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 335284000780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 335284000781 MOSC domain; Region: MOSC; pfam03473 335284000782 Oligomerisation domain; Region: Oligomerisation; cl00519 335284000783 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 335284000784 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 335284000785 active site 335284000786 (T/H)XGH motif; other site 335284000787 phosphate acetyltransferase; Reviewed; Region: PRK05632 335284000788 DRTGG domain; Region: DRTGG; cl12147 335284000789 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 335284000790 Acetokinase family; Region: Acetate_kinase; cl01029 335284000791 acetate kinase; Region: ackA; TIGR00016 335284000792 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 335284000793 diaminopimelate decarboxylase; Region: lysA; TIGR01048 335284000794 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 335284000795 active site 335284000796 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284000797 substrate binding site [chemical binding]; other site 335284000798 catalytic residues [active] 335284000799 dimer interface [polypeptide binding]; other site 335284000800 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 335284000801 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 335284000802 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 335284000803 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 335284000804 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 335284000805 active site 335284000806 DNA binding site [nucleotide binding] 335284000807 Int/Topo IB signature motif; other site 335284000808 Predicted amidohydrolase [General function prediction only]; Region: COG0388 335284000809 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 335284000810 putative active site [active] 335284000811 catalytic triad [active] 335284000812 dimer interface [polypeptide binding]; other site 335284000813 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 335284000814 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 335284000815 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 335284000816 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 335284000817 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 335284000818 30S subunit binding site; other site 335284000819 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 335284000820 thiS-thiF/thiG interaction site; other site 335284000821 Protein of unknown function (DUF423); Region: DUF423; cl01008 335284000822 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 335284000823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 335284000824 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 335284000825 DNA binding residues [nucleotide binding] 335284000826 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 335284000827 CPxP motif; other site 335284000828 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 335284000829 Peptidase family M48; Region: Peptidase_M48; cl12018 335284000830 GatB domain; Region: GatB_Yqey; cl11497 335284000831 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 335284000832 Cytochrome c; Region: Cytochrom_C; cl11414 335284000833 UGMP family protein; Validated; Region: PRK09604 335284000834 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 335284000835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284000836 Helix-turn-helix domains; Region: HTH; cl00088 335284000837 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 335284000838 putative dimerization interface [polypeptide binding]; other site 335284000839 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284000840 dimer interface [polypeptide binding]; other site 335284000841 conserved gate region; other site 335284000842 putative PBP binding loops; other site 335284000843 ABC-ATPase subunit interface; other site 335284000844 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284000845 dimer interface [polypeptide binding]; other site 335284000846 conserved gate region; other site 335284000847 putative PBP binding loops; other site 335284000848 ABC-ATPase subunit interface; other site 335284000849 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 335284000850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000851 Walker A/P-loop; other site 335284000852 ATP binding site [chemical binding]; other site 335284000853 Q-loop/lid; other site 335284000854 ABC transporter signature motif; other site 335284000855 Walker B; other site 335284000856 D-loop; other site 335284000857 H-loop/switch region; other site 335284000858 TOBE domain; Region: TOBE_2; cl01440 335284000859 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 335284000860 active site clefts [active] 335284000861 zinc binding site [ion binding]; other site 335284000862 dimer interface [polypeptide binding]; other site 335284000863 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 335284000864 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 335284000865 dimer interface [polypeptide binding]; other site 335284000866 active site 335284000867 metal binding site [ion binding]; metal-binding site 335284000868 glutathione binding site [chemical binding]; other site 335284000869 Cytochrome C'; Region: Cytochrom_C_2; cl01610 335284000870 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 335284000871 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 335284000872 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 335284000873 dimerization interface [polypeptide binding]; other site 335284000874 active site 335284000875 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 335284000876 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 335284000877 TPP-binding site; other site 335284000878 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 335284000879 PYR/PP interface [polypeptide binding]; other site 335284000880 dimer interface [polypeptide binding]; other site 335284000881 TPP binding site [chemical binding]; other site 335284000882 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 335284000883 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 335284000884 active site 335284000885 dimerization interface [polypeptide binding]; other site 335284000886 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 335284000887 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 335284000888 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 335284000889 ThiS interaction site; other site 335284000890 putative active site [active] 335284000891 tetramer interface [polypeptide binding]; other site 335284000892 general secretory pathway protein E; Region: type_II_gspE; TIGR02533 335284000893 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 335284000894 Walker A motif; other site 335284000895 ATP binding site [chemical binding]; other site 335284000896 Walker B motif; other site 335284000897 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 335284000898 homotrimer interaction site [polypeptide binding]; other site 335284000899 putative active site [active] 335284000900 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 335284000901 CoenzymeA binding site [chemical binding]; other site 335284000902 subunit interaction site [polypeptide binding]; other site 335284000903 PHB binding site; other site 335284000904 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional; Region: PRK11331 335284000905 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000906 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 335284000907 Cupin domain; Region: Cupin_2; cl09118 335284000908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284000909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 335284000910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284000911 general secretion pathway protein F; Region: GspF; TIGR02120 335284000912 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 335284000913 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 335284000914 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 335284000915 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 335284000916 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 335284000917 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 335284000918 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 335284000919 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 335284000920 dimerization interface [polypeptide binding]; other site 335284000921 substrate binding site [chemical binding]; other site 335284000922 active site 335284000923 calcium binding site [ion binding]; other site 335284000924 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284000925 active site 335284000926 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 335284000927 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 335284000928 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 335284000929 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 335284000930 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 335284000931 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 335284000932 Pilin (bacterial filament); Region: Pilin; pfam00114 335284000933 O-Antigen ligase; Region: Wzy_C; cl04850 335284000934 Pilin (bacterial filament); Region: Pilin; pfam00114 335284000935 Ferredoxin [Energy production and conversion]; Region: COG1146 335284000936 4Fe-4S binding domain; Region: Fer4; cl02805 335284000937 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 335284000938 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 335284000939 MutS domain I; Region: MutS_I; pfam01624 335284000940 MutS domain II; Region: MutS_II; pfam05188 335284000941 MutS family domain IV; Region: MutS_IV; pfam05190 335284000942 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000943 Walker A/P-loop; other site 335284000944 ATP binding site [chemical binding]; other site 335284000945 Q-loop/lid; other site 335284000946 ABC transporter signature motif; other site 335284000947 Walker B; other site 335284000948 D-loop; other site 335284000949 H-loop/switch region; other site 335284000950 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 335284000951 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284000952 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 335284000953 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 335284000954 nucleotide binding region [chemical binding]; other site 335284000955 ATP-binding site [chemical binding]; other site 335284000956 SEC-C motif; Region: SEC-C; pfam02810 335284000957 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 335284000958 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 335284000959 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 335284000960 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 335284000961 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 335284000962 dimer interface [polypeptide binding]; other site 335284000963 active site 335284000964 homoserine dehydrogenase; Provisional; Region: PRK06349 335284000965 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284000966 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 335284000967 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 335284000968 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 335284000969 dimerization domain [polypeptide binding]; other site 335284000970 dimer interface [polypeptide binding]; other site 335284000971 catalytic residues [active] 335284000972 Protein of unknown function (DUF808); Region: DUF808; cl01002 335284000973 ribonuclease E; Reviewed; Region: rne; PRK10811 335284000974 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 335284000975 homodimer interface [polypeptide binding]; other site 335284000976 oligonucleotide binding site [chemical binding]; other site 335284000977 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 335284000978 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 335284000979 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 335284000980 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 335284000981 active site 335284000982 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 335284000983 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 335284000984 motif II; other site 335284000985 Predicted GTPase [General function prediction only]; Region: COG0218 335284000986 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 335284000987 G1 box; other site 335284000988 GTP/Mg2+ binding site [chemical binding]; other site 335284000989 Switch I region; other site 335284000990 G2 box; other site 335284000991 G3 box; other site 335284000992 Switch II region; other site 335284000993 G4 box; other site 335284000994 G5 box; other site 335284000995 Cytochrome c; Region: Cytochrom_C; cl11414 335284000996 Cytochrome c; Region: Cytochrom_C; cl11414 335284000997 Cytochrome c; Region: Cytochrom_C; cl11414 335284000998 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 335284000999 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 335284001000 ferric uptake regulator; Provisional; Region: fur; PRK09462 335284001001 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 335284001002 metal binding site 2 [ion binding]; metal-binding site 335284001003 putative DNA binding helix; other site 335284001004 metal binding site 1 [ion binding]; metal-binding site 335284001005 dimer interface [polypeptide binding]; other site 335284001006 structural Zn2+ binding site [ion binding]; other site 335284001007 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 335284001008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001009 Walker A motif; other site 335284001010 ATP binding site [chemical binding]; other site 335284001011 Walker B motif; other site 335284001012 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 335284001013 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 335284001014 Walker A motif; other site 335284001015 ATP binding site [chemical binding]; other site 335284001016 Walker B motif; other site 335284001017 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 335284001018 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284001019 catalytic residue [active] 335284001020 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 335284001021 Domain of unknown function DUF21; Region: DUF21; pfam01595 335284001022 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 335284001023 Transporter associated domain; Region: CorC_HlyC; cl08393 335284001024 NAD synthetase; Provisional; Region: PRK13981 335284001025 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 335284001026 multimer interface [polypeptide binding]; other site 335284001027 active site 335284001028 catalytic triad [active] 335284001029 protein interface 1 [polypeptide binding]; other site 335284001030 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 335284001031 homodimer interface [polypeptide binding]; other site 335284001032 NAD binding pocket [chemical binding]; other site 335284001033 ATP binding pocket [chemical binding]; other site 335284001034 Mg binding site [ion binding]; other site 335284001035 active-site loop [active] 335284001036 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 335284001037 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 335284001038 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 335284001039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001040 Domain of unknown function (DUF3410); Region: DUF3410; pfam11890 335284001041 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 335284001042 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 335284001043 motif 1; other site 335284001044 dimer interface [polypeptide binding]; other site 335284001045 active site 335284001046 motif 2; other site 335284001047 motif 3; other site 335284001048 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 335284001049 NADH(P)-binding; Region: NAD_binding_10; pfam13460 335284001050 NAD(P) binding site [chemical binding]; other site 335284001051 putative active site [active] 335284001052 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 335284001053 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 335284001054 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284001055 AIR carboxylase; Region: AIRC; cl00310 335284001056 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 335284001057 active site 335284001058 metal binding site [ion binding]; metal-binding site 335284001059 Rhomboid family; Region: Rhomboid; cl11446 335284001060 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 335284001061 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284001062 ligand binding site [chemical binding]; other site 335284001063 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 335284001064 carboxy-terminal protease; Provisional; Region: PRK11186 335284001065 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 335284001066 protein binding site [polypeptide binding]; other site 335284001067 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 335284001068 Catalytic dyad [active] 335284001069 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 335284001070 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 335284001071 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 335284001072 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 335284001073 Domain of unknown function (DUF305); Region: DUF305; cl15795 335284001074 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 335284001075 probable active site [active] 335284001076 isocitrate dehydrogenase; Validated; Region: PRK07362 335284001077 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 335284001078 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 335284001079 Protein of unknown function, DUF482; Region: DUF482; pfam04339 335284001080 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284001081 UTRA domain; Region: UTRA; cl01230 335284001082 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 335284001083 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 335284001084 dimer interface [polypeptide binding]; other site 335284001085 active site 335284001086 glycine-pyridoxal phosphate binding site [chemical binding]; other site 335284001087 folate binding site [chemical binding]; other site 335284001088 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 335284001089 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 335284001090 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 335284001091 putative RNAase interaction site [polypeptide binding]; other site 335284001092 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 335284001093 DNA-binding site [nucleotide binding]; DNA binding site 335284001094 RNA-binding motif; other site 335284001095 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 335284001096 active site 335284001097 barstar interaction site; other site 335284001098 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 335284001099 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 335284001100 putative catalytic cysteine [active] 335284001101 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 335284001102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001103 Walker A/P-loop; other site 335284001104 ATP binding site [chemical binding]; other site 335284001105 Q-loop/lid; other site 335284001106 ABC transporter signature motif; other site 335284001107 Walker B; other site 335284001108 D-loop; other site 335284001109 H-loop/switch region; other site 335284001110 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284001111 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284001112 substrate binding pocket [chemical binding]; other site 335284001113 membrane-bound complex binding site; other site 335284001114 hinge residues; other site 335284001115 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284001116 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284001117 substrate binding pocket [chemical binding]; other site 335284001118 membrane-bound complex binding site; other site 335284001119 hinge residues; other site 335284001120 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284001121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284001122 substrate binding pocket [chemical binding]; other site 335284001123 membrane-bound complex binding site; other site 335284001124 hinge residues; other site 335284001125 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 335284001126 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284001127 dimer interface [polypeptide binding]; other site 335284001128 conserved gate region; other site 335284001129 putative PBP binding loops; other site 335284001130 ABC-ATPase subunit interface; other site 335284001131 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 335284001132 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284001133 dimer interface [polypeptide binding]; other site 335284001134 conserved gate region; other site 335284001135 putative PBP binding loops; other site 335284001136 ABC-ATPase subunit interface; other site 335284001137 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 335284001138 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 335284001139 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 335284001140 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 335284001141 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 335284001142 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 335284001143 dimerization interface [polypeptide binding]; other site 335284001144 domain crossover interface; other site 335284001145 redox-dependent activation switch; other site 335284001146 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284001147 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284001148 substrate binding pocket [chemical binding]; other site 335284001149 membrane-bound complex binding site; other site 335284001150 hinge residues; other site 335284001151 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 335284001152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284001153 dimer interface [polypeptide binding]; other site 335284001154 conserved gate region; other site 335284001155 putative PBP binding loops; other site 335284001156 ABC-ATPase subunit interface; other site 335284001157 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 335284001158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284001159 dimer interface [polypeptide binding]; other site 335284001160 conserved gate region; other site 335284001161 putative PBP binding loops; other site 335284001162 ABC-ATPase subunit interface; other site 335284001163 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 335284001164 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 335284001165 Walker A/P-loop; other site 335284001166 ATP binding site [chemical binding]; other site 335284001167 Q-loop/lid; other site 335284001168 ABC transporter signature motif; other site 335284001169 Walker B; other site 335284001170 D-loop; other site 335284001171 H-loop/switch region; other site 335284001172 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 335284001173 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284001174 AMP-binding domain protein; Validated; Region: PRK08315 335284001175 AMP-binding enzyme; Region: AMP-binding; cl15778 335284001176 AMP-binding enzyme; Region: AMP-binding; cl15778 335284001177 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 335284001178 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 335284001179 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 335284001180 enoyl-CoA hydratase; Provisional; Region: PRK05995 335284001181 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 335284001182 substrate binding site [chemical binding]; other site 335284001183 oxyanion hole (OAH) forming residues; other site 335284001184 trimer interface [polypeptide binding]; other site 335284001185 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 335284001186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 335284001187 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284001188 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 335284001189 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 335284001190 carboxyltransferase (CT) interaction site; other site 335284001191 biotinylation site [posttranslational modification]; other site 335284001192 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 335284001193 active site 335284001194 catalytic residues [active] 335284001195 metal binding site [ion binding]; metal-binding site 335284001196 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 335284001197 isovaleryl-CoA dehydrogenase; Region: PLN02519 335284001198 substrate binding site [chemical binding]; other site 335284001199 FAD binding site [chemical binding]; other site 335284001200 catalytic base [active] 335284001201 Type III pantothenate kinase; Region: Pan_kinase; cl09130 335284001202 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 335284001203 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 335284001204 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 335284001205 Domain of unknown function (DUF4298); Region: DUF4298; pfam14131 335284001206 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 335284001207 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 335284001208 Walker A/P-loop; other site 335284001209 ATP binding site [chemical binding]; other site 335284001210 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 335284001211 ABC transporter signature motif; other site 335284001212 Walker B; other site 335284001213 D-loop; other site 335284001214 H-loop/switch region; other site 335284001215 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 335284001216 FtsZ protein binding site [polypeptide binding]; other site 335284001217 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 335284001218 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 335284001219 nucleotide binding pocket [chemical binding]; other site 335284001220 K-X-D-G motif; other site 335284001221 catalytic site [active] 335284001222 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 335284001223 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 335284001224 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 335284001225 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 335284001226 Dimer interface [polypeptide binding]; other site 335284001227 hypothetical protein; Provisional; Region: PRK01254 335284001228 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 335284001229 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 335284001230 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 335284001231 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 335284001232 Helix-turn-helix domains; Region: HTH; cl00088 335284001233 Predicted permeases [General function prediction only]; Region: RarD; COG2962 335284001234 EamA-like transporter family; Region: EamA; cl01037 335284001235 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 335284001236 SmpB-tmRNA interface; other site 335284001237 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 335284001238 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 335284001239 active site 335284001240 (T/H)XGH motif; other site 335284001241 ferredoxin; Validated; Region: PRK07118 335284001242 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 335284001243 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 335284001244 inhibitor-cofactor binding pocket; inhibition site 335284001245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284001246 catalytic residue [active] 335284001247 AAA domain; Region: AAA_26; pfam13500 335284001248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001250 GTP-binding protein LepA; Provisional; Region: PRK05433 335284001251 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 335284001252 G1 box; other site 335284001253 putative GEF interaction site [polypeptide binding]; other site 335284001254 GTP/Mg2+ binding site [chemical binding]; other site 335284001255 Switch I region; other site 335284001256 G2 box; other site 335284001257 G3 box; other site 335284001258 Switch II region; other site 335284001259 G4 box; other site 335284001260 G5 box; other site 335284001261 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 335284001262 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 335284001263 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 335284001264 signal peptidase I; Provisional; Region: PRK10861 335284001265 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 335284001266 Catalytic site [active] 335284001267 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 335284001268 ribonuclease III; Reviewed; Region: rnc; PRK00102 335284001269 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 335284001270 dimerization interface [polypeptide binding]; other site 335284001271 active site 335284001272 metal binding site [ion binding]; metal-binding site 335284001273 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 335284001274 dsRNA binding site [nucleotide binding]; other site 335284001275 GTPase Era; Reviewed; Region: era; PRK00089 335284001276 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 335284001277 G1 box; other site 335284001278 GTP/Mg2+ binding site [chemical binding]; other site 335284001279 Switch I region; other site 335284001280 G2 box; other site 335284001281 Switch II region; other site 335284001282 G3 box; other site 335284001283 G4 box; other site 335284001284 G5 box; other site 335284001285 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 335284001286 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 335284001287 Recombination protein O N terminal; Region: RecO_N; cl15812 335284001288 Recombination protein O C terminal; Region: RecO_C; pfam02565 335284001289 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 335284001290 active site 335284001291 hydrophilic channel; other site 335284001292 dimerization interface [polypeptide binding]; other site 335284001293 catalytic residues [active] 335284001294 active site lid [active] 335284001295 Type II transport protein GspH; Region: GspH; pfam12019 335284001296 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284001297 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 335284001298 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284001299 ligand binding site [chemical binding]; other site 335284001300 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 335284001301 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 335284001302 G1 box; other site 335284001303 putative GEF interaction site [polypeptide binding]; other site 335284001304 GTP/Mg2+ binding site [chemical binding]; other site 335284001305 Switch I region; other site 335284001306 G2 box; other site 335284001307 G3 box; other site 335284001308 Switch II region; other site 335284001309 G4 box; other site 335284001310 G5 box; other site 335284001311 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 335284001312 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 335284001313 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 335284001314 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 335284001315 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 335284001316 DNA binding site [nucleotide binding] 335284001317 catalytic residue [active] 335284001318 H2TH interface [polypeptide binding]; other site 335284001319 putative catalytic residues [active] 335284001320 turnover-facilitating residue; other site 335284001321 intercalation triad [nucleotide binding]; other site 335284001322 8OG recognition residue [nucleotide binding]; other site 335284001323 putative reading head residues; other site 335284001324 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 335284001325 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 335284001326 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 335284001327 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284001328 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 335284001329 synthetase active site [active] 335284001330 NTP binding site [chemical binding]; other site 335284001331 metal binding site [ion binding]; metal-binding site 335284001332 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 335284001333 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 335284001334 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 335284001335 TRAM domain; Region: TRAM; cl01282 335284001336 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; cl16911 335284001337 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 335284001338 active site 335284001339 catalytic site [active] 335284001340 substrate binding site [chemical binding]; other site 335284001341 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 335284001342 cysteine synthase B; Region: cysM; TIGR01138 335284001343 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 335284001344 dimer interface [polypeptide binding]; other site 335284001345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284001346 catalytic residue [active] 335284001347 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 335284001348 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284001349 dimer interface [polypeptide binding]; other site 335284001350 phosphorylation site [posttranslational modification] 335284001351 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 335284001352 ATP binding site [chemical binding]; other site 335284001353 Mg2+ binding site [ion binding]; other site 335284001354 G-X-G motif; other site 335284001355 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 335284001356 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 335284001357 active site 335284001358 phosphorylation site [posttranslational modification] 335284001359 intermolecular recognition site; other site 335284001360 dimerization interface [polypeptide binding]; other site 335284001361 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 335284001362 enoyl-CoA hydratase; Provisional; Region: PRK07509 335284001363 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 335284001364 substrate binding site [chemical binding]; other site 335284001365 oxyanion hole (OAH) forming residues; other site 335284001366 trimer interface [polypeptide binding]; other site 335284001367 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 335284001368 putative transporter; Provisional; Region: PRK11043 335284001369 putative substrate translocation pore; other site 335284001370 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284001371 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284001372 substrate binding pocket [chemical binding]; other site 335284001373 membrane-bound complex binding site; other site 335284001374 hinge residues; other site 335284001375 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 335284001376 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 335284001377 ATP binding site [chemical binding]; other site 335284001378 Mg2+ binding site [ion binding]; other site 335284001379 G-X-G motif; other site 335284001380 Response regulator receiver domain; Region: Response_reg; pfam00072 335284001381 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 335284001382 active site 335284001383 phosphorylation site [posttranslational modification] 335284001384 intermolecular recognition site; other site 335284001385 dimerization interface [polypeptide binding]; other site 335284001386 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 335284001387 Chemotaxis phosphatase CheX; Region: CheX; cl15816 335284001388 Chemotaxis phosphatase CheX; Region: CheX; cl15816 335284001389 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 335284001390 rRNA interaction site [nucleotide binding]; other site 335284001391 S8 interaction site; other site 335284001392 putative laminin-1 binding site; other site 335284001393 elongation factor Ts; Provisional; Region: tsf; PRK09377 335284001394 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 335284001395 Elongation factor TS; Region: EF_TS; pfam00889 335284001396 Elongation factor TS; Region: EF_TS; pfam00889 335284001397 Helix-turn-helix domains; Region: HTH; cl00088 335284001398 Helix-turn-helix domains; Region: HTH; cl00088 335284001399 HTH-like domain; Region: HTH_21; pfam13276 335284001400 Integrase core domain; Region: rve; cl01316 335284001401 Integrase core domain; Region: rve_3; cl15866 335284001402 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 335284001403 N-acetyl-D-glucosamine binding site [chemical binding]; other site 335284001404 catalytic residue [active] 335284001405 LrgB-like family; Region: LrgB; cl00596 335284001406 LrgA family; Region: LrgA; cl00608 335284001407 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 335284001408 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 335284001409 HflX GTPase family; Region: HflX; cd01878 335284001410 G1 box; other site 335284001411 GTP/Mg2+ binding site [chemical binding]; other site 335284001412 Switch I region; other site 335284001413 G2 box; other site 335284001414 G3 box; other site 335284001415 Switch II region; other site 335284001416 G4 box; other site 335284001417 G5 box; other site 335284001418 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 335284001419 putative acyl-acceptor binding pocket; other site 335284001420 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 335284001421 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 335284001422 active site 335284001423 catalytic tetrad [active] 335284001424 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 335284001425 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 335284001426 DNA-binding site [nucleotide binding]; DNA binding site 335284001427 RNA-binding motif; other site 335284001428 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 335284001429 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 335284001430 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 335284001431 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284001432 active site 335284001433 HIGH motif; other site 335284001434 nucleotide binding site [chemical binding]; other site 335284001435 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 335284001436 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 335284001437 active site 335284001438 KMSKS motif; other site 335284001439 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 335284001440 tRNA binding surface [nucleotide binding]; other site 335284001441 anticodon binding site; other site 335284001442 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 335284001443 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 335284001444 DNA-binding site [nucleotide binding]; DNA binding site 335284001445 FCD domain; Region: FCD; cl11656 335284001446 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 335284001447 Sodium:solute symporter family; Region: SSF; cl00456 335284001448 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 335284001449 catalytic residues [active] 335284001450 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 335284001451 Predicted amidohydrolase [General function prediction only]; Region: COG0388 335284001452 putative active site [active] 335284001453 catalytic triad [active] 335284001454 putative dimer interface [polypeptide binding]; other site 335284001455 Sensors of blue-light using FAD; Region: BLUF; cl04855 335284001456 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 335284001457 FAD binding domain; Region: FAD_binding_4; pfam01565 335284001458 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 335284001459 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001460 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 335284001461 L-serine binding site [chemical binding]; other site 335284001462 ACT domain interface; other site 335284001463 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 335284001464 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 335284001465 active site residue [active] 335284001466 Sel1 repeat; Region: Sel1; cl02723 335284001467 Sel1 repeat; Region: Sel1; cl02723 335284001468 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 335284001469 S-adenosylmethionine binding site [chemical binding]; other site 335284001470 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 335284001471 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 335284001472 Ferrochelatase; Region: Ferrochelatase; pfam00762 335284001473 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 335284001474 C-terminal domain interface [polypeptide binding]; other site 335284001475 active site 335284001476 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 335284001477 active site 335284001478 N-terminal domain interface [polypeptide binding]; other site 335284001479 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 335284001480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001481 NAD(P) binding site [chemical binding]; other site 335284001482 active site 335284001483 DNA polymerase I; Provisional; Region: PRK05755 335284001484 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 335284001485 active site 335284001486 metal binding site 1 [ion binding]; metal-binding site 335284001487 putative 5' ssDNA interaction site; other site 335284001488 metal binding site 3; metal-binding site 335284001489 metal binding site 2 [ion binding]; metal-binding site 335284001490 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 335284001491 putative DNA binding site [nucleotide binding]; other site 335284001492 putative metal binding site [ion binding]; other site 335284001493 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 335284001494 active site 335284001495 catalytic site [active] 335284001496 substrate binding site [chemical binding]; other site 335284001497 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 335284001498 active site 335284001499 DNA binding site [nucleotide binding] 335284001500 catalytic site [active] 335284001501 OsmC-like protein; Region: OsmC; cl00767 335284001502 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284001503 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 335284001504 active site residue [active] 335284001505 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 335284001506 active site residue [active] 335284001507 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 335284001508 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 335284001509 G1 box; other site 335284001510 putative GEF interaction site [polypeptide binding]; other site 335284001511 GTP/Mg2+ binding site [chemical binding]; other site 335284001512 Switch I region; other site 335284001513 G2 box; other site 335284001514 G3 box; other site 335284001515 Switch II region; other site 335284001516 G4 box; other site 335284001517 G5 box; other site 335284001518 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 335284001519 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 335284001520 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 335284001521 phosphopeptide binding site; other site 335284001522 ribonuclease E; Reviewed; Region: rne; PRK10811 335284001523 elongation factor Tu; Reviewed; Region: PRK00049 335284001524 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 335284001525 G1 box; other site 335284001526 GEF interaction site [polypeptide binding]; other site 335284001527 GTP/Mg2+ binding site [chemical binding]; other site 335284001528 Switch I region; other site 335284001529 G2 box; other site 335284001530 G3 box; other site 335284001531 Switch II region; other site 335284001532 G4 box; other site 335284001533 G5 box; other site 335284001534 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 335284001535 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 335284001536 Antibiotic Binding Site [chemical binding]; other site 335284001537 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 335284001538 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284001539 Coenzyme A binding pocket [chemical binding]; other site 335284001540 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 335284001541 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 335284001542 DNA binding residues [nucleotide binding] 335284001543 dimer interface [polypeptide binding]; other site 335284001544 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284001545 thioredoxin reductase; Provisional; Region: PRK10262 335284001546 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284001547 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 335284001548 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 335284001549 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001550 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 335284001551 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 335284001552 Amidase; Region: Amidase; cl11426 335284001553 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 335284001554 putative active site [active] 335284001555 metal binding site [ion binding]; metal-binding site 335284001556 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 335284001557 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 335284001558 Protein of unknown function (DUF421); Region: DUF421; cl00990 335284001559 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284001560 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 335284001561 active site 335284001562 catalytic site [active] 335284001563 substrate binding site [chemical binding]; other site 335284001564 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 335284001565 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 335284001566 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 335284001567 metal binding triad; other site 335284001568 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 335284001569 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 335284001570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284001571 homodimer interface [polypeptide binding]; other site 335284001572 catalytic residue [active] 335284001573 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 335284001574 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 335284001575 metal binding triad; other site 335284001576 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 335284001577 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284001578 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 335284001579 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 335284001580 methionine aminopeptidase; Provisional; Region: PRK08671 335284001581 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 335284001582 active site 335284001583 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 335284001584 lipase chaperone; Provisional; Region: PRK01294 335284001585 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 335284001586 META domain; Region: META; cl01245 335284001587 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 335284001588 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284001589 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284001590 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 335284001591 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; cl01792 335284001592 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 335284001593 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 335284001594 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 335284001595 substrate binding pocket [chemical binding]; other site 335284001596 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 335284001597 B12 binding site [chemical binding]; other site 335284001598 cobalt ligand [ion binding]; other site 335284001599 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 335284001600 Fasciclin domain; Region: Fasciclin; cl02663 335284001601 Fasciclin domain; Region: Fasciclin; cl02663 335284001602 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 335284001603 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 335284001604 LemA family; Region: LemA; cl00742 335284001605 Repair protein; Region: Repair_PSII; cl01535 335284001606 Repair protein; Region: Repair_PSII; cl01535 335284001607 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 335284001608 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 335284001609 active site 335284001610 purine riboside binding site [chemical binding]; other site 335284001611 NAD-dependent deacetylase; Provisional; Region: PRK00481 335284001612 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 335284001613 NAD+ binding site [chemical binding]; other site 335284001614 substrate binding site [chemical binding]; other site 335284001615 Zn binding site [ion binding]; other site 335284001616 Cytochrome c; Region: Cytochrom_C; cl11414 335284001617 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 335284001618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001619 Walker A/P-loop; other site 335284001620 ATP binding site [chemical binding]; other site 335284001621 Q-loop/lid; other site 335284001622 ABC transporter signature motif; other site 335284001623 Walker B; other site 335284001624 D-loop; other site 335284001625 H-loop/switch region; other site 335284001626 ABC-2 type transporter; Region: ABC2_membrane; cl11417 335284001627 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 335284001628 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 335284001629 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 335284001630 prolyl-tRNA synthetase; Provisional; Region: PRK09194 335284001631 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 335284001632 dimer interface [polypeptide binding]; other site 335284001633 motif 1; other site 335284001634 active site 335284001635 motif 2; other site 335284001636 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 335284001637 putative deacylase active site [active] 335284001638 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 335284001639 active site 335284001640 motif 3; other site 335284001641 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 335284001642 anticodon binding site; other site 335284001643 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 335284001644 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 335284001645 DNA photolyase; Region: DNA_photolyase; pfam00875 335284001646 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 335284001647 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 335284001648 active site 335284001649 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 335284001650 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 335284001651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284001652 catalytic residue [active] 335284001653 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 335284001654 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 335284001655 substrate binding site [chemical binding]; other site 335284001656 active site 335284001657 catalytic residues [active] 335284001658 heterodimer interface [polypeptide binding]; other site 335284001659 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 335284001660 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 335284001661 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 335284001662 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284001663 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 335284001664 putative peptidoglycan binding site; other site 335284001665 Sporulation related domain; Region: SPOR; cl10051 335284001666 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 335284001667 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 335284001668 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 335284001669 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 335284001670 GatB domain; Region: GatB_Yqey; cl11497 335284001671 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 335284001672 Amidase; Region: Amidase; cl11426 335284001673 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 335284001674 rod shape-determining protein MreB; Provisional; Region: PRK13927 335284001675 Cell division protein FtsA; Region: FtsA; cl11496 335284001676 rod shape-determining protein MreC; Provisional; Region: PRK13922 335284001677 rod shape-determining protein MreC; Region: MreC; pfam04085 335284001678 rod shape-determining protein MreD; Region: MreD; cl01087 335284001679 Maf-like protein; Region: Maf; pfam02545 335284001680 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 335284001681 active site 335284001682 dimer interface [polypeptide binding]; other site 335284001683 ribonuclease G; Provisional; Region: PRK11712 335284001684 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 335284001685 homodimer interface [polypeptide binding]; other site 335284001686 oligonucleotide binding site [chemical binding]; other site 335284001687 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 335284001688 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 335284001689 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 335284001690 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 335284001691 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 335284001692 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 335284001693 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 335284001694 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 335284001695 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; cl00327 335284001696 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 335284001697 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 335284001698 G-X-X-G motif; other site 335284001699 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 335284001700 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 335284001701 23S rRNA interface [nucleotide binding]; other site 335284001702 5S rRNA interface [nucleotide binding]; other site 335284001703 putative antibiotic binding site [chemical binding]; other site 335284001704 L25 interface [polypeptide binding]; other site 335284001705 L27 interface [polypeptide binding]; other site 335284001706 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 335284001707 23S rRNA interface [nucleotide binding]; other site 335284001708 putative translocon interaction site; other site 335284001709 signal recognition particle (SRP54) interaction site; other site 335284001710 L23 interface [polypeptide binding]; other site 335284001711 trigger factor interaction site; other site 335284001712 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 335284001713 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 335284001714 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 335284001715 KOW motif; Region: KOW; cl00354 335284001716 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 335284001717 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 335284001718 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 335284001719 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 335284001720 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 335284001721 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 335284001722 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 335284001723 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 335284001724 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 335284001725 5S rRNA interface [nucleotide binding]; other site 335284001726 23S rRNA interface [nucleotide binding]; other site 335284001727 L5 interface [polypeptide binding]; other site 335284001728 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 335284001729 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 335284001730 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 335284001731 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 335284001732 23S rRNA binding site [nucleotide binding]; other site 335284001733 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 335284001734 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 335284001735 SecY translocase; Region: SecY; pfam00344 335284001736 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 335284001737 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 335284001738 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 335284001739 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 335284001740 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 335284001741 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 335284001742 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 335284001743 RNA binding surface [nucleotide binding]; other site 335284001744 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 335284001745 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 335284001746 alphaNTD homodimer interface [polypeptide binding]; other site 335284001747 alphaNTD - beta interaction site [polypeptide binding]; other site 335284001748 alphaNTD - beta' interaction site [polypeptide binding]; other site 335284001749 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 335284001750 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 335284001751 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 335284001752 Protein of unknown function, DUF462; Region: DUF462; cl01190 335284001753 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 335284001754 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 335284001755 Acyl transferase domain; Region: Acyl_transf_1; cl08282 335284001756 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 335284001757 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 335284001758 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 335284001759 NAD(P) binding site [chemical binding]; other site 335284001760 homotetramer interface [polypeptide binding]; other site 335284001761 homodimer interface [polypeptide binding]; other site 335284001762 active site 335284001763 Phosphopantetheine attachment site; Region: PP-binding; cl09936 335284001764 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 335284001765 BON domain; Region: BON; cl02771 335284001766 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 335284001767 putative peptidoglycan binding site; other site 335284001768 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 335284001769 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 335284001770 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 335284001771 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 335284001772 putative substrate binding site [chemical binding]; other site 335284001773 putative ATP binding site [chemical binding]; other site 335284001774 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 335284001775 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 335284001776 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 335284001777 PYR/PP interface [polypeptide binding]; other site 335284001778 dimer interface [polypeptide binding]; other site 335284001779 TPP binding site [chemical binding]; other site 335284001780 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 335284001781 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 335284001782 TPP-binding site [chemical binding]; other site 335284001783 dimer interface [polypeptide binding]; other site 335284001784 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 335284001785 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 335284001786 putative valine binding site [chemical binding]; other site 335284001787 dimer interface [polypeptide binding]; other site 335284001788 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 335284001789 ketol-acid reductoisomerase; Provisional; Region: PRK05479 335284001790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001791 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 335284001792 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 335284001793 DNA-binding site [nucleotide binding]; DNA binding site 335284001794 RNA-binding motif; other site 335284001795 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 335284001796 Ligand binding site [chemical binding]; other site 335284001797 Electron transfer flavoprotein domain; Region: ETF; pfam01012 335284001798 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 335284001799 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 335284001800 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 335284001801 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 335284001802 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 335284001803 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 335284001804 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 335284001805 AMP binding site [chemical binding]; other site 335284001806 metal binding site [ion binding]; metal-binding site 335284001807 active site 335284001808 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 335284001809 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 335284001810 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001811 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 335284001812 dihydroorotase; Provisional; Region: PRK08417 335284001813 active site 335284001814 Predicted membrane protein (DUF2127); Region: DUF2127; cl01785 335284001815 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 335284001816 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 335284001817 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 335284001818 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 335284001819 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 335284001820 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 335284001821 oligomerisation interface [polypeptide binding]; other site 335284001822 mobile loop; other site 335284001823 roof hairpin; other site 335284001824 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 335284001825 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 335284001826 ring oligomerisation interface [polypeptide binding]; other site 335284001827 ATP/Mg binding site [chemical binding]; other site 335284001828 stacking interactions; other site 335284001829 hinge regions; other site 335284001830 Protein of unknown function (DUF328); Region: DUF328; cl01143 335284001831 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 335284001832 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 335284001833 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 335284001834 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 335284001835 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 335284001836 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 335284001837 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 335284001838 active site 335284001839 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 335284001840 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 335284001841 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 335284001842 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 335284001843 metal binding site [ion binding]; metal-binding site 335284001844 dimer interface [polypeptide binding]; other site 335284001845 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 335284001846 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 335284001847 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 335284001848 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 335284001849 OsmC-like protein; Region: OsmC; cl00767 335284001850 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 335284001851 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; cl16911 335284001852 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 335284001853 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 335284001854 hydroperoxidase II; Provisional; Region: katE; PRK11249 335284001855 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 335284001856 heme binding pocket [chemical binding]; other site 335284001857 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 335284001858 domain interactions; other site 335284001859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284001860 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 335284001861 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 335284001862 Walker A/P-loop; other site 335284001863 ATP binding site [chemical binding]; other site 335284001864 Q-loop/lid; other site 335284001865 ABC transporter signature motif; other site 335284001866 Walker B; other site 335284001867 D-loop; other site 335284001868 H-loop/switch region; other site 335284001869 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 335284001870 FtsX-like permease family; Region: FtsX; cl15850 335284001871 macrolide transporter subunit MacA; Provisional; Region: PRK11578 335284001872 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284001873 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284001874 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 335284001875 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 335284001876 Lipopolysaccharide-assembly; Region: LptE; cl01125 335284001877 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 335284001878 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 335284001879 HIGH motif; other site 335284001880 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 335284001881 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284001882 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284001883 active site 335284001884 KMSKS motif; other site 335284001885 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 335284001886 tRNA binding surface [nucleotide binding]; other site 335284001887 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 335284001888 ArsC family; Region: ArsC; pfam03960 335284001889 putative catalytic residues [active] 335284001890 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 335284001891 feedback inhibition sensing region; other site 335284001892 homohexameric interface [polypeptide binding]; other site 335284001893 nucleotide binding site [chemical binding]; other site 335284001894 N-acetyl-L-glutamate binding site [chemical binding]; other site 335284001895 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 335284001896 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 335284001897 active site 335284001898 substrate binding site [chemical binding]; other site 335284001899 metal binding site [ion binding]; metal-binding site 335284001900 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 335284001901 trimer interface [polypeptide binding]; other site 335284001902 active site 335284001903 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 335284001904 MgtE intracellular N domain; Region: MgtE_N; cl15244 335284001905 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 335284001906 Divalent cation transporter; Region: MgtE; cl00786 335284001907 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 335284001908 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001909 Family description; Region: UvrD_C_2; cl15862 335284001910 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 335284001911 NADH dehydrogenase subunit B; Validated; Region: PRK06411 335284001912 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 335284001913 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 335284001914 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16919 335284001915 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 335284001916 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 335284001917 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 335284001918 putative dimer interface [polypeptide binding]; other site 335284001919 [2Fe-2S] cluster binding site [ion binding]; other site 335284001920 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 335284001921 SLBB domain; Region: SLBB; pfam10531 335284001922 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 335284001923 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 335284001924 catalytic loop [active] 335284001925 iron binding site [ion binding]; other site 335284001926 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 335284001927 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 335284001928 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 335284001929 [4Fe-4S] binding site [ion binding]; other site 335284001930 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 335284001931 NADH dehydrogenase; Region: NADHdh; cl00469 335284001932 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 335284001933 4Fe-4S binding domain; Region: Fer4; cl02805 335284001934 4Fe-4S binding domain; Region: Fer4; cl02805 335284001935 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 335284001936 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 335284001937 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 335284001938 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 335284001939 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 335284001940 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 335284001941 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 335284001942 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 335284001943 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 335284001944 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 335284001945 ferredoxin-NADP reductase; Provisional; Region: PRK10926 335284001946 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 335284001947 FAD binding pocket [chemical binding]; other site 335284001948 FAD binding motif [chemical binding]; other site 335284001949 phosphate binding motif [ion binding]; other site 335284001950 beta-alpha-beta structure motif; other site 335284001951 NAD binding pocket [chemical binding]; other site 335284001952 Gram-negative bacterial tonB protein; Region: TonB; cl10048 335284001953 Mechanosensitive ion channel; Region: MS_channel; pfam00924 335284001954 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 335284001955 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 335284001956 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001958 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 335284001959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001960 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 335284001961 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 335284001962 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 335284001963 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284001964 ligand binding site [chemical binding]; other site 335284001965 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 335284001966 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284001967 ligand binding site [chemical binding]; other site 335284001968 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 335284001969 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284001970 ligand binding site [chemical binding]; other site 335284001971 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 335284001972 ligand binding site [chemical binding]; other site 335284001973 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 335284001974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284001975 L-aspartate oxidase; Provisional; Region: PRK09077 335284001976 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 335284001977 Quinolinate synthetase A protein; Region: NadA; cl00420 335284001978 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 335284001979 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 335284001980 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 335284001981 dimerization interface [polypeptide binding]; other site 335284001982 active site 335284001983 MarC family integral membrane protein; Region: MarC; cl00919 335284001984 LysE type translocator; Region: LysE; cl00565 335284001985 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 335284001986 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 335284001987 RNA binding surface [nucleotide binding]; other site 335284001988 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 335284001989 probable active site [active] 335284001990 polysaccharide export protein Wza; Provisional; Region: PRK15078 335284001991 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 335284001992 Low molecular weight phosphatase family; Region: LMWPc; cd00115 335284001993 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 335284001994 active site 335284001995 tyrosine kinase; Provisional; Region: PRK11519 335284001996 Chain length determinant protein; Region: Wzz; cl15801 335284001997 Chain length determinant protein; Region: Wzz; cl15801 335284001998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284001999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284002000 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 335284002001 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 335284002002 NAD(P) binding site [chemical binding]; other site 335284002003 homodimer interface [polypeptide binding]; other site 335284002004 substrate binding site [chemical binding]; other site 335284002005 active site 335284002006 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 335284002007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002008 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 335284002009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002011 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 335284002012 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 335284002013 putative trimer interface [polypeptide binding]; other site 335284002014 putative CoA binding site [chemical binding]; other site 335284002015 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 335284002016 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 335284002017 inhibitor-cofactor binding pocket; inhibition site 335284002018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002019 catalytic residue [active] 335284002020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002021 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 335284002022 NAD(P) binding site [chemical binding]; other site 335284002023 active site 335284002024 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 335284002025 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 335284002026 inhibitor-cofactor binding pocket; inhibition site 335284002027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002028 catalytic residue [active] 335284002029 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 335284002030 trimer interface [polypeptide binding]; other site 335284002031 active site 335284002032 substrate binding site [chemical binding]; other site 335284002033 CoA binding site [chemical binding]; other site 335284002034 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 335284002035 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 335284002036 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 335284002037 MatE; Region: MatE; cl10513 335284002038 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 335284002039 active site 335284002040 dimer interface [polypeptide binding]; other site 335284002041 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 335284002042 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 335284002043 Ligand Binding Site [chemical binding]; other site 335284002044 Molecular Tunnel; other site 335284002045 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 335284002046 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 335284002047 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 335284002048 NAD binding site [chemical binding]; other site 335284002049 substrate binding site [chemical binding]; other site 335284002050 homodimer interface [polypeptide binding]; other site 335284002051 active site 335284002052 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 335284002053 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 335284002054 substrate binding site; other site 335284002055 tetramer interface; other site 335284002056 Cupin domain; Region: Cupin_2; cl09118 335284002057 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 335284002058 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 335284002059 NADP binding site [chemical binding]; other site 335284002060 active site 335284002061 putative substrate binding site [chemical binding]; other site 335284002062 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 335284002063 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 335284002064 Probable Catalytic site; other site 335284002065 metal-binding site 335284002066 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 335284002067 Helix-turn-helix domains; Region: HTH; cl00088 335284002068 putative transposase OrfB; Reviewed; Region: PHA02517 335284002069 HTH-like domain; Region: HTH_21; pfam13276 335284002070 Integrase core domain; Region: rve; cl01316 335284002071 Integrase core domain; Region: rve_3; cl15866 335284002072 Transposase; Region: HTH_Tnp_IS630; pfam01710 335284002073 Helix-turn-helix domains; Region: HTH; cl00088 335284002074 Integrase core domain; Region: rve; cl01316 335284002075 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 335284002076 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 335284002077 putative ADP-binding pocket [chemical binding]; other site 335284002078 Bacterial sugar transferase; Region: Bac_transf; cl00939 335284002079 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 335284002080 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 335284002081 putative trimer interface [polypeptide binding]; other site 335284002082 putative CoA binding site [chemical binding]; other site 335284002083 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 335284002084 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 335284002085 inhibitor-cofactor binding pocket; inhibition site 335284002086 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002087 catalytic residue [active] 335284002088 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 335284002089 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 335284002090 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 335284002091 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 335284002092 homodimer interface [polypeptide binding]; other site 335284002093 NADP binding site [chemical binding]; other site 335284002094 substrate binding site [chemical binding]; other site 335284002095 Phosphate-starvation-inducible E; Region: PsiE; cl01264 335284002096 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 335284002097 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 335284002098 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 335284002099 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 335284002100 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 335284002101 dimer interface [polypeptide binding]; other site 335284002102 motif 1; other site 335284002103 active site 335284002104 motif 2; other site 335284002105 motif 3; other site 335284002106 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 335284002107 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 335284002108 GDP-binding site [chemical binding]; other site 335284002109 ACT binding site; other site 335284002110 IMP binding site; other site 335284002111 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 335284002112 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 335284002113 active site 335284002114 multimer interface [polypeptide binding]; other site 335284002115 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 335284002116 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 335284002117 FeS/SAM binding site; other site 335284002118 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 335284002119 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 335284002120 Probable transposase; Region: OrfB_IS605; pfam01385 335284002121 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 335284002122 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 335284002123 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 335284002124 binding surface 335284002125 TPR motif; other site 335284002126 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 335284002127 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 335284002128 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 335284002129 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 335284002130 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 335284002131 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 335284002132 dimer interface [polypeptide binding]; other site 335284002133 motif 1; other site 335284002134 active site 335284002135 motif 2; other site 335284002136 motif 3; other site 335284002137 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 335284002138 anticodon binding site; other site 335284002139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 335284002140 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 335284002141 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 335284002142 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 335284002143 Trp docking motif [polypeptide binding]; other site 335284002144 active site 335284002145 GTP-binding protein Der; Reviewed; Region: PRK00093 335284002146 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 335284002147 G1 box; other site 335284002148 GTP/Mg2+ binding site [chemical binding]; other site 335284002149 Switch I region; other site 335284002150 G2 box; other site 335284002151 Switch II region; other site 335284002152 G3 box; other site 335284002153 G4 box; other site 335284002154 G5 box; other site 335284002155 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 335284002156 G1 box; other site 335284002157 GTP/Mg2+ binding site [chemical binding]; other site 335284002158 Switch I region; other site 335284002159 G2 box; other site 335284002160 G3 box; other site 335284002161 Switch II region; other site 335284002162 G4 box; other site 335284002163 G5 box; other site 335284002164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 335284002165 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284002166 dimer interface [polypeptide binding]; other site 335284002167 phosphorylation site [posttranslational modification] 335284002168 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 335284002169 ATP binding site [chemical binding]; other site 335284002170 Mg2+ binding site [ion binding]; other site 335284002171 G-X-G motif; other site 335284002172 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 335284002173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284002174 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 335284002175 amidase; Provisional; Region: PRK07869 335284002176 Survival protein SurE; Region: SurE; cl00448 335284002177 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 335284002178 putative peptidoglycan binding site; other site 335284002179 Peptidase family M23; Region: Peptidase_M23; pfam01551 335284002180 Transglycosylase SLT domain; Region: SLT_2; pfam13406 335284002181 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 335284002182 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 335284002183 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 335284002184 putative active site [active] 335284002185 putative metal binding site [ion binding]; other site 335284002186 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 335284002187 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 335284002188 substrate binding site [chemical binding]; other site 335284002189 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 335284002190 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284002191 active site 335284002192 HIGH motif; other site 335284002193 nucleotide binding site [chemical binding]; other site 335284002194 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 335284002195 KMSKS motif; other site 335284002196 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 335284002197 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 335284002198 PLD-like domain; Region: PLDc_2; pfam13091 335284002199 putative homodimer interface [polypeptide binding]; other site 335284002200 putative active site [active] 335284002201 catalytic site [active] 335284002202 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 335284002203 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 335284002204 dimer interface [polypeptide binding]; other site 335284002205 decamer (pentamer of dimers) interface [polypeptide binding]; other site 335284002206 catalytic triad [active] 335284002207 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 335284002208 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 335284002209 putative C-terminal domain interface [polypeptide binding]; other site 335284002210 putative GSH binding site (G-site) [chemical binding]; other site 335284002211 putative dimer interface [polypeptide binding]; other site 335284002212 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 335284002213 N-terminal domain interface [polypeptide binding]; other site 335284002214 dimer interface [polypeptide binding]; other site 335284002215 substrate binding pocket (H-site) [chemical binding]; other site 335284002216 MULE transposase domain; Region: MULE; pfam10551 335284002217 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284002218 META domain; Region: META; cl01245 335284002219 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 335284002220 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 335284002221 active site 335284002222 putative DNA-binding cleft [nucleotide binding]; other site 335284002223 dimer interface [polypeptide binding]; other site 335284002224 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 335284002225 Sulfatase; Region: Sulfatase; cl10460 335284002226 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 335284002227 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 335284002228 C-terminal peptidase (prc); Region: prc; TIGR00225 335284002229 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 335284002230 protein binding site [polypeptide binding]; other site 335284002231 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 335284002232 Catalytic dyad [active] 335284002233 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 335284002234 Response regulator receiver domain; Region: Response_reg; pfam00072 335284002235 active site 335284002236 phosphorylation site [posttranslational modification] 335284002237 intermolecular recognition site; other site 335284002238 dimerization interface [polypeptide binding]; other site 335284002239 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284002240 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 335284002241 Walker A motif; other site 335284002242 ATP binding site [chemical binding]; other site 335284002243 Walker B motif; other site 335284002244 arginine finger; other site 335284002245 Helix-turn-helix domains; Region: HTH; cl00088 335284002246 sensory histidine kinase AtoS; Provisional; Region: PRK11360 335284002247 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284002248 dimer interface [polypeptide binding]; other site 335284002249 phosphorylation site [posttranslational modification] 335284002250 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 335284002251 ATP binding site [chemical binding]; other site 335284002252 Mg2+ binding site [ion binding]; other site 335284002253 G-X-G motif; other site 335284002254 response regulator; Provisional; Region: PRK09483 335284002255 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 335284002256 active site 335284002257 phosphorylation site [posttranslational modification] 335284002258 intermolecular recognition site; other site 335284002259 dimerization interface [polypeptide binding]; other site 335284002260 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 335284002261 DNA binding residues [nucleotide binding] 335284002262 dimerization interface [polypeptide binding]; other site 335284002263 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 335284002264 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284002265 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 335284002266 thiamine phosphate binding site [chemical binding]; other site 335284002267 active site 335284002268 pyrophosphate binding site [ion binding]; other site 335284002269 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 335284002270 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; cl00198 335284002271 Phosphoglycerate kinase; Region: PGK; pfam00162 335284002272 substrate binding site [chemical binding]; other site 335284002273 hinge regions; other site 335284002274 ADP binding site [chemical binding]; other site 335284002275 catalytic site [active] 335284002276 hypothetical protein; Provisional; Region: PRK08185 335284002277 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 335284002278 intersubunit interface [polypeptide binding]; other site 335284002279 active site 335284002280 zinc binding site [ion binding]; other site 335284002281 Na+ binding site [ion binding]; other site 335284002282 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 335284002283 RuvA N terminal domain; Region: RuvA_N; pfam01330 335284002284 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 335284002285 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 335284002286 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 335284002287 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284002288 Walker A motif; other site 335284002289 ATP binding site [chemical binding]; other site 335284002290 Walker B motif; other site 335284002291 arginine finger; other site 335284002292 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 335284002293 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 335284002294 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284002295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 335284002296 SCP-2 sterol transfer family; Region: SCP2; cl01225 335284002297 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 335284002298 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 335284002299 S-adenosylmethionine binding site [chemical binding]; other site 335284002300 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; cl16911 335284002301 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 335284002302 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 335284002303 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 335284002304 Phosphate transporter family; Region: PHO4; cl00396 335284002305 Phosphate transporter family; Region: PHO4; cl00396 335284002306 bifunctional HTH-domain containing protein/aminotransferase; Provisional; Region: PRK13355 335284002307 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 335284002308 non-specific DNA binding site [nucleotide binding]; other site 335284002309 salt bridge; other site 335284002310 sequence-specific DNA binding site [nucleotide binding]; other site 335284002311 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 335284002312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002313 homodimer interface [polypeptide binding]; other site 335284002314 catalytic residue [active] 335284002315 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 335284002316 SelR domain; Region: SelR; pfam01641 335284002317 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 335284002318 catalytic residues [active] 335284002319 dimer interface [polypeptide binding]; other site 335284002320 Domain of unknown function (DUF305); Region: DUF305; cl15795 335284002321 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 335284002322 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 335284002323 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 335284002324 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 335284002325 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 335284002326 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 335284002327 Protein of unknown function, DUF; Region: DUF411; cl01142 335284002328 Cytochrome c; Region: Cytochrom_C; cl11414 335284002329 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 335284002330 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 335284002331 active site 335284002332 phosphorylation site [posttranslational modification] 335284002333 intermolecular recognition site; other site 335284002334 dimerization interface [polypeptide binding]; other site 335284002335 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284002336 DNA binding site [nucleotide binding] 335284002337 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 335284002338 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284002339 dimer interface [polypeptide binding]; other site 335284002340 phosphorylation site [posttranslational modification] 335284002341 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 335284002342 ATP binding site [chemical binding]; other site 335284002343 Mg2+ binding site [ion binding]; other site 335284002344 G-X-G motif; other site 335284002345 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 335284002346 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284002347 dimer interface [polypeptide binding]; other site 335284002348 conserved gate region; other site 335284002349 putative PBP binding loops; other site 335284002350 ABC-ATPase subunit interface; other site 335284002351 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 335284002352 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 335284002353 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 335284002354 MoaE homodimer interface [polypeptide binding]; other site 335284002355 MoaD interaction [polypeptide binding]; other site 335284002356 active site residues [active] 335284002357 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 335284002358 MoaE interaction surface [polypeptide binding]; other site 335284002359 MoeB interaction surface [polypeptide binding]; other site 335284002360 thiocarboxylated glycine; other site 335284002361 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 335284002362 trimer interface [polypeptide binding]; other site 335284002363 dimer interface [polypeptide binding]; other site 335284002364 putative active site [active] 335284002365 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 335284002366 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 335284002367 GTP binding site; other site 335284002368 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 335284002369 MPT binding site; other site 335284002370 trimer interface [polypeptide binding]; other site 335284002371 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 335284002372 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 335284002373 FeS/SAM binding site; other site 335284002374 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 335284002375 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 335284002376 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 335284002377 dimer interface [polypeptide binding]; other site 335284002378 putative functional site; other site 335284002379 putative MPT binding site; other site 335284002380 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 335284002381 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 335284002382 heme-binding site [chemical binding]; other site 335284002383 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 335284002384 FAD binding pocket [chemical binding]; other site 335284002385 FAD binding motif [chemical binding]; other site 335284002386 phosphate binding motif [ion binding]; other site 335284002387 beta-alpha-beta structure motif; other site 335284002388 NAD binding pocket [chemical binding]; other site 335284002389 Heme binding pocket [chemical binding]; other site 335284002390 putative transposase OrfB; Reviewed; Region: PHA02517 335284002391 Integrase core domain; Region: rve; cl01316 335284002392 Integrase core domain; Region: rve_3; cl15866 335284002393 putative transposase OrfB; Reviewed; Region: PHA02517 335284002394 HTH-like domain; Region: HTH_21; pfam13276 335284002395 Integrase core domain; Region: rve; cl01316 335284002396 Integrase core domain; Region: rve_3; cl15866 335284002397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284002398 Helix-turn-helix domains; Region: HTH; cl00088 335284002399 Helix-turn-helix domains; Region: HTH; cl00088 335284002400 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 335284002401 DHH family; Region: DHH; pfam01368 335284002402 DHHA1 domain; Region: DHHA1; pfam02272 335284002403 Predicted membrane protein [Function unknown]; Region: COG2860 335284002404 UPF0126 domain; Region: UPF0126; pfam03458 335284002405 UPF0126 domain; Region: UPF0126; pfam03458 335284002406 Predicted membrane protein [Function unknown]; Region: COG2860 335284002407 UPF0126 domain; Region: UPF0126; pfam03458 335284002408 UPF0126 domain; Region: UPF0126; pfam03458 335284002409 EamA-like transporter family; Region: EamA; cl01037 335284002410 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, clostridial; Region: rSAM_QueE_Clost; TIGR03963 335284002411 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 335284002412 FeS/SAM binding site; other site 335284002413 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 335284002414 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 335284002415 active site 335284002416 substrate binding site [chemical binding]; other site 335284002417 trimer interface [polypeptide binding]; other site 335284002418 CoA binding site [chemical binding]; other site 335284002419 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 335284002420 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 335284002421 short chain dehydrogenase; Provisional; Region: PRK06101 335284002422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002423 NAD(P) binding site [chemical binding]; other site 335284002424 active site 335284002425 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 335284002426 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002427 Uncharacterized conserved protein [Function unknown]; Region: COG3496 335284002428 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 335284002429 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 335284002430 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 335284002431 S-adenosylmethionine binding site [chemical binding]; other site 335284002432 Predicted membrane protein (DUF2177); Region: DUF2177; cl02014 335284002433 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 335284002434 Cation efflux family; Region: Cation_efflux; cl00316 335284002435 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 335284002436 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 335284002437 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 335284002438 dimerization interface [polypeptide binding]; other site 335284002439 DPS ferroxidase diiron center [ion binding]; other site 335284002440 ion pore; other site 335284002441 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 335284002442 excinuclease ABC subunit B; Provisional; Region: PRK05298 335284002443 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 335284002444 ATP binding site [chemical binding]; other site 335284002445 putative Mg++ binding site [ion binding]; other site 335284002446 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 335284002447 nucleotide binding region [chemical binding]; other site 335284002448 ATP-binding site [chemical binding]; other site 335284002449 Ultra-violet resistance protein B; Region: UvrB; pfam12344 335284002450 UvrB/uvrC motif; Region: UVR; pfam02151 335284002451 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 335284002452 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 335284002453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002454 homodimer interface [polypeptide binding]; other site 335284002455 catalytic residue [active] 335284002456 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284002457 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 335284002458 substrate binding pocket [chemical binding]; other site 335284002459 membrane-bound complex binding site; other site 335284002460 Domain of unknown function (DUF1850); Region: DUF1850; cl01950 335284002461 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 335284002462 DctM-like transporters; Region: DctM; pfam06808 335284002463 lipoyl synthase; Provisional; Region: PRK05481 335284002464 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 335284002465 FeS/SAM binding site; other site 335284002466 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 335284002467 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 335284002468 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 335284002469 substrate binding site [chemical binding]; other site 335284002470 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 335284002471 substrate binding site [chemical binding]; other site 335284002472 ligand binding site [chemical binding]; other site 335284002473 Helix-turn-helix domains; Region: HTH; cl00088 335284002474 Helix-turn-helix domains; Region: HTH; cl00088 335284002475 HTH-like domain; Region: HTH_21; pfam13276 335284002476 Integrase core domain; Region: rve; cl01316 335284002477 Integrase core domain; Region: rve_3; cl15866 335284002478 Predicted membrane protein [Function unknown]; Region: COG4125 335284002479 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 335284002480 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 335284002481 enoyl-CoA hydratase; Provisional; Region: PRK06688 335284002482 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 335284002483 substrate binding site [chemical binding]; other site 335284002484 oxyanion hole (OAH) forming residues; other site 335284002485 trimer interface [polypeptide binding]; other site 335284002486 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 335284002487 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 335284002488 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 335284002489 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 335284002490 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 335284002491 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 335284002492 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 335284002493 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 335284002494 Walker A/P-loop; other site 335284002495 ATP binding site [chemical binding]; other site 335284002496 Q-loop/lid; other site 335284002497 ABC transporter signature motif; other site 335284002498 Walker B; other site 335284002499 D-loop; other site 335284002500 H-loop/switch region; other site 335284002501 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 335284002502 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 335284002503 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 335284002504 Walker A/P-loop; other site 335284002505 ATP binding site [chemical binding]; other site 335284002506 Q-loop/lid; other site 335284002507 ABC transporter signature motif; other site 335284002508 Walker B; other site 335284002509 D-loop; other site 335284002510 H-loop/switch region; other site 335284002511 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 335284002512 dipeptide transporter; Provisional; Region: PRK10913 335284002513 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 335284002514 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284002515 dimer interface [polypeptide binding]; other site 335284002516 conserved gate region; other site 335284002517 putative PBP binding loops; other site 335284002518 ABC-ATPase subunit interface; other site 335284002519 dipeptide transporter permease DppB; Provisional; Region: PRK10914 335284002520 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284002521 dimer interface [polypeptide binding]; other site 335284002522 conserved gate region; other site 335284002523 putative PBP binding loops; other site 335284002524 ABC-ATPase subunit interface; other site 335284002525 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 335284002526 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 335284002527 peptide binding site [polypeptide binding]; other site 335284002528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284002529 active site 335284002530 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 335284002531 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK12815 335284002532 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284002533 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284002534 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 335284002535 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284002536 putative metal binding site [ion binding]; other site 335284002537 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 335284002538 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 335284002539 Histidine kinase; Region: His_kinase; pfam06580 335284002540 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 335284002541 two-component response regulator; Provisional; Region: PRK14084 335284002542 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 335284002543 active site 335284002544 phosphorylation site [posttranslational modification] 335284002545 intermolecular recognition site; other site 335284002546 dimerization interface [polypeptide binding]; other site 335284002547 LytTr DNA-binding domain; Region: LytTR; cl04498 335284002548 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 335284002549 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 335284002550 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284002551 putative metal binding site [ion binding]; other site 335284002552 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 335284002553 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 335284002554 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284002555 putative metal binding site [ion binding]; other site 335284002556 Integral membrane protein TerC family; Region: TerC; cl10468 335284002557 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 335284002558 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284002559 putative metal binding site [ion binding]; other site 335284002560 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 335284002561 THUMP domain; Region: THUMP; cl12076 335284002562 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; cl16911 335284002563 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 335284002564 S-adenosylmethionine binding site [chemical binding]; other site 335284002565 Mechanosensitive ion channel; Region: MS_channel; pfam00924 335284002566 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 335284002567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284002568 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 335284002569 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 335284002570 catalytic triad [active] 335284002571 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 335284002572 Ligand Binding Site [chemical binding]; other site 335284002573 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 335284002574 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 335284002575 Ligand Binding Site [chemical binding]; other site 335284002576 FixH; Region: FixH; cl01254 335284002577 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 335284002578 4Fe-4S binding domain; Region: Fer4_5; pfam12801 335284002579 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 335284002580 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 335284002581 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 335284002582 Cytochrome c; Region: Cytochrom_C; cl11414 335284002583 Cytochrome c; Region: Cytochrom_C; cl11414 335284002584 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 335284002585 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 335284002586 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 335284002587 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 335284002588 Low-spin heme binding site [chemical binding]; other site 335284002589 Putative water exit pathway; other site 335284002590 Binuclear center (active site) [active] 335284002591 Putative proton exit pathway; other site 335284002592 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 335284002593 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 335284002594 FtsX-like permease family; Region: FtsX; cl15850 335284002595 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 335284002596 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 335284002597 Walker A/P-loop; other site 335284002598 ATP binding site [chemical binding]; other site 335284002599 Q-loop/lid; other site 335284002600 ABC transporter signature motif; other site 335284002601 Walker B; other site 335284002602 D-loop; other site 335284002603 H-loop/switch region; other site 335284002604 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 335284002605 Competence protein; Region: Competence; cl00471 335284002606 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 335284002607 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 335284002608 tandem repeat interface [polypeptide binding]; other site 335284002609 oligomer interface [polypeptide binding]; other site 335284002610 active site residues [active] 335284002611 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284002612 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 335284002613 CAAX protease self-immunity; Region: Abi; cl00558 335284002614 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 335284002615 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 335284002616 FMN binding site [chemical binding]; other site 335284002617 active site 335284002618 catalytic residues [active] 335284002619 substrate binding site [chemical binding]; other site 335284002620 metabolite-proton symporter; Region: 2A0106; TIGR00883 335284002621 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 335284002622 putative substrate translocation pore; other site 335284002623 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 335284002624 PLD-like domain; Region: PLDc_2; pfam13091 335284002625 putative active site [active] 335284002626 catalytic site [active] 335284002627 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 335284002628 PLD-like domain; Region: PLDc_2; pfam13091 335284002629 putative active site [active] 335284002630 catalytic site [active] 335284002631 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 335284002632 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 335284002633 homodimer interface [polypeptide binding]; other site 335284002634 substrate-cofactor binding pocket; other site 335284002635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002636 catalytic residue [active] 335284002637 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 335284002638 recombination protein RecR; Reviewed; Region: recR; PRK00076 335284002639 RecR protein; Region: RecR; pfam02132 335284002640 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 335284002641 putative active site [active] 335284002642 putative metal-binding site [ion binding]; other site 335284002643 tetramer interface [polypeptide binding]; other site 335284002644 ribonuclease D; Region: rnd; TIGR01388 335284002645 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 335284002646 catalytic site [active] 335284002647 putative active site [active] 335284002648 putative substrate binding site [chemical binding]; other site 335284002649 HRDC domain; Region: HRDC; cl02578 335284002650 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 335284002651 glycine dehydrogenase; Provisional; Region: PRK05367 335284002652 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 335284002653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 335284002654 catalytic residue [active] 335284002655 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 335284002656 tetramer interface [polypeptide binding]; other site 335284002657 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002658 catalytic residue [active] 335284002659 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 335284002660 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 335284002661 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 335284002662 lipoyl attachment site [posttranslational modification]; other site 335284002663 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 335284002664 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 335284002665 YcgL domain; Region: YcgL; cl01189 335284002666 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284002667 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 335284002668 Walker A motif; other site 335284002669 ATP binding site [chemical binding]; other site 335284002670 Walker B motif; other site 335284002671 arginine finger; other site 335284002672 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 335284002673 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 335284002674 Predicted periplasmic protein [Function unknown]; Region: COG3698 335284002675 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 335284002676 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 335284002677 active site 335284002678 FMN binding site [chemical binding]; other site 335284002679 substrate binding site [chemical binding]; other site 335284002680 3Fe-4S cluster binding site [ion binding]; other site 335284002681 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284002682 Helix-turn-helix domains; Region: HTH; cl00088 335284002683 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284002684 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 335284002685 acyl-coenzyme A oxidase; Region: PLN02526 335284002686 FAD binding site [chemical binding]; other site 335284002687 substrate binding pocket [chemical binding]; other site 335284002688 catalytic base [active] 335284002689 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 335284002690 CoA-transferase family III; Region: CoA_transf_3; pfam02515 335284002691 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284002692 Helix-turn-helix domains; Region: HTH; cl00088 335284002693 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284002694 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284002695 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 335284002696 tetramerization interface [polypeptide binding]; other site 335284002697 NAD(P) binding site [chemical binding]; other site 335284002698 catalytic residues [active] 335284002699 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 335284002700 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 335284002701 inhibitor-cofactor binding pocket; inhibition site 335284002702 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002703 catalytic residue [active] 335284002704 amino acid transporter; Region: 2A0306; TIGR00909 335284002705 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284002706 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 335284002707 NAD(P) binding site [chemical binding]; other site 335284002708 catalytic residues [active] 335284002709 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 335284002710 agmatine deiminase; Region: agmatine_aguA; TIGR03380 335284002711 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 335284002712 Cupin domain; Region: Cupin_2; cl09118 335284002713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 335284002714 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 335284002715 putative ADP-binding pocket [chemical binding]; other site 335284002716 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 335284002717 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 335284002718 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 335284002719 FeS/SAM binding site; other site 335284002720 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 335284002721 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 335284002722 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 335284002723 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 335284002724 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 335284002725 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 335284002726 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284002727 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 335284002728 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 335284002729 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284002730 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 335284002731 IMP binding site; other site 335284002732 dimer interface [polypeptide binding]; other site 335284002733 interdomain contacts; other site 335284002734 partial ornithine binding site; other site 335284002735 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 335284002736 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 335284002737 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 335284002738 catalytic site [active] 335284002739 subunit interface [polypeptide binding]; other site 335284002740 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 335284002741 active site 335284002742 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 335284002743 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 335284002744 trimer interface [polypeptide binding]; other site 335284002745 putative metal binding site [ion binding]; other site 335284002746 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284002747 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 335284002748 peptide chain release factor 2; Validated; Region: prfB; PRK00578 335284002749 RF-1 domain; Region: RF-1; cl02875 335284002750 RF-1 domain; Region: RF-1; cl02875 335284002751 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 335284002752 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 335284002753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284002754 Coenzyme A binding pocket [chemical binding]; other site 335284002755 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 335284002756 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 of...; Region: Topo_IB_C; cd00659 335284002757 active site 335284002758 DNA binding site [nucleotide binding] 335284002759 Int/Topo IB signature motif; other site 335284002760 catalytic residues [active] 335284002761 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 335284002762 AMP-binding enzyme; Region: AMP-binding; cl15778 335284002763 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284002764 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 335284002765 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 335284002766 NAD binding site [chemical binding]; other site 335284002767 homodimer interface [polypeptide binding]; other site 335284002768 homotetramer interface [polypeptide binding]; other site 335284002769 active site 335284002770 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 335284002771 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 335284002772 Clp amino terminal domain; Region: Clp_N; pfam02861 335284002773 Clp amino terminal domain; Region: Clp_N; pfam02861 335284002774 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284002775 Walker A motif; other site 335284002776 ATP binding site [chemical binding]; other site 335284002777 Walker B motif; other site 335284002778 arginine finger; other site 335284002779 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284002780 Walker A motif; other site 335284002781 ATP binding site [chemical binding]; other site 335284002782 Walker B motif; other site 335284002783 arginine finger; other site 335284002784 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 335284002785 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 335284002786 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 335284002787 BCCT family transporter; Region: BCCT; cl00569 335284002788 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284002789 Helix-turn-helix domains; Region: HTH; cl00088 335284002790 Helix-turn-helix domains; Region: HTH; cl00088 335284002791 putative transposase OrfB; Reviewed; Region: PHA02517 335284002792 HTH-like domain; Region: HTH_21; pfam13276 335284002793 Integrase core domain; Region: rve; cl01316 335284002794 Integrase core domain; Region: rve_3; cl15866 335284002795 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 335284002796 S-adenosylmethionine synthetase; Validated; Region: PRK05250 335284002797 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 335284002798 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 335284002799 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 335284002800 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 335284002801 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 335284002802 minor groove reading motif; other site 335284002803 helix-hairpin-helix signature motif; other site 335284002804 substrate binding pocket [chemical binding]; other site 335284002805 active site 335284002806 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 335284002807 ferredoxin; Provisional; Region: PRK06991 335284002808 Putative Fe-S cluster; Region: FeS; pfam04060 335284002809 4Fe-4S binding domain; Region: Fer4; cl02805 335284002810 4Fe-4S binding domain; Region: Fer4; cl02805 335284002811 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 335284002812 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 335284002813 putative NADH binding site [chemical binding]; other site 335284002814 putative active site [active] 335284002815 nudix motif; other site 335284002816 putative metal binding site [ion binding]; other site 335284002817 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 335284002818 RNA/DNA hybrid binding site [nucleotide binding]; other site 335284002819 active site 335284002820 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 335284002821 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 335284002822 active site 335284002823 catalytic site [active] 335284002824 substrate binding site [chemical binding]; other site 335284002825 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 335284002826 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 335284002827 dimer interface [polypeptide binding]; other site 335284002828 catalytic triad [active] 335284002829 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 335284002830 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 335284002831 conserved cys residue [active] 335284002832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284002833 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 335284002834 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 335284002835 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284002836 active site 335284002837 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 335284002838 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 335284002839 Prostaglandin dehydrogenases; Region: PGDH; cd05288 335284002840 NAD(P) binding site [chemical binding]; other site 335284002841 substrate binding site [chemical binding]; other site 335284002842 dimer interface [polypeptide binding]; other site 335284002843 short chain dehydrogenase; Provisional; Region: PRK12939 335284002844 classical (c) SDRs; Region: SDR_c; cd05233 335284002845 NAD(P) binding site [chemical binding]; other site 335284002846 active site 335284002847 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 335284002848 classical (c) SDRs; Region: SDR_c; cd05233 335284002849 NAD(P) binding site [chemical binding]; other site 335284002850 active site 335284002851 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 335284002852 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 335284002853 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 335284002854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284002855 Walker A/P-loop; other site 335284002856 ATP binding site [chemical binding]; other site 335284002857 Q-loop/lid; other site 335284002858 ABC transporter signature motif; other site 335284002859 Walker B; other site 335284002860 D-loop; other site 335284002861 H-loop/switch region; other site 335284002862 RF-1 domain; Region: RF-1; cl02875 335284002863 putative arabinose transporter; Provisional; Region: PRK03545 335284002864 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 335284002865 putative substrate translocation pore; other site 335284002866 Transcriptional activator [Transcription]; Region: ChrR; COG3806 335284002867 Cupin domain; Region: Cupin_2; cl09118 335284002868 Cupin domain; Region: Cupin_2; cl09118 335284002869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002870 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 335284002871 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 335284002872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284002873 Helix-turn-helix domains; Region: HTH; cl00088 335284002874 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284002875 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 335284002876 tetrameric interface [polypeptide binding]; other site 335284002877 NAD binding site [chemical binding]; other site 335284002878 catalytic residues [active] 335284002879 choline dehydrogenase; Validated; Region: PRK02106 335284002880 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 335284002881 BCCT family transporter; Region: BCCT; cl00569 335284002882 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 335284002883 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 335284002884 active site 335284002885 catalytic triad [active] 335284002886 oxyanion hole [active] 335284002887 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284002888 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 335284002889 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 335284002890 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 335284002891 putative N-terminal domain interface [polypeptide binding]; other site 335284002892 putative dimer interface [polypeptide binding]; other site 335284002893 putative substrate binding pocket (H-site) [chemical binding]; other site 335284002894 UreD urease accessory protein; Region: UreD; cl00530 335284002895 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 335284002896 alpha-gamma subunit interface [polypeptide binding]; other site 335284002897 beta-gamma subunit interface [polypeptide binding]; other site 335284002898 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 335284002899 gamma-beta subunit interface [polypeptide binding]; other site 335284002900 alpha-beta subunit interface [polypeptide binding]; other site 335284002901 urease subunit alpha; Reviewed; Region: ureC; PRK13207 335284002902 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 335284002903 subunit interactions [polypeptide binding]; other site 335284002904 active site 335284002905 flap region; other site 335284002906 urease accessory protein UreE; Provisional; Region: PRK14113 335284002907 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 335284002908 dimer interface [polypeptide binding]; other site 335284002909 catalytic residues [active] 335284002910 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 335284002911 UreF; Region: UreF; pfam01730 335284002912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284002913 HupE / UreJ protein; Region: HupE_UreJ; cl01011 335284002914 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 335284002915 homotrimer interaction site [polypeptide binding]; other site 335284002916 putative active site [active] 335284002917 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 335284002918 homotrimer interaction site [polypeptide binding]; other site 335284002919 putative active site [active] 335284002920 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 335284002921 homotrimer interaction site [polypeptide binding]; other site 335284002922 putative active site [active] 335284002923 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 335284002924 Chromate transporter; Region: Chromate_transp; pfam02417 335284002925 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 335284002926 Chromate transporter; Region: Chromate_transp; pfam02417 335284002927 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 335284002928 Helix-turn-helix domains; Region: HTH; cl00088 335284002929 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 335284002930 dimerization interface [polypeptide binding]; other site 335284002931 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 335284002932 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 335284002933 inhibitor-cofactor binding pocket; inhibition site 335284002934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284002935 catalytic residue [active] 335284002936 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 335284002937 Domain of unknown function (DUF1338); Region: DUF1338; cl02226 335284002938 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 335284002939 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284002940 tetrameric interface [polypeptide binding]; other site 335284002941 NAD binding site [chemical binding]; other site 335284002942 catalytic residues [active] 335284002943 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 335284002944 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 335284002945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002946 FAD dependent oxidoreductase; Region: DAO; pfam01266 335284002947 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 335284002948 FAD binding domain; Region: FAD_binding_4; pfam01565 335284002949 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 335284002950 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002951 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002952 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 335284002953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284002954 Peptidase family M13; Region: Peptidase_M13_N; pfam05649 335284002955 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 335284002956 methionine synthase; Provisional; Region: PRK01207 335284002957 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 335284002958 substrate binding site [chemical binding]; other site 335284002959 THF binding site; other site 335284002960 zinc-binding site [ion binding]; other site 335284002961 Flavin Reductases; Region: FlaRed; cl00801 335284002962 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 335284002963 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 335284002964 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 335284002965 CoenzymeA binding site [chemical binding]; other site 335284002966 subunit interaction site [polypeptide binding]; other site 335284002967 PHB binding site; other site 335284002968 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 335284002969 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 335284002970 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 335284002971 putative active site [active] 335284002972 metal binding site [ion binding]; metal-binding site 335284002973 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 335284002974 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 335284002975 RNA binding surface [nucleotide binding]; other site 335284002976 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 335284002977 probable active site [active] 335284002978 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 335284002979 putative hydrophobic ligand binding site [chemical binding]; other site 335284002980 protein interface [polypeptide binding]; other site 335284002981 gate; other site 335284002982 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 335284002983 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 335284002984 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 335284002985 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 335284002986 active site 335284002987 Int/Topo IB signature motif; other site 335284002988 DNA binding site [nucleotide binding] 335284002989 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 335284002990 Domain of unknown function DUF87; Region: DUF87; pfam01935 335284002991 AAA-like domain; Region: AAA_10; pfam12846 335284002992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284002993 Dynamin family; Region: Dynamin_N; pfam00350 335284002994 G1 box; other site 335284002995 GTP/Mg2+ binding site [chemical binding]; other site 335284002996 G2 box; other site 335284002997 Switch I region; other site 335284002998 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284002999 G3 box; other site 335284003000 Switch II region; other site 335284003001 GTP/Mg2+ binding site [chemical binding]; other site 335284003002 G4 box; other site 335284003003 G5 box; other site 335284003004 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 335284003005 Dynamin family; Region: Dynamin_N; pfam00350 335284003006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003007 GTP/Mg2+ binding site [chemical binding]; other site 335284003008 G1 box; other site 335284003009 G2 box; other site 335284003010 Switch I region; other site 335284003011 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003012 G3 box; other site 335284003013 Switch II region; other site 335284003014 GTP/Mg2+ binding site [chemical binding]; other site 335284003015 G4 box; other site 335284003016 G5 box; other site 335284003017 Predicted transcriptional regulator [Transcription]; Region: COG2378 335284003018 WYL domain; Region: WYL; cl14852 335284003019 HTH-like domain; Region: HTH_21; pfam13276 335284003020 Integrase core domain; Region: rve; cl01316 335284003021 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284003022 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284003023 MULE transposase domain; Region: MULE; pfam10551 335284003024 Transposase; Region: HTH_Tnp_IS630; pfam01710 335284003025 Helix-turn-helix domains; Region: HTH; cl00088 335284003026 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 335284003027 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 335284003028 S-adenosylmethionine binding site [chemical binding]; other site 335284003029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284003030 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 335284003031 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 335284003032 DNA helicase, putative; Region: TIGR00376 335284003033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003034 Family description; Region: UvrD_C_2; cl15862 335284003035 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 335284003036 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 335284003037 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 335284003038 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 335284003039 Leucine-rich repeats; other site 335284003040 Substrate binding site [chemical binding]; other site 335284003041 Dam-replacing family; Region: DRP; pfam06044 335284003042 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284003043 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 335284003044 Walker A motif; other site 335284003045 ATP binding site [chemical binding]; other site 335284003046 Walker B motif; other site 335284003047 arginine finger; other site 335284003048 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 335284003049 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 335284003050 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 335284003051 active site 335284003052 WYL domain; Region: WYL; cl14852 335284003053 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 335284003054 Protein of unknown function DUF45; Region: DUF45; cl00636 335284003055 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 335284003056 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 335284003057 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 335284003058 ATP binding site [chemical binding]; other site 335284003059 putative Mg++ binding site [ion binding]; other site 335284003060 Protein of unknown function DUF262; Region: DUF262; cl14890 335284003061 Protein of unknown function DUF262; Region: DUF262; cl14890 335284003062 Protein of unknown function DUF262; Region: DUF262; cl14890 335284003063 Protein of unknown function DUF262; Region: DUF262; cl14890 335284003064 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 335284003065 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 335284003066 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 335284003067 HsdM N-terminal domain; Region: HsdM_N; pfam12161 335284003068 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 335284003069 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; cl16911 335284003070 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 335284003071 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 335284003072 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 335284003073 ligand binding site [chemical binding]; other site 335284003074 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 335284003075 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 335284003076 ATP binding site [chemical binding]; other site 335284003077 putative Mg++ binding site [ion binding]; other site 335284003078 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 335284003079 nucleotide binding region [chemical binding]; other site 335284003080 ATP-binding site [chemical binding]; other site 335284003081 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284003082 MULE transposase domain; Region: MULE; pfam10551 335284003083 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284003084 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 335284003085 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 335284003086 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 335284003087 active site 335284003088 DNA binding site [nucleotide binding] 335284003089 Int/Topo IB signature motif; other site 335284003090 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 335284003091 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 335284003092 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 335284003093 dimer interface [polypeptide binding]; other site 335284003094 PYR/PP interface [polypeptide binding]; other site 335284003095 TPP binding site [chemical binding]; other site 335284003096 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 335284003097 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 335284003098 TPP-binding site [chemical binding]; other site 335284003099 dimer interface [polypeptide binding]; other site 335284003100 GlpM protein; Region: GlpM; cl01212 335284003101 potassium/proton antiporter; Reviewed; Region: PRK05326 335284003102 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 335284003103 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; cl01201 335284003104 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 335284003105 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284003106 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 335284003107 motif II; other site 335284003108 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284003109 Helix-turn-helix domains; Region: HTH; cl00088 335284003110 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 335284003111 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 335284003112 catalytic residues [active] 335284003113 Uncharacterized conserved protein [Function unknown]; Region: COG2128 335284003114 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 335284003115 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 335284003116 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 335284003117 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 335284003118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003119 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 335284003120 Walker A/P-loop; other site 335284003121 ATP binding site [chemical binding]; other site 335284003122 Q-loop/lid; other site 335284003123 ABC transporter signature motif; other site 335284003124 Walker B; other site 335284003125 D-loop; other site 335284003126 H-loop/switch region; other site 335284003127 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 335284003128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284003129 dimer interface [polypeptide binding]; other site 335284003130 conserved gate region; other site 335284003131 putative PBP binding loops; other site 335284003132 ABC-ATPase subunit interface; other site 335284003133 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 335284003134 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 335284003135 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 335284003136 mercuric reductase; Validated; Region: PRK06370 335284003137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284003138 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 335284003139 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 335284003140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003141 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 335284003142 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 335284003143 dimer interface [polypeptide binding]; other site 335284003144 active site 335284003145 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284003146 substrate binding site [chemical binding]; other site 335284003147 catalytic residue [active] 335284003148 serine racemase; Region: PLN02970 335284003149 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 335284003150 tetramer interface [polypeptide binding]; other site 335284003151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284003152 catalytic residue [active] 335284003153 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 335284003154 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 335284003155 homodimer interface [polypeptide binding]; other site 335284003156 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284003157 catalytic residue [active] 335284003158 malate dehydrogenase; Provisional; Region: PRK13529 335284003159 Malic enzyme, N-terminal domain; Region: malic; pfam00390 335284003160 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 335284003161 NAD(P) binding site [chemical binding]; other site 335284003162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003163 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 335284003164 UreF; Region: UreF; pfam01730 335284003165 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 335284003166 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 335284003167 dimer interface [polypeptide binding]; other site 335284003168 catalytic residues [active] 335284003169 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cl00533 335284003170 urease subunit alpha; Reviewed; Region: ureC; PRK13207 335284003171 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 335284003172 subunit interactions [polypeptide binding]; other site 335284003173 active site 335284003174 flap region; other site 335284003175 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cl00533 335284003176 gamma-beta subunit interface [polypeptide binding]; other site 335284003177 alpha-beta subunit interface [polypeptide binding]; other site 335284003178 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 335284003179 alpha-gamma subunit interface [polypeptide binding]; other site 335284003180 beta-gamma subunit interface [polypeptide binding]; other site 335284003181 UreD urease accessory protein; Region: UreD; cl00530 335284003182 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 335284003183 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 335284003184 Walker A/P-loop; other site 335284003185 ATP binding site [chemical binding]; other site 335284003186 Q-loop/lid; other site 335284003187 ABC transporter signature motif; other site 335284003188 Walker B; other site 335284003189 D-loop; other site 335284003190 H-loop/switch region; other site 335284003191 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 335284003192 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 335284003193 Walker A/P-loop; other site 335284003194 ATP binding site [chemical binding]; other site 335284003195 Q-loop/lid; other site 335284003196 ABC transporter signature motif; other site 335284003197 Walker B; other site 335284003198 D-loop; other site 335284003199 H-loop/switch region; other site 335284003200 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 335284003201 TM-ABC transporter signature motif; other site 335284003202 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 335284003203 TM-ABC transporter signature motif; other site 335284003204 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 335284003205 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 335284003206 putative ligand binding site [chemical binding]; other site 335284003207 pteridine reductase; Provisional; Region: PRK09135 335284003208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003209 NAD(P) binding site [chemical binding]; other site 335284003210 active site 335284003211 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 335284003212 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 335284003213 active site 335284003214 NTP binding site [chemical binding]; other site 335284003215 metal binding triad [ion binding]; metal-binding site 335284003216 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 335284003217 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 335284003218 Malic enzyme, N-terminal domain; Region: malic; pfam00390 335284003219 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 335284003220 putative NAD(P) binding site [chemical binding]; other site 335284003221 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 335284003222 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 335284003223 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 335284003224 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 335284003225 Di-iron ligands [ion binding]; other site 335284003226 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 335284003227 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 335284003228 active site 335284003229 catalytic site [active] 335284003230 metal binding site [ion binding]; metal-binding site 335284003231 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 335284003232 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 335284003233 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 335284003234 active site 335284003235 HIGH motif; other site 335284003236 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 335284003237 KMSKS motif; other site 335284003238 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 335284003239 tRNA binding surface [nucleotide binding]; other site 335284003240 anticodon binding site; other site 335284003241 Mechanosensitive ion channel; Region: MS_channel; pfam00924 335284003242 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 335284003243 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 335284003244 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 335284003245 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 335284003246 active site 335284003247 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 335284003248 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 335284003249 active site 335284003250 substrate binding site [chemical binding]; other site 335284003251 metal binding site [ion binding]; metal-binding site 335284003252 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 335284003253 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 335284003254 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 335284003255 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 335284003256 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284003257 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284003258 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 335284003259 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 335284003260 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 335284003261 putative C-terminal domain interface [polypeptide binding]; other site 335284003262 putative GSH binding site (G-site) [chemical binding]; other site 335284003263 putative dimer interface [polypeptide binding]; other site 335284003264 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 335284003265 N-terminal domain interface [polypeptide binding]; other site 335284003266 dimer interface [polypeptide binding]; other site 335284003267 substrate binding pocket (H-site) [chemical binding]; other site 335284003268 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 335284003269 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 335284003270 potential catalytic triad [active] 335284003271 conserved cys residue [active] 335284003272 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 335284003273 Prostaglandin dehydrogenases; Region: PGDH; cd05288 335284003274 NAD(P) binding site [chemical binding]; other site 335284003275 substrate binding site [chemical binding]; other site 335284003276 dimer interface [polypeptide binding]; other site 335284003277 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 335284003278 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 335284003279 dimer interface [polypeptide binding]; other site 335284003280 active site 335284003281 metal binding site [ion binding]; metal-binding site 335284003282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284003283 Helix-turn-helix domains; Region: HTH; cl00088 335284003284 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 335284003285 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284003286 NAD(P) binding site [chemical binding]; other site 335284003287 catalytic residues [active] 335284003288 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 335284003289 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003290 Family description; Region: UvrD_C_2; cl15862 335284003291 FAD dependent oxidoreductase; Region: DAO; pfam01266 335284003292 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003293 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 335284003294 homotrimer interaction site [polypeptide binding]; other site 335284003295 putative active site [active] 335284003296 enoyl-CoA hydratase; Validated; Region: PRK08139 335284003297 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 335284003298 substrate binding site [chemical binding]; other site 335284003299 oxyanion hole (OAH) forming residues; other site 335284003300 trimer interface [polypeptide binding]; other site 335284003301 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 335284003302 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 335284003303 active site 335284003304 metal binding site [ion binding]; metal-binding site 335284003305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284003306 Helix-turn-helix domains; Region: HTH; cl00088 335284003307 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 335284003308 dimerization interface [polypeptide binding]; other site 335284003309 Glycerate kinase family; Region: Gly_kinase; cl00841 335284003310 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 335284003311 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 335284003312 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 335284003313 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 335284003314 putative dimer interface [polypeptide binding]; other site 335284003315 active site pocket [active] 335284003316 putative cataytic base [active] 335284003317 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 335284003318 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 335284003319 catalytic core [active] 335284003320 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 335284003321 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 335284003322 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 335284003323 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 335284003324 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 335284003325 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 335284003326 RDD family; Region: RDD; cl00746 335284003327 phosphoenolpyruvate synthase; Validated; Region: PRK06464 335284003328 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 335284003329 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 335284003330 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 335284003331 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 335284003332 amine oxidase; Region: PLN02976 335284003333 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 335284003334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003335 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284003336 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 335284003337 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 335284003338 ABC-2 type transporter; Region: ABC2_membrane; cl11417 335284003339 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 335284003340 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 335284003341 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 335284003342 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284003343 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284003344 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 335284003345 glycerol kinase; Region: glycerol_kin; TIGR01311 335284003346 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 335284003347 N- and C-terminal domain interface [polypeptide binding]; other site 335284003348 active site 335284003349 MgATP binding site [chemical binding]; other site 335284003350 catalytic site [active] 335284003351 metal binding site [ion binding]; metal-binding site 335284003352 glycerol binding site [chemical binding]; other site 335284003353 homotetramer interface [polypeptide binding]; other site 335284003354 homodimer interface [polypeptide binding]; other site 335284003355 FBP binding site [chemical binding]; other site 335284003356 protein IIAGlc interface [polypeptide binding]; other site 335284003357 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 335284003358 putative catalytic site [active] 335284003359 putative metal binding site [ion binding]; other site 335284003360 putative phosphate binding site [ion binding]; other site 335284003361 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284003362 Helix-turn-helix domains; Region: HTH; cl00088 335284003363 DNA polymerase family B viral insert; Region: DNA_pol_B_3; pfam08408 335284003364 Fibronectin type III-like domain; Region: Fn3-like; cl15273 335284003365 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284003366 Fibronectin type III-like domain; Region: Fn3-like; cl15273 335284003367 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 335284003368 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 335284003369 dimer interface [polypeptide binding]; other site 335284003370 TPP-binding site [chemical binding]; other site 335284003371 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 335284003372 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 335284003373 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 335284003374 E3 interaction surface; other site 335284003375 lipoyl attachment site [posttranslational modification]; other site 335284003376 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 335284003377 E3 interaction surface; other site 335284003378 lipoyl attachment site [posttranslational modification]; other site 335284003379 e3 binding domain; Region: E3_binding; pfam02817 335284003380 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 335284003381 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284003382 Ion transport protein; Region: Ion_trans; pfam00520 335284003383 Ion channel; Region: Ion_trans_2; cl11596 335284003384 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284003385 putative metal binding site [ion binding]; other site 335284003386 Predicted transcriptional regulator [Transcription]; Region: COG2378 335284003387 WYL domain; Region: WYL; cl14852 335284003388 AAA domain; Region: AAA_32; pfam13654 335284003389 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 335284003390 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 335284003391 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; cl16911 335284003392 Methyltransferase domain; Region: Methyltransf_31; pfam13847 335284003393 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 335284003394 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 335284003395 P-loop; other site 335284003396 Magnesium ion binding site [ion binding]; other site 335284003397 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 335284003398 Magnesium ion binding site [ion binding]; other site 335284003399 ParB-like partition proteins; Region: parB_part; TIGR00180 335284003400 ParB-like nuclease domain; Region: ParBc; cl02129 335284003401 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 335284003402 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 335284003403 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 335284003404 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 335284003405 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 335284003406 Walker A/P-loop; other site 335284003407 ATP binding site [chemical binding]; other site 335284003408 Q-loop/lid; other site 335284003409 ABC transporter signature motif; other site 335284003410 Walker B; other site 335284003411 D-loop; other site 335284003412 H-loop/switch region; other site 335284003413 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 335284003414 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 335284003415 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 335284003416 Ligand binding site; other site 335284003417 oligomer interface; other site 335284003418 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 335284003419 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05896 335284003420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003421 PilZ domain; Region: PilZ; cl01260 335284003422 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 335284003423 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 335284003424 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 335284003425 dimer interface [polypeptide binding]; other site 335284003426 active site 335284003427 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 335284003428 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003429 NAD(P) binding site [chemical binding]; other site 335284003430 active site 335284003431 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 335284003432 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 335284003433 active site 2 [active] 335284003434 active site 1 [active] 335284003435 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 335284003436 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284003437 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284003438 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 335284003439 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 335284003440 Dehydratase family; Region: ILVD_EDD; cl00340 335284003441 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 335284003442 HIT family signature motif; other site 335284003443 catalytic residue [active] 335284003444 BCCT family transporter; Region: BCCT; cl00569 335284003445 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 335284003446 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 335284003447 FMN binding site [chemical binding]; other site 335284003448 active site 335284003449 catalytic residues [active] 335284003450 substrate binding site [chemical binding]; other site 335284003451 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 335284003452 classical (c) SDRs; Region: SDR_c; cd05233 335284003453 NAD(P) binding site [chemical binding]; other site 335284003454 active site 335284003455 Integral membrane protein TerC family; Region: TerC; cl10468 335284003456 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 335284003457 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 335284003458 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 335284003459 dimer interface [polypeptide binding]; other site 335284003460 substrate binding site [chemical binding]; other site 335284003461 metal binding sites [ion binding]; metal-binding site 335284003462 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 335284003463 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 335284003464 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 335284003465 NAD(P) binding site [chemical binding]; other site 335284003466 catalytic residues [active] 335284003467 NMT1-like family; Region: NMT1_2; cl15260 335284003468 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 335284003469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284003470 dimer interface [polypeptide binding]; other site 335284003471 conserved gate region; other site 335284003472 ABC-ATPase subunit interface; other site 335284003473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284003474 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 335284003475 Walker A/P-loop; other site 335284003476 ATP binding site [chemical binding]; other site 335284003477 Q-loop/lid; other site 335284003478 ABC transporter signature motif; other site 335284003479 Walker B; other site 335284003480 D-loop; other site 335284003481 H-loop/switch region; other site 335284003482 trifunctional thioredoxin/methionine sulfoxide reductase A/B protein; Provisional; Region: PRK14018 335284003483 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 335284003484 catalytic residues [active] 335284003485 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 335284003486 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 335284003487 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 335284003488 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 335284003489 active site 335284003490 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 335284003491 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 335284003492 generic binding surface II; other site 335284003493 generic binding surface I; other site 335284003494 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 335284003495 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 335284003496 Predicted ATPase [General function prediction only]; Region: COG1485 335284003497 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 335284003498 putative FMN binding site [chemical binding]; other site 335284003499 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 335284003500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003501 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 335284003502 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 335284003503 catalytic core [active] 335284003504 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 335284003505 GspL periplasmic domain; Region: GspL_C; cl14909 335284003506 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 335284003507 Predicted membrane protein [Function unknown]; Region: COG3671 335284003508 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 335284003509 quinone interaction residues [chemical binding]; other site 335284003510 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 335284003511 active site 335284003512 catalytic residues [active] 335284003513 FMN binding site [chemical binding]; other site 335284003514 substrate binding site [chemical binding]; other site 335284003515 Colicin V production protein; Region: Colicin_V; cl00567 335284003516 amidophosphoribosyltransferase; Provisional; Region: PRK09246 335284003517 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 335284003518 active site 335284003519 tetramer interface [polypeptide binding]; other site 335284003520 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284003521 active site 335284003522 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 335284003523 AzlC protein; Region: AzlC; cl00570 335284003524 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 335284003525 MatE; Region: MatE; cl10513 335284003526 MatE; Region: MatE; cl10513 335284003527 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 335284003528 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 335284003529 Protein export membrane protein; Region: SecD_SecF; cl14618 335284003530 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 335284003531 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 335284003532 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 335284003533 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 335284003534 Protein export membrane protein; Region: SecD_SecF; cl14618 335284003535 Preprotein translocase subunit; Region: YajC; cl00806 335284003536 Domain of unknown function DUF21; Region: DUF21; pfam01595 335284003537 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 335284003538 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 335284003539 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 335284003540 N-acetyl-D-glucosamine binding site [chemical binding]; other site 335284003541 catalytic residue [active] 335284003542 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 335284003543 putative peptidoglycan binding site; other site 335284003544 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 335284003545 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 335284003546 putative peptidoglycan binding site; other site 335284003547 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 335284003548 putative peptidoglycan binding site; other site 335284003549 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 335284003550 putative peptidoglycan binding site; other site 335284003551 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 335284003552 putative peptidoglycan binding site; other site 335284003553 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 335284003554 putative peptidoglycan binding site; other site 335284003555 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 335284003556 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 335284003557 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 335284003558 N-acetyl-D-glucosamine binding site [chemical binding]; other site 335284003559 catalytic residue [active] 335284003560 Uncharacterized conserved protein [Function unknown]; Region: COG0327 335284003561 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 335284003562 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 335284003563 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 335284003564 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 335284003565 protein binding site [polypeptide binding]; other site 335284003566 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 335284003567 catalytic loop [active] 335284003568 iron binding site [ion binding]; other site 335284003569 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 335284003570 dimer interface [polypeptide binding]; other site 335284003571 putative radical transfer pathway; other site 335284003572 diiron center [ion binding]; other site 335284003573 tyrosyl radical; other site 335284003574 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 335284003575 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 335284003576 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 335284003577 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 335284003578 ATP cone domain; Region: ATP-cone; pfam03477 335284003579 Class I ribonucleotide reductase; Region: RNR_I; cd01679 335284003580 active site 335284003581 dimer interface [polypeptide binding]; other site 335284003582 catalytic residues [active] 335284003583 effector binding site; other site 335284003584 R2 peptide binding site; other site 335284003585 Protein of unknown function (DUF493); Region: DUF493; cl01102 335284003586 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 335284003587 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 335284003588 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 335284003589 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 335284003590 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 335284003591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 335284003592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 335284003593 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 335284003594 DNA binding residues [nucleotide binding] 335284003595 CHC2 zinc finger; Region: zf-CHC2; cl15369 335284003596 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 335284003597 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 335284003598 active site 335284003599 metal binding site [ion binding]; metal-binding site 335284003600 interdomain interaction site; other site 335284003601 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 335284003602 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 335284003603 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 335284003604 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 335284003605 RNA binding surface [nucleotide binding]; other site 335284003606 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 335284003607 active site 335284003608 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 335284003609 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 335284003610 Cytochrome c; Region: Cytochrom_C; cl11414 335284003611 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 335284003612 Cytochrome c; Region: Cytochrom_C; cl11414 335284003613 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 335284003614 Cytochrome c; Region: Cytochrom_C; cl11414 335284003615 TolB amino-terminal domain; Region: TolB_N; cl00639 335284003616 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 335284003617 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284003618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284003619 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284003620 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 335284003621 Gram-negative bacterial tonB protein; Region: TonB; cl10048 335284003622 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 335284003623 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 335284003624 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 335284003625 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 335284003626 Proline dehydrogenase; Region: Pro_dh; cl03282 335284003627 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 335284003628 Glutamate binding site [chemical binding]; other site 335284003629 NAD binding site [chemical binding]; other site 335284003630 catalytic residues [active] 335284003631 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 335284003632 Delta 1-pyrroline-5-carboxylate dehydrogenase [Energy production and conversion]; Region: COG4230 335284003633 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 335284003634 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 335284003635 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 335284003636 catalytic loop [active] 335284003637 iron binding site [ion binding]; other site 335284003638 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 335284003639 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 335284003640 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 335284003641 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 335284003642 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 335284003643 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 335284003644 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 335284003645 XdhC Rossmann domain; Region: XdhC_C; pfam13478 335284003646 guanine deaminase; Provisional; Region: PRK09228 335284003647 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 335284003648 active site 335284003649 Uncharacterized conserved protein [Function unknown]; Region: COG2850 335284003650 adenylosuccinate lyase; Provisional; Region: PRK09285 335284003651 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 335284003652 tetramer interface [polypeptide binding]; other site 335284003653 active site 335284003654 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 335284003655 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 335284003656 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 335284003657 homotrimer interaction site [polypeptide binding]; other site 335284003658 zinc binding site [ion binding]; other site 335284003659 CDP-binding sites; other site 335284003660 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 335284003661 putative GSH binding site [chemical binding]; other site 335284003662 catalytic residues [active] 335284003663 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 335284003664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003665 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 335284003666 Membrane transport protein; Region: Mem_trans; cl09117 335284003667 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 335284003668 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 335284003669 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 335284003670 Helix-turn-helix domains; Region: HTH; cl00088 335284003671 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 335284003672 substrate binding site [chemical binding]; other site 335284003673 dimerization interface [polypeptide binding]; other site 335284003674 muropeptide transporter; Validated; Region: ampG; PRK11010 335284003675 muropeptide transporter; Validated; Region: ampG; PRK11010 335284003676 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 335284003677 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 335284003678 S-adenosylmethionine binding site [chemical binding]; other site 335284003679 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 335284003680 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 335284003681 ATP binding site [chemical binding]; other site 335284003682 substrate interface [chemical binding]; other site 335284003683 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284003684 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 335284003685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 335284003686 putative substrate translocation pore; other site 335284003687 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 335284003688 Helix-turn-helix domains; Region: HTH; cl00088 335284003689 2-isopropylmalate synthase; Validated; Region: PRK03739 335284003690 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 335284003691 active site 335284003692 catalytic residues [active] 335284003693 metal binding site [ion binding]; metal-binding site 335284003694 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 335284003695 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 335284003696 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 335284003697 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 335284003698 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 335284003699 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 335284003700 carboxyltransferase (CT) interaction site; other site 335284003701 biotinylation site [posttranslational modification]; other site 335284003702 multidrug efflux protein; Reviewed; Region: PRK01766 335284003703 MatE; Region: MatE; cl10513 335284003704 MatE; Region: MatE; cl10513 335284003705 EVE domain; Region: EVE; cl00728 335284003706 HemN family oxidoreductase; Provisional; Region: PRK05660 335284003707 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 335284003708 FeS/SAM binding site; other site 335284003709 HemN C-terminal domain; Region: HemN_C; pfam06969 335284003710 Entericidin EcnA/B family; Region: Entericidin; cl02322 335284003711 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 335284003712 DsrC like protein; Region: DsrC; cl01101 335284003713 DsrE/DsrF-like family; Region: DrsE; cl00672 335284003714 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 335284003715 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 335284003716 metal binding triad; other site 335284003717 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 335284003718 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 335284003719 metal binding triad; other site 335284003720 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 335284003721 homodimer interface [polypeptide binding]; other site 335284003722 substrate-cofactor binding pocket; other site 335284003723 catalytic residue [active] 335284003724 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 335284003725 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 335284003726 putative metal binding site; other site 335284003727 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 335284003728 putative metal binding site; other site 335284003729 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 335284003730 putative ADP-binding pocket [chemical binding]; other site 335284003731 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 335284003732 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 335284003733 putative acyl-acceptor binding pocket; other site 335284003734 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 335284003735 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 335284003736 dimer interface [polypeptide binding]; other site 335284003737 anticodon binding site; other site 335284003738 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 335284003739 homodimer interface [polypeptide binding]; other site 335284003740 motif 1; other site 335284003741 active site 335284003742 motif 2; other site 335284003743 GAD domain; Region: GAD; pfam02938 335284003744 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 335284003745 active site 335284003746 motif 3; other site 335284003747 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 335284003748 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 335284003749 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 335284003750 tandem repeat interface [polypeptide binding]; other site 335284003751 oligomer interface [polypeptide binding]; other site 335284003752 active site residues [active] 335284003753 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 335284003754 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284003755 active site 335284003756 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 335284003757 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 335284003758 putative active site [active] 335284003759 putative substrate binding site [chemical binding]; other site 335284003760 ATP binding site [chemical binding]; other site 335284003761 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 335284003762 catalytic core [active] 335284003763 short chain dehydrogenase; Provisional; Region: PRK08251 335284003764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003765 NAD(P) binding site [chemical binding]; other site 335284003766 active site 335284003767 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 335284003768 AMP-binding enzyme; Region: AMP-binding; cl15778 335284003769 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284003770 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 335284003771 AMP-binding enzyme; Region: AMP-binding; cl15778 335284003772 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284003773 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 335284003774 active site 335284003775 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 335284003776 putative catalytic site [active] 335284003777 putative phosphate binding site [ion binding]; other site 335284003778 active site 335284003779 metal binding site A [ion binding]; metal-binding site 335284003780 DNA binding site [nucleotide binding] 335284003781 putative AP binding site [nucleotide binding]; other site 335284003782 putative metal binding site B [ion binding]; other site 335284003783 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 335284003784 heterotetramer interface [polypeptide binding]; other site 335284003785 active site pocket [active] 335284003786 cleavage site 335284003787 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 335284003788 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 335284003789 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 335284003790 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 335284003791 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 335284003792 EamA-like transporter family; Region: EamA; cl01037 335284003793 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 335284003794 EamA-like transporter family; Region: EamA; cl01037 335284003795 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284003796 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 335284003797 Rubredoxin [Energy production and conversion]; Region: COG1773 335284003798 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 335284003799 iron binding site [ion binding]; other site 335284003800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284003801 active site 335284003802 transaldolase-like protein; Provisional; Region: PTZ00411 335284003803 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 335284003804 active site 335284003805 dimer interface [polypeptide binding]; other site 335284003806 catalytic residue [active] 335284003807 Chorismate mutase type II; Region: CM_2; cl00693 335284003808 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 335284003809 Prephenate dehydratase; Region: PDT; pfam00800 335284003810 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 335284003811 putative L-Phe binding site [chemical binding]; other site 335284003812 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 335284003813 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 335284003814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284003815 homodimer interface [polypeptide binding]; other site 335284003816 catalytic residue [active] 335284003817 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 335284003818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003819 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 335284003820 hinge; other site 335284003821 active site 335284003822 Predicted permeases [General function prediction only]; Region: RarD; COG2962 335284003823 EamA-like transporter family; Region: EamA; cl01037 335284003824 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 335284003825 homooctamer interface [polypeptide binding]; other site 335284003826 active site 335284003827 serine O-acetyltransferase; Region: cysE; TIGR01172 335284003828 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 335284003829 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 335284003830 trimer interface [polypeptide binding]; other site 335284003831 active site 335284003832 substrate binding site [chemical binding]; other site 335284003833 CoA binding site [chemical binding]; other site 335284003834 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 335284003835 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 335284003836 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 335284003837 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 335284003838 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 335284003839 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 335284003840 generic binding surface I; other site 335284003841 generic binding surface II; other site 335284003842 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 335284003843 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 335284003844 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284003845 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 335284003846 NAD(P) binding site [chemical binding]; other site 335284003847 catalytic residues [active] 335284003848 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 335284003849 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 335284003850 inhibitor site; inhibition site 335284003851 active site 335284003852 dimer interface [polypeptide binding]; other site 335284003853 catalytic residue [active] 335284003854 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 335284003855 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 335284003856 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 335284003857 PAS fold; Region: PAS_4; pfam08448 335284003858 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284003859 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 335284003860 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284003861 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 335284003862 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 335284003863 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 335284003864 dimer interface [polypeptide binding]; other site 335284003865 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 335284003866 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 335284003867 active site 335284003868 phosphorylation site [posttranslational modification] 335284003869 intermolecular recognition site; other site 335284003870 dimerization interface [polypeptide binding]; other site 335284003871 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284003872 DNA binding site [nucleotide binding] 335284003873 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284003874 dimer interface [polypeptide binding]; other site 335284003875 phosphorylation site [posttranslational modification] 335284003876 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 335284003877 ATP binding site [chemical binding]; other site 335284003878 Mg2+ binding site [ion binding]; other site 335284003879 G-X-G motif; other site 335284003880 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 335284003881 Haemagglutinin; Region: HIM; pfam05662 335284003882 YadA-like C-terminal region; Region: YadA; pfam03895 335284003883 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 335284003884 Ligand Binding Site [chemical binding]; other site 335284003885 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 335284003886 Ligand Binding Site [chemical binding]; other site 335284003887 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 335284003888 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 335284003889 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 335284003890 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 335284003891 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 335284003892 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 335284003893 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 335284003894 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 335284003895 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 335284003896 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 335284003897 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 335284003898 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284003899 Helix-turn-helix domains; Region: HTH; cl00088 335284003900 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284003901 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 335284003902 benzoate transport; Region: 2A0115; TIGR00895 335284003903 putative substrate translocation pore; other site 335284003904 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 335284003905 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284003906 active site 335284003907 enoyl-CoA hydratase; Provisional; Region: PRK08138 335284003908 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 335284003909 substrate binding site [chemical binding]; other site 335284003910 oxyanion hole (OAH) forming residues; other site 335284003911 trimer interface [polypeptide binding]; other site 335284003912 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 335284003913 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003914 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 335284003915 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 335284003916 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 335284003917 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 335284003918 dimer interface [polypeptide binding]; other site 335284003919 active site 335284003920 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 335284003921 AMP-binding enzyme; Region: AMP-binding; cl15778 335284003922 AMP-binding enzyme; Region: AMP-binding; cl15778 335284003923 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 335284003924 active site 335284003925 Porin subfamily; Region: Porin_2; pfam02530 335284003926 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 335284003927 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 335284003928 putative active site [active] 335284003929 Zn binding site [ion binding]; other site 335284003930 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 335284003931 active site 335284003932 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 335284003933 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284003934 dimer interface [polypeptide binding]; other site 335284003935 phosphorylation site [posttranslational modification] 335284003936 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 335284003937 ATP binding site [chemical binding]; other site 335284003938 Mg2+ binding site [ion binding]; other site 335284003939 G-X-G motif; other site 335284003940 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 335284003941 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 335284003942 active site 335284003943 phosphorylation site [posttranslational modification] 335284003944 intermolecular recognition site; other site 335284003945 dimerization interface [polypeptide binding]; other site 335284003946 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284003947 DNA binding site [nucleotide binding] 335284003948 putative metal dependent hydrolase; Provisional; Region: PRK11598 335284003949 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 335284003950 Sulfatase; Region: Sulfatase; cl10460 335284003951 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 335284003952 active site 335284003953 Gram-negative bacterial tonB protein; Region: TonB; cl10048 335284003954 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 335284003955 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 335284003956 HupE / UreJ protein; Region: HupE_UreJ; cl01011 335284003957 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 335284003958 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 335284003959 haloalkane dehalogenase; Provisional; Region: PRK00870 335284003960 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 335284003961 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 335284003962 C-terminal domain interface [polypeptide binding]; other site 335284003963 GSH binding site (G-site) [chemical binding]; other site 335284003964 dimer interface [polypeptide binding]; other site 335284003965 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 335284003966 N-terminal domain interface [polypeptide binding]; other site 335284003967 dimer interface [polypeptide binding]; other site 335284003968 substrate binding pocket (H-site) [chemical binding]; other site 335284003969 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 335284003970 putative catalytic residues [active] 335284003971 L-aspartate dehydrogenase; Provisional; Region: PRK13303 335284003972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284003973 Domain of unknown function DUF108; Region: DUF108; pfam01958 335284003974 benzoate transport; Region: 2A0115; TIGR00895 335284003975 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 335284003976 putative substrate translocation pore; other site 335284003977 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 335284003978 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 335284003979 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 335284003980 metal binding site [ion binding]; metal-binding site 335284003981 putative dimer interface [polypeptide binding]; other site 335284003982 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 335284003983 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 335284003984 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 335284003985 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 335284003986 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 335284003987 dimer interface [polypeptide binding]; other site 335284003988 active site 335284003989 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 335284003990 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 335284003991 benzoate transporter; Region: benE; TIGR00843 335284003992 Benzoate membrane transport protein; Region: BenE; pfam03594 335284003993 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 335284003994 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 335284003995 putative NAD(P) binding site [chemical binding]; other site 335284003996 active site 335284003997 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 335284003998 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 335284003999 catalytic loop [active] 335284004000 iron binding site [ion binding]; other site 335284004001 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 335284004002 FAD binding pocket [chemical binding]; other site 335284004003 FAD binding motif [chemical binding]; other site 335284004004 phosphate binding motif [ion binding]; other site 335284004005 beta-alpha-beta structure motif; other site 335284004006 NAD binding pocket [chemical binding]; other site 335284004007 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 335284004008 inter-subunit interface; other site 335284004009 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 335284004010 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 335284004011 iron-sulfur cluster [ion binding]; other site 335284004012 [2Fe-2S] cluster binding site [ion binding]; other site 335284004013 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 335284004014 putative alpha subunit interface [polypeptide binding]; other site 335284004015 putative active site [active] 335284004016 putative substrate binding site [chemical binding]; other site 335284004017 Fe binding site [ion binding]; other site 335284004018 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 335284004019 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 335284004020 dimer interface [polypeptide binding]; other site 335284004021 active site 335284004022 Muconolactone delta-isomerase; Region: MIase; cl01992 335284004023 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 335284004024 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 335284004025 octamer interface [polypeptide binding]; other site 335284004026 active site 335284004027 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 335284004028 Helix-turn-helix domains; Region: HTH; cl00088 335284004029 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 335284004030 dimerizarion interface [polypeptide binding]; other site 335284004031 CrgA pocket; other site 335284004032 substrate binding pocket [chemical binding]; other site 335284004033 transcriptional regulator; Provisional; Region: PRK10632 335284004034 Helix-turn-helix domains; Region: HTH; cl00088 335284004035 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 335284004036 putative effector binding pocket; other site 335284004037 dimerization interface [polypeptide binding]; other site 335284004038 DoxX; Region: DoxX; cl00976 335284004039 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 335284004040 putative active site [active] 335284004041 metal binding site [ion binding]; metal-binding site 335284004042 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 335284004043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 335284004044 dimer interface [polypeptide binding]; other site 335284004045 active site 335284004046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284004047 catalytic residues [active] 335284004048 substrate binding site [chemical binding]; other site 335284004049 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 335284004050 IucA / IucC family; Region: IucA_IucC; pfam04183 335284004051 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 335284004052 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 335284004053 putative substrate translocation pore; other site 335284004054 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 335284004055 putative substrate translocation pore; other site 335284004056 IucA / IucC family; Region: IucA_IucC; pfam04183 335284004057 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 335284004058 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284004059 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 335284004060 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 335284004061 N-terminal plug; other site 335284004062 ligand-binding site [chemical binding]; other site 335284004063 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 335284004064 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 335284004065 N-terminal plug; other site 335284004066 ligand-binding site [chemical binding]; other site 335284004067 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 335284004068 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 335284004069 siderophore binding site; other site 335284004070 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 335284004071 ABC-ATPase subunit interface; other site 335284004072 dimer interface [polypeptide binding]; other site 335284004073 putative PBP binding regions; other site 335284004074 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 335284004075 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 335284004076 ABC-ATPase subunit interface; other site 335284004077 dimer interface [polypeptide binding]; other site 335284004078 putative PBP binding regions; other site 335284004079 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 335284004080 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 335284004081 Walker A/P-loop; other site 335284004082 ATP binding site [chemical binding]; other site 335284004083 Q-loop/lid; other site 335284004084 ABC transporter signature motif; other site 335284004085 Walker B; other site 335284004086 D-loop; other site 335284004087 H-loop/switch region; other site 335284004088 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 335284004089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004090 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 335284004091 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 335284004092 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 335284004093 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 335284004094 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 335284004095 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 335284004096 Family description; Region: UvrD_C_2; cl15862 335284004097 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 335284004098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004099 Family description; Region: UvrD_C_2; cl15862 335284004100 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284004101 active site 335284004102 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 335284004103 Carbon starvation protein CstA; Region: CstA; pfam02554 335284004104 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 335284004105 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 335284004106 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 335284004107 P loop; other site 335284004108 Nucleotide binding site [chemical binding]; other site 335284004109 DTAP/Switch II; other site 335284004110 Switch I; other site 335284004111 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 335284004112 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 335284004113 G1 box; other site 335284004114 GTP/Mg2+ binding site [chemical binding]; other site 335284004115 G2 box; other site 335284004116 Switch I region; other site 335284004117 G3 box; other site 335284004118 Switch II region; other site 335284004119 G5 box; other site 335284004120 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 335284004121 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 335284004122 xanthine permease; Region: pbuX; TIGR03173 335284004123 short chain dehydrogenase; Provisional; Region: PRK06924 335284004124 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 335284004125 NADP binding site [chemical binding]; other site 335284004126 homodimer interface [polypeptide binding]; other site 335284004127 active site 335284004128 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 335284004129 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284004130 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284004131 Coenzyme A binding pocket [chemical binding]; other site 335284004132 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 335284004133 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 335284004134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004135 Walker A/P-loop; other site 335284004136 ATP binding site [chemical binding]; other site 335284004137 Q-loop/lid; other site 335284004138 ABC transporter signature motif; other site 335284004139 Walker B; other site 335284004140 D-loop; other site 335284004141 H-loop/switch region; other site 335284004142 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 335284004143 PrpF protein; Region: PrpF; pfam04303 335284004144 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 335284004145 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 335284004146 aconitate hydratase; Validated; Region: PRK09277 335284004147 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 335284004148 substrate binding site [chemical binding]; other site 335284004149 ligand binding site [chemical binding]; other site 335284004150 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 335284004151 substrate binding site [chemical binding]; other site 335284004152 Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS) catalyzes...; Region: Ec2MCS_like; cd06108 335284004153 dimer interface [polypeptide binding]; other site 335284004154 Citrate synthase; Region: Citrate_synt; pfam00285 335284004155 active site 335284004156 citrylCoA binding site [chemical binding]; other site 335284004157 oxalacetate/citrate binding site [chemical binding]; other site 335284004158 coenzyme A binding site [chemical binding]; other site 335284004159 catalytic triad [active] 335284004160 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 335284004161 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 335284004162 tetramer interface [polypeptide binding]; other site 335284004163 active site 335284004164 Mg2+/Mn2+ binding site [ion binding]; other site 335284004165 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 335284004166 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 335284004167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004168 Helix-turn-helix domains; Region: HTH; cl00088 335284004169 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 335284004170 dimerization interface [polypeptide binding]; other site 335284004171 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 335284004172 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 335284004173 putative acyl-acceptor binding pocket; other site 335284004174 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 335284004175 nitrite reductase subunit NirD; Provisional; Region: PRK14989 335284004176 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284004177 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 335284004178 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 335284004179 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 335284004180 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 335284004181 putative substrate translocation pore; other site 335284004182 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 335284004183 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 335284004184 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 335284004185 active site 335284004186 Catalytic domain of Protein Kinases; Region: PKc; cd00180 335284004187 active site 335284004188 ATP binding site [chemical binding]; other site 335284004189 substrate binding site [chemical binding]; other site 335284004190 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284004191 activation loop (A-loop); other site 335284004192 activation loop (A-loop); other site 335284004193 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 335284004194 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 335284004195 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 335284004196 [4Fe-4S] binding site [ion binding]; other site 335284004197 molybdopterin cofactor binding site; other site 335284004198 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 335284004199 molybdopterin cofactor binding site; other site 335284004200 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 335284004201 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 335284004202 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 335284004203 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004204 Helix-turn-helix domains; Region: HTH; cl00088 335284004205 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 335284004206 putative substrate binding pocket [chemical binding]; other site 335284004207 putative dimerization interface [polypeptide binding]; other site 335284004208 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 335284004209 FMN binding site [chemical binding]; other site 335284004210 active site 335284004211 substrate binding site [chemical binding]; other site 335284004212 catalytic residue [active] 335284004213 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004214 Helix-turn-helix domains; Region: HTH; cl00088 335284004215 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 335284004216 putative effector binding pocket; other site 335284004217 dimerization interface [polypeptide binding]; other site 335284004218 Protein of unknown function, DUF606; Region: DUF606; cl01273 335284004219 Protein of unknown function, DUF606; Region: DUF606; cl01273 335284004220 Glutaminase; Region: Glutaminase; cl00907 335284004221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004222 Walker A/P-loop; other site 335284004223 ATP binding site [chemical binding]; other site 335284004224 Q-loop/lid; other site 335284004225 ABC transporter signature motif; other site 335284004226 Walker B; other site 335284004227 D-loop; other site 335284004228 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 335284004229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284004230 Coenzyme A binding pocket [chemical binding]; other site 335284004231 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; cl16911 335284004232 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 335284004233 conserved cys residue [active] 335284004234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 335284004235 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 335284004236 DNA-binding site [nucleotide binding]; DNA binding site 335284004237 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 335284004238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004239 homodimer interface [polypeptide binding]; other site 335284004240 catalytic residue [active] 335284004241 Major Facilitator Superfamily; Region: MFS_1; pfam07690 335284004242 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 335284004243 putative substrate translocation pore; other site 335284004244 Transposase; Region: HTH_Tnp_IS630; pfam01710 335284004245 Helix-turn-helix domains; Region: HTH; cl00088 335284004246 Integrase core domain; Region: rve; cl01316 335284004247 Domain of unknown function DUF; Region: DUF204; pfam02659 335284004248 Domain of unknown function DUF; Region: DUF204; pfam02659 335284004249 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 335284004250 putative metal binding site [ion binding]; other site 335284004251 putative homodimer interface [polypeptide binding]; other site 335284004252 putative homotetramer interface [polypeptide binding]; other site 335284004253 putative homodimer-homodimer interface [polypeptide binding]; other site 335284004254 putative allosteric switch controlling residues; other site 335284004255 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 335284004256 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 335284004257 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 335284004258 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 335284004259 putative active site [active] 335284004260 catalytic triad [active] 335284004261 putative dimer interface [polypeptide binding]; other site 335284004262 Protein of unknown function, DUF; Region: DUF411; cl01142 335284004263 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 335284004264 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 335284004265 DNA binding residues [nucleotide binding] 335284004266 dimer interface [polypeptide binding]; other site 335284004267 putative metal binding site [ion binding]; other site 335284004268 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 335284004269 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 335284004270 metal-binding site [ion binding] 335284004271 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 335284004272 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284004273 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 335284004274 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 335284004275 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 335284004276 catalytic residues [active] 335284004277 central insert; other site 335284004278 Cytochrome C biogenesis protein; Region: CcmH; cl01179 335284004279 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 335284004280 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 335284004281 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 335284004282 lipoprotein signal peptidase; Provisional; Region: PRK14787 335284004283 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 335284004284 multiple promoter invertase; Provisional; Region: mpi; PRK13413 335284004285 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 335284004286 catalytic residues [active] 335284004287 catalytic nucleophile [active] 335284004288 Helix-turn-helix domains; Region: HTH; cl00088 335284004289 DNA-binding interface [nucleotide binding]; DNA binding site 335284004290 HsdM N-terminal domain; Region: HsdM_N; pfam12161 335284004291 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 335284004292 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; cl16911 335284004293 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 335284004294 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 335284004295 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 335284004296 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 335284004297 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 335284004298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004299 AAA domain; Region: AAA_23; pfam13476 335284004300 Walker A/P-loop; other site 335284004301 ATP binding site [chemical binding]; other site 335284004302 AAA domain; Region: AAA_13; pfam13166 335284004303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004304 Q-loop/lid; other site 335284004305 ABC transporter signature motif; other site 335284004306 Walker B; other site 335284004307 D-loop; other site 335284004308 H-loop/switch region; other site 335284004309 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284004310 MULE transposase domain; Region: MULE; pfam10551 335284004311 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284004312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 335284004313 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 335284004314 active site 335284004315 catalytic residues [active] 335284004316 DNA binding site [nucleotide binding] 335284004317 Int/Topo IB signature motif; other site 335284004318 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 335284004319 active site 335284004320 Int/Topo IB signature motif; other site 335284004321 catalytic residues [active] 335284004322 DNA binding site [nucleotide binding] 335284004323 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 335284004324 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 335284004325 Fic/DOC family; Region: Fic; cl00960 335284004326 Fic/DOC family; Region: Fic; cl00960 335284004327 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 335284004328 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 335284004329 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 335284004330 EamA-like transporter family; Region: EamA; cl01037 335284004331 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 335284004332 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 335284004333 DNA-binding site [nucleotide binding]; DNA binding site 335284004334 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 335284004335 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004336 homodimer interface [polypeptide binding]; other site 335284004337 catalytic residue [active] 335284004338 Protein of unknown function (DUF819); Region: DUF819; cl02317 335284004339 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 335284004340 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 335284004341 ATP binding site [chemical binding]; other site 335284004342 Mg++ binding site [ion binding]; other site 335284004343 motif III; other site 335284004344 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 335284004345 nucleotide binding region [chemical binding]; other site 335284004346 ATP-binding site [chemical binding]; other site 335284004347 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 335284004348 putative S-transferase; Provisional; Region: PRK11752 335284004349 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 335284004350 C-terminal domain interface [polypeptide binding]; other site 335284004351 GSH binding site (G-site) [chemical binding]; other site 335284004352 dimer interface [polypeptide binding]; other site 335284004353 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 335284004354 dimer interface [polypeptide binding]; other site 335284004355 N-terminal domain interface [polypeptide binding]; other site 335284004356 active site 335284004357 putative transporter; Provisional; Region: PRK10504 335284004358 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 335284004359 putative substrate translocation pore; other site 335284004360 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 335284004361 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 335284004362 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 335284004363 heme binding site [chemical binding]; other site 335284004364 ferroxidase pore; other site 335284004365 ferroxidase diiron center [ion binding]; other site 335284004366 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 335284004367 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 335284004368 heme binding site [chemical binding]; other site 335284004369 ferroxidase pore; other site 335284004370 ferroxidase diiron center [ion binding]; other site 335284004371 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 335284004372 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 335284004373 dimerization interface [polypeptide binding]; other site 335284004374 putative DNA binding site [nucleotide binding]; other site 335284004375 putative Zn2+ binding site [ion binding]; other site 335284004376 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 335284004377 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 335284004378 Walker A/P-loop; other site 335284004379 ATP binding site [chemical binding]; other site 335284004380 Q-loop/lid; other site 335284004381 ABC transporter signature motif; other site 335284004382 Walker B; other site 335284004383 D-loop; other site 335284004384 H-loop/switch region; other site 335284004385 sulfate transport protein; Provisional; Region: cysT; CHL00187 335284004386 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284004387 dimer interface [polypeptide binding]; other site 335284004388 conserved gate region; other site 335284004389 putative PBP binding loops; other site 335284004390 ABC-ATPase subunit interface; other site 335284004391 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 335284004392 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284004393 dimer interface [polypeptide binding]; other site 335284004394 conserved gate region; other site 335284004395 putative PBP binding loops; other site 335284004396 ABC-ATPase subunit interface; other site 335284004397 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 335284004398 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 335284004399 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 335284004400 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 335284004401 ATP-sulfurylase; Region: ATPS; cd00517 335284004402 active site 335284004403 HXXH motif; other site 335284004404 flexible loop; other site 335284004405 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 335284004406 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 335284004407 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 335284004408 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 335284004409 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 335284004410 Active Sites [active] 335284004411 siroheme synthase; Provisional; Region: cysG; PRK10637 335284004412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004413 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 335284004414 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 335284004415 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 335284004416 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 335284004417 active site 335284004418 metal binding site [ion binding]; metal-binding site 335284004419 DNA binding site [nucleotide binding] 335284004420 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 335284004421 exonuclease SbcC; Region: sbcc; TIGR00618 335284004422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004423 Walker A/P-loop; other site 335284004424 ATP binding site [chemical binding]; other site 335284004425 Q-loop/lid; other site 335284004426 exonuclease subunit SbcC; Provisional; Region: PRK10246 335284004427 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 335284004428 exonuclease subunit SbcC; Provisional; Region: PRK10246 335284004429 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 335284004430 ABC transporter signature motif; other site 335284004431 Walker B; other site 335284004432 D-loop; other site 335284004433 H-loop/switch region; other site 335284004434 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 335284004435 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 335284004436 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 335284004437 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284004438 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 335284004439 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284004440 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 335284004441 S-adenosylmethionine binding site [chemical binding]; other site 335284004442 Domain of unknown function (DUF329); Region: DUF329; cl01144 335284004443 acetylornithine aminotransferase; Provisional; Region: PRK02627 335284004444 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 335284004445 inhibitor-cofactor binding pocket; inhibition site 335284004446 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004447 catalytic residue [active] 335284004448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004449 Helix-turn-helix domains; Region: HTH; cl00088 335284004450 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 335284004451 putative effector binding pocket; other site 335284004452 dimerization interface [polypeptide binding]; other site 335284004453 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 335284004454 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284004455 Walker A motif; other site 335284004456 ATP binding site [chemical binding]; other site 335284004457 Walker B motif; other site 335284004458 arginine finger; other site 335284004459 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 335284004460 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 335284004461 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 335284004462 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 335284004463 dimer interface [polypeptide binding]; other site 335284004464 putative anticodon binding site; other site 335284004465 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 335284004466 motif 1; other site 335284004467 active site 335284004468 motif 2; other site 335284004469 motif 3; other site 335284004470 peptide chain release factor 1; Validated; Region: prfA; PRK00591 335284004471 RF-1 domain; Region: RF-1; cl02875 335284004472 RF-1 domain; Region: RF-1; cl02875 335284004473 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 335284004474 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 335284004475 dimer interface [polypeptide binding]; other site 335284004476 active site 335284004477 CoA binding pocket [chemical binding]; other site 335284004478 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 335284004479 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004480 AAA domain; Region: AAA_28; pfam13521 335284004481 Protein of unknown function (DUF421); Region: DUF421; cl00990 335284004482 EamA-like transporter family; Region: EamA; cl01037 335284004483 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 335284004484 Aspartase; Region: Aspartase; cd01357 335284004485 active sites [active] 335284004486 tetramer interface [polypeptide binding]; other site 335284004487 Domain of unknown function (DUF336); Region: DUF336; cl01249 335284004488 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 335284004489 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 335284004490 ATP binding site [chemical binding]; other site 335284004491 putative Mg++ binding site [ion binding]; other site 335284004492 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 335284004493 nucleotide binding region [chemical binding]; other site 335284004494 ATP-binding site [chemical binding]; other site 335284004495 Helicase associated domain (HA2); Region: HA2; cl04503 335284004496 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 335284004497 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 335284004498 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 335284004499 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 335284004500 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 335284004501 transmembrane helices; other site 335284004502 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 335284004503 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 335284004504 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 335284004505 NAD binding site [chemical binding]; other site 335284004506 homotetramer interface [polypeptide binding]; other site 335284004507 homodimer interface [polypeptide binding]; other site 335284004508 substrate binding site [chemical binding]; other site 335284004509 active site 335284004510 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 335284004511 homodecamer interface [polypeptide binding]; other site 335284004512 GTP cyclohydrolase I; Provisional; Region: PLN03044 335284004513 active site 335284004514 putative catalytic site residues [active] 335284004515 zinc binding site [ion binding]; other site 335284004516 GTP-CH-I/GFRP interaction surface; other site 335284004517 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 335284004518 Haemagglutinin; Region: HIM; pfam05662 335284004519 YadA-like C-terminal region; Region: YadA; pfam03895 335284004520 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 335284004521 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 335284004522 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 335284004523 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 335284004524 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 335284004525 putative active site [active] 335284004526 metal binding site [ion binding]; metal-binding site 335284004527 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 335284004528 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 335284004529 Walker A/P-loop; other site 335284004530 ATP binding site [chemical binding]; other site 335284004531 Q-loop/lid; other site 335284004532 ABC transporter signature motif; other site 335284004533 Walker B; other site 335284004534 D-loop; other site 335284004535 H-loop/switch region; other site 335284004536 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 335284004537 Walker A/P-loop; other site 335284004538 ATP binding site [chemical binding]; other site 335284004539 Q-loop/lid; other site 335284004540 ABC transporter signature motif; other site 335284004541 Walker B; other site 335284004542 D-loop; other site 335284004543 H-loop/switch region; other site 335284004544 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 335284004545 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 335284004546 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 335284004547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284004548 dimer interface [polypeptide binding]; other site 335284004549 conserved gate region; other site 335284004550 putative PBP binding loops; other site 335284004551 ABC-ATPase subunit interface; other site 335284004552 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 335284004553 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 335284004554 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 335284004555 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284004556 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 335284004557 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 335284004558 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 335284004559 homodimer interface [polypeptide binding]; other site 335284004560 substrate-cofactor binding pocket; other site 335284004561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004562 catalytic residue [active] 335284004563 Peptidase family M48; Region: Peptidase_M48; cl12018 335284004564 Peptidase family M48; Region: Peptidase_M48; cl12018 335284004565 LemA family; Region: LemA; cl00742 335284004566 Protein of unknown function (DUF541); Region: SIMPL; cl01077 335284004567 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 335284004568 glutamine synthetase; Provisional; Region: glnA; PRK09469 335284004569 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 335284004570 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 335284004571 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 335284004572 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 335284004573 glutamine binding [chemical binding]; other site 335284004574 catalytic triad [active] 335284004575 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 335284004576 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 335284004577 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 335284004578 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 335284004579 active site 335284004580 ribulose/triose binding site [chemical binding]; other site 335284004581 phosphate binding site [ion binding]; other site 335284004582 substrate (anthranilate) binding pocket [chemical binding]; other site 335284004583 product (indole) binding pocket [chemical binding]; other site 335284004584 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 335284004585 Smr domain; Region: Smr; cl02619 335284004586 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 335284004587 endonuclease III; Region: ENDO3c; smart00478 335284004588 minor groove reading motif; other site 335284004589 helix-hairpin-helix signature motif; other site 335284004590 substrate binding pocket [chemical binding]; other site 335284004591 active site 335284004592 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 335284004593 Mechanosensitive ion channel; Region: MS_channel; pfam00924 335284004594 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 335284004595 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 335284004596 N-terminal plug; other site 335284004597 ligand-binding site [chemical binding]; other site 335284004598 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 335284004599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004600 oligomerization interface [polypeptide binding]; other site 335284004601 active site 335284004602 NAD+ binding site [chemical binding]; other site 335284004603 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 335284004604 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 335284004605 FAD binding site [chemical binding]; other site 335284004606 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 335284004607 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 335284004608 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 335284004609 PAS domain; Region: PAS_9; pfam13426 335284004610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 335284004611 metal binding site [ion binding]; metal-binding site 335284004612 active site 335284004613 I-site; other site 335284004614 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 335284004615 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 335284004616 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 335284004617 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284004618 active site 335284004619 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 335284004620 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 335284004621 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 335284004622 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284004623 active site 335284004624 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 335284004625 Site-specific recombinase; Region: SpecificRecomb; cl15411 335284004626 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 335284004627 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 335284004628 active site 335284004629 metal binding site [ion binding]; metal-binding site 335284004630 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; cl16911 335284004631 Sel1 repeat; Region: Sel1; cl02723 335284004632 Sel1 repeat; Region: Sel1; cl02723 335284004633 Sel1 repeat; Region: Sel1; cl02723 335284004634 Sel1 repeat; Region: Sel1; cl02723 335284004635 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 335284004636 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 335284004637 replicative DNA helicase; Region: DnaB; TIGR00665 335284004638 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 335284004639 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 335284004640 Walker A motif; other site 335284004641 ATP binding site [chemical binding]; other site 335284004642 Walker B motif; other site 335284004643 DNA binding loops [nucleotide binding] 335284004644 alanine racemase; Reviewed; Region: alr; PRK00053 335284004645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 335284004646 active site 335284004647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284004648 substrate binding site [chemical binding]; other site 335284004649 catalytic residues [active] 335284004650 dimer interface [polypeptide binding]; other site 335284004651 ornithine carbamoyltransferase; Provisional; Region: PRK00779 335284004652 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 335284004653 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004654 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 335284004655 tetramer (dimer of dimers) interface [polypeptide binding]; other site 335284004656 active site 335284004657 dimer interface [polypeptide binding]; other site 335284004658 arsenical pump membrane protein; Provisional; Region: PRK15445 335284004659 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 335284004660 transmembrane helices; other site 335284004661 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 335284004662 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 335284004663 ArsC family; Region: ArsC; pfam03960 335284004664 catalytic residues [active] 335284004665 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 335284004666 dimerization interface [polypeptide binding]; other site 335284004667 putative DNA binding site [nucleotide binding]; other site 335284004668 putative Zn2+ binding site [ion binding]; other site 335284004669 threonine dehydratase; Reviewed; Region: PRK09224 335284004670 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 335284004671 tetramer interface [polypeptide binding]; other site 335284004672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004673 catalytic residue [active] 335284004674 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 335284004675 putative Ile/Val binding site [chemical binding]; other site 335284004676 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 335284004677 putative Ile/Val binding site [chemical binding]; other site 335284004678 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 335284004679 RNA binding surface [nucleotide binding]; other site 335284004680 Low molecular weight phosphatase family; Region: LMWPc; cd00115 335284004681 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 335284004682 active site 335284004683 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 335284004684 FAD binding domain; Region: FAD_binding_4; pfam01565 335284004685 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 335284004686 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 335284004687 putative active site [active] 335284004688 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 335284004689 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 335284004690 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 335284004691 DEAD-like helicases superfamily; Region: DEXDc; smart00487 335284004692 ATP binding site [chemical binding]; other site 335284004693 Mg++ binding site [ion binding]; other site 335284004694 motif III; other site 335284004695 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 335284004696 nucleotide binding region [chemical binding]; other site 335284004697 ATP-binding site [chemical binding]; other site 335284004698 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 335284004699 DNA-binding site [nucleotide binding]; DNA binding site 335284004700 RNA-binding motif; other site 335284004701 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 335284004702 active site 335284004703 trimer interface [polypeptide binding]; other site 335284004704 dimer interface [polypeptide binding]; other site 335284004705 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284004706 Ion transport protein; Region: Ion_trans; pfam00520 335284004707 Ion channel; Region: Ion_trans_2; cl11596 335284004708 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 335284004709 Transcriptional regulator; Region: Transcrip_reg; cl00361 335284004710 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 335284004711 DNA binding site [nucleotide binding] 335284004712 active site 335284004713 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 335284004714 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 335284004715 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 335284004716 P loop; other site 335284004717 GTP binding site [chemical binding]; other site 335284004718 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 335284004719 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 335284004720 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 335284004721 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 335284004722 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 335284004723 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 335284004724 Peptidase M15; Region: Peptidase_M15_3; cl01194 335284004725 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 335284004726 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 335284004727 DNA repair protein RadA; Provisional; Region: PRK11823 335284004728 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004729 Walker A motif; other site 335284004730 ATP binding site [chemical binding]; other site 335284004731 Walker B motif; other site 335284004732 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 335284004733 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 335284004734 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 335284004735 Walker A/P-loop; other site 335284004736 ATP binding site [chemical binding]; other site 335284004737 Q-loop/lid; other site 335284004738 ABC transporter signature motif; other site 335284004739 Walker B; other site 335284004740 D-loop; other site 335284004741 H-loop/switch region; other site 335284004742 OstA-like protein; Region: OstA; cl00844 335284004743 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 335284004744 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 335284004745 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284004746 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 335284004747 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 335284004748 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 335284004749 putative active site [active] 335284004750 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 335284004751 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 335284004752 Sm1 motif; other site 335284004753 intra - hexamer interaction site; other site 335284004754 inter - hexamer interaction site [polypeptide binding]; other site 335284004755 nucleotide binding pocket [chemical binding]; other site 335284004756 Sm2 motif; other site 335284004757 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284004758 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 335284004759 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 335284004760 ATP binding site [chemical binding]; other site 335284004761 Mg2+ binding site [ion binding]; other site 335284004762 G-X-G motif; other site 335284004763 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 335284004764 ATP binding site [chemical binding]; other site 335284004765 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 335284004766 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 335284004767 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 335284004768 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 335284004769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004770 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 335284004771 NAD(P) binding pocket [chemical binding]; other site 335284004772 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 335284004773 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 335284004774 dimer interface [polypeptide binding]; other site 335284004775 active site 335284004776 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 335284004777 catalytic residues [active] 335284004778 substrate binding site [chemical binding]; other site 335284004779 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 335284004780 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 335284004781 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 335284004782 RNA/DNA hybrid binding site [nucleotide binding]; other site 335284004783 active site 335284004784 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 335284004785 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 335284004786 NeuB family; Region: NeuB; cl00496 335284004787 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 335284004788 aminopeptidase N; Provisional; Region: pepN; PRK14015 335284004789 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 335284004790 Zn binding site [ion binding]; other site 335284004791 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284004792 ligand binding site [chemical binding]; other site 335284004793 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 335284004794 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284004795 Helix-turn-helix domains; Region: HTH; cl00088 335284004796 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284004797 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004798 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 335284004799 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 335284004800 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 335284004801 substrate binding site [chemical binding]; other site 335284004802 oxyanion hole (OAH) forming residues; other site 335284004803 trimer interface [polypeptide binding]; other site 335284004804 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; cl15762 335284004805 enoyl-CoA hydratase; Provisional; Region: PRK09076 335284004806 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 335284004807 substrate binding site [chemical binding]; other site 335284004808 oxyanion hole (OAH) forming residues; other site 335284004809 trimer interface [polypeptide binding]; other site 335284004810 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 335284004811 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 335284004812 substrate binding pocket [chemical binding]; other site 335284004813 FAD binding site [chemical binding]; other site 335284004814 catalytic base [active] 335284004815 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 335284004816 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284004817 tetrameric interface [polypeptide binding]; other site 335284004818 NAD binding site [chemical binding]; other site 335284004819 catalytic residues [active] 335284004820 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 335284004821 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 335284004822 AMP-binding enzyme; Region: AMP-binding; cl15778 335284004823 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284004824 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 335284004825 AMP-binding enzyme; Region: AMP-binding; cl15778 335284004826 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284004827 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 335284004828 Major Facilitator Superfamily; Region: MFS_1; pfam07690 335284004829 putative substrate translocation pore; other site 335284004830 Helix-turn-helix domains; Region: HTH; cl00088 335284004831 Rrf2 family protein; Region: rrf2_super; TIGR00738 335284004832 GTP-binding protein YchF; Reviewed; Region: PRK09601 335284004833 YchF GTPase; Region: YchF; cd01900 335284004834 G1 box; other site 335284004835 GTP/Mg2+ binding site [chemical binding]; other site 335284004836 Switch I region; other site 335284004837 G2 box; other site 335284004838 Switch II region; other site 335284004839 G3 box; other site 335284004840 G4 box; other site 335284004841 G5 box; other site 335284004842 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 335284004843 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 335284004844 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284004845 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 335284004846 Helix-turn-helix domains; Region: HTH; cl00088 335284004847 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 335284004848 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 335284004849 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 335284004850 general secretion pathway protein I; Region: gspI; TIGR01707 335284004851 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 335284004852 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284004853 Helix-turn-helix domains; Region: HTH; cl00088 335284004854 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 335284004855 active site 335284004856 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 335284004857 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 335284004858 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 335284004859 Walker A motif; other site 335284004860 ATP binding site [chemical binding]; other site 335284004861 Walker B motif; other site 335284004862 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 335284004863 homodimer interaction site [polypeptide binding]; other site 335284004864 cofactor binding site; other site 335284004865 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 335284004866 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 335284004867 FAD binding pocket [chemical binding]; other site 335284004868 FAD binding motif [chemical binding]; other site 335284004869 phosphate binding motif [ion binding]; other site 335284004870 beta-alpha-beta structure motif; other site 335284004871 NAD binding pocket [chemical binding]; other site 335284004872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 335284004873 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 335284004874 DNA-binding interface [nucleotide binding]; DNA binding site 335284004875 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 335284004876 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284004877 active site 335284004878 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 335284004879 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 335284004880 dimer interface [polypeptide binding]; other site 335284004881 active site 335284004882 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 335284004883 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 335284004884 substrate binding site [chemical binding]; other site 335284004885 oxyanion hole (OAH) forming residues; other site 335284004886 trimer interface [polypeptide binding]; other site 335284004887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284004888 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 335284004889 CoA-transferase family III; Region: CoA_transf_3; pfam02515 335284004890 LysR family transcriptional regulator; Provisional; Region: PRK14997 335284004891 Helix-turn-helix domains; Region: HTH; cl00088 335284004892 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 335284004893 putative effector binding pocket; other site 335284004894 dimerization interface [polypeptide binding]; other site 335284004895 DoxX; Region: DoxX; cl00976 335284004896 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 335284004897 Pirin-related protein [General function prediction only]; Region: COG1741 335284004898 Cupin domain; Region: Cupin_2; cl09118 335284004899 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 335284004900 dimer interface [polypeptide binding]; other site 335284004901 FMN binding site [chemical binding]; other site 335284004902 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 335284004903 Nucleoside recognition; Region: Gate; cl00486 335284004904 hypothetical protein; Provisional; Region: PRK07524 335284004905 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 335284004906 PYR/PP interface [polypeptide binding]; other site 335284004907 dimer interface [polypeptide binding]; other site 335284004908 TPP binding site [chemical binding]; other site 335284004909 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 335284004910 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 335284004911 TPP-binding site [chemical binding]; other site 335284004912 Arginase family; Region: Arginase; cl00306 335284004913 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004914 Helix-turn-helix domains; Region: HTH; cl00088 335284004915 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 335284004916 dimerization interface [polypeptide binding]; other site 335284004917 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 335284004918 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 335284004919 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 335284004920 aromatic arch; other site 335284004921 DCoH dimer interaction site [polypeptide binding]; other site 335284004922 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 335284004923 DCoH tetramer interaction site [polypeptide binding]; other site 335284004924 substrate binding site [chemical binding]; other site 335284004925 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 335284004926 cofactor binding site; other site 335284004927 metal binding site [ion binding]; metal-binding site 335284004928 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 335284004929 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 335284004930 dimer interface [polypeptide binding]; other site 335284004931 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 335284004932 active site 335284004933 Fe binding site [ion binding]; other site 335284004934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004935 Helix-turn-helix domains; Region: HTH; cl00088 335284004936 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 335284004937 putative dimerization interface [polypeptide binding]; other site 335284004938 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 335284004939 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 335284004940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284004941 homodimer interface [polypeptide binding]; other site 335284004942 catalytic residue [active] 335284004943 fumarylacetoacetase; Region: PLN02856 335284004944 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 335284004945 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 335284004946 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 335284004947 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 335284004948 Zn binding site [ion binding]; other site 335284004949 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284004950 Helix-turn-helix domains; Region: HTH; cl00088 335284004951 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284004952 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 335284004953 maleylacetoacetate isomerase; Region: maiA; TIGR01262 335284004954 C-terminal domain interface [polypeptide binding]; other site 335284004955 GSH binding site (G-site) [chemical binding]; other site 335284004956 putative dimer interface [polypeptide binding]; other site 335284004957 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 335284004958 dimer interface [polypeptide binding]; other site 335284004959 N-terminal domain interface [polypeptide binding]; other site 335284004960 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 335284004961 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 335284004962 active site 335284004963 DNA polymerase IV; Validated; Region: PRK02406 335284004964 DNA binding site [nucleotide binding] 335284004965 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 335284004966 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 335284004967 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 335284004968 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 335284004969 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 335284004970 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 335284004971 active site 335284004972 homodimer interface [polypeptide binding]; other site 335284004973 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 335284004974 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 335284004975 dimerization interface 3.5A [polypeptide binding]; other site 335284004976 active site 335284004977 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 335284004978 rRNA binding site [nucleotide binding]; other site 335284004979 predicted 30S ribosome binding site; other site 335284004980 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 335284004981 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 335284004982 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 335284004983 tartrate dehydrogenase; Provisional; Region: PRK08194 335284004984 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 335284004985 substrate binding site [chemical binding]; other site 335284004986 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 335284004987 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 335284004988 substrate binding site [chemical binding]; other site 335284004989 ligand binding site [chemical binding]; other site 335284004990 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284004991 Helix-turn-helix domains; Region: HTH; cl00088 335284004992 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 335284004993 dimerization interface [polypeptide binding]; other site 335284004994 Sodium:solute symporter family; Region: SSF; cl00456 335284004995 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 335284004996 putative transposase OrfB; Reviewed; Region: PHA02517 335284004997 HTH-like domain; Region: HTH_21; pfam13276 335284004998 Integrase core domain; Region: rve; cl01316 335284004999 Integrase core domain; Region: rve_3; cl15866 335284005000 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284005001 Helix-turn-helix domains; Region: HTH; cl00088 335284005002 Helix-turn-helix domains; Region: HTH; cl00088 335284005003 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284005004 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284005005 SlyX; Region: SlyX; cl01090 335284005006 ABC transporter ATPase component; Reviewed; Region: PRK11147 335284005007 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005008 Walker A/P-loop; other site 335284005009 ATP binding site [chemical binding]; other site 335284005010 Q-loop/lid; other site 335284005011 ABC transporter signature motif; other site 335284005012 Walker B; other site 335284005013 D-loop; other site 335284005014 H-loop/switch region; other site 335284005015 ABC transporter; Region: ABC_tran_2; pfam12848 335284005016 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 335284005017 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 335284005018 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 335284005019 [2Fe-2S] cluster binding site [ion binding]; other site 335284005020 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 335284005021 Qi binding site; other site 335284005022 intrachain domain interface; other site 335284005023 interchain domain interface [polypeptide binding]; other site 335284005024 heme bH binding site [chemical binding]; other site 335284005025 heme bL binding site [chemical binding]; other site 335284005026 Qo binding site; other site 335284005027 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 335284005028 interchain domain interface [polypeptide binding]; other site 335284005029 intrachain domain interface; other site 335284005030 Qi binding site; other site 335284005031 Qo binding site; other site 335284005032 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 335284005033 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 335284005034 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 335284005035 dimer interface [polypeptide binding]; other site 335284005036 N-terminal domain interface [polypeptide binding]; other site 335284005037 Stringent starvation protein B; Region: SspB; cl01120 335284005038 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 335284005039 trimer interface [polypeptide binding]; other site 335284005040 active site 335284005041 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 335284005042 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 335284005043 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 335284005044 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 335284005045 classical (c) SDRs; Region: SDR_c; cd05233 335284005046 NAD(P) binding site [chemical binding]; other site 335284005047 active site 335284005048 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 335284005049 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 335284005050 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 335284005051 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 335284005052 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 335284005053 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 335284005054 active site 335284005055 HIGH motif; other site 335284005056 KMSKS motif; other site 335284005057 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 335284005058 tRNA binding surface [nucleotide binding]; other site 335284005059 anticodon binding site; other site 335284005060 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 335284005061 dimer interface [polypeptide binding]; other site 335284005062 putative tRNA-binding site [nucleotide binding]; other site 335284005063 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 335284005064 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 335284005065 zinc binding site [ion binding]; other site 335284005066 putative ligand binding site [chemical binding]; other site 335284005067 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 335284005068 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 335284005069 zinc binding site [ion binding]; other site 335284005070 putative ligand binding site [chemical binding]; other site 335284005071 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 335284005072 TM-ABC transporter signature motif; other site 335284005073 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 335284005074 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005075 Walker A/P-loop; other site 335284005076 ATP binding site [chemical binding]; other site 335284005077 Q-loop/lid; other site 335284005078 ABC transporter signature motif; other site 335284005079 Walker B; other site 335284005080 D-loop; other site 335284005081 H-loop/switch region; other site 335284005082 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 335284005083 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 335284005084 putative molybdopterin cofactor binding site [chemical binding]; other site 335284005085 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 335284005086 putative molybdopterin cofactor binding site; other site 335284005087 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 335284005088 Sodium:solute symporter family; Region: SSF; cl00456 335284005089 integrase; Provisional; Region: PRK09692 335284005090 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 335284005091 active site 335284005092 Int/Topo IB signature motif; other site 335284005093 Protein of unknown function DUF262; Region: DUF262; cl14890 335284005094 Protein of unknown function DUF262; Region: DUF262; cl14890 335284005095 Uncharacterized conserved protein [Function unknown]; Region: COG3586 335284005096 TIGR02687 family protein; Region: TIGR02687 335284005097 PglZ domain; Region: PglZ; pfam08665 335284005098 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 335284005099 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; cl16911 335284005100 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; cl16911 335284005101 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 335284005102 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 335284005103 Sel1 repeat; Region: Sel1; cl02723 335284005104 Sel1 repeat; Region: Sel1; cl02723 335284005105 Sel1 repeat; Region: Sel1; cl02723 335284005106 Sel1 repeat; Region: Sel1; cl02723 335284005107 Sel1 repeat; Region: Sel1; cl02723 335284005108 Competence protein CoiA-like family; Region: CoiA; cl11541 335284005109 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 335284005110 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, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 335284005111 AAA domain; Region: AAA_21; pfam13304 335284005112 Walker A/P-loop; other site 335284005113 ATP binding site [chemical binding]; other site 335284005114 RloB-like protein; Region: RloB; pfam13707 335284005115 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 335284005116 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 335284005117 Domain of unknown function (DUF932); Region: DUF932; cl12129 335284005118 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 335284005119 Sensors of blue-light using FAD; Region: BLUF; cl04855 335284005120 Domain of unknown function (DUF927); Region: DUF927; cl12098 335284005121 Helix-turn-helix domain; Region: HTH_39; pfam14090 335284005122 integrase; Provisional; Region: PRK09692 335284005123 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 335284005124 active site 335284005125 Int/Topo IB signature motif; other site 335284005126 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 335284005127 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 335284005128 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 335284005129 putative active site [active] 335284005130 catalytic site [active] 335284005131 putative metal binding site [ion binding]; other site 335284005132 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 335284005133 Tetramer interface [polypeptide binding]; other site 335284005134 active site 335284005135 FMN-binding site [chemical binding]; other site 335284005136 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 335284005137 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 335284005138 S-adenosylmethionine binding site [chemical binding]; other site 335284005139 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 335284005140 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 335284005141 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 335284005142 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 335284005143 motif 1; other site 335284005144 active site 335284005145 motif 2; other site 335284005146 motif 3; other site 335284005147 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 335284005148 DHHA1 domain; Region: DHHA1; pfam02272 335284005149 aspartate kinase; Reviewed; Region: PRK06635 335284005150 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 335284005151 putative nucleotide binding site [chemical binding]; other site 335284005152 putative catalytic residues [active] 335284005153 putative Mg ion binding site [ion binding]; other site 335284005154 putative aspartate binding site [chemical binding]; other site 335284005155 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 335284005156 putative allosteric regulatory site; other site 335284005157 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 335284005158 Global regulator protein family; Region: CsrA; cl00670 335284005159 HopJ type III effector protein; Region: HopJ; pfam08888 335284005160 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 335284005161 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 335284005162 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 335284005163 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 335284005164 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 335284005165 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 335284005166 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 335284005167 metal-binding site [ion binding] 335284005168 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 335284005169 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 335284005170 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284005171 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 335284005172 Transglycosylase; Region: Transgly; cl07896 335284005173 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284005174 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 335284005175 binding surface 335284005176 Tetratricopeptide repeat; Region: TPR_16; pfam13432 335284005177 TPR motif; other site 335284005178 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 335284005179 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; cl16911 335284005180 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 335284005181 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 335284005182 Helix-turn-helix domains; Region: HTH; cl00088 335284005183 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 335284005184 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 335284005185 purine monophosphate binding site [chemical binding]; other site 335284005186 dimer interface [polypeptide binding]; other site 335284005187 putative catalytic residues [active] 335284005188 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 335284005189 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 335284005190 periplasmic folding chaperone; Provisional; Region: PRK10788 335284005191 SurA N-terminal domain; Region: SurA_N_3; cl07813 335284005192 PPIC-type PPIASE domain; Region: Rotamase; cl08278 335284005193 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 335284005194 IHF dimer interface [polypeptide binding]; other site 335284005195 IHF - DNA interface [nucleotide binding]; other site 335284005196 Helix-turn-helix domains; Region: HTH; cl00088 335284005197 Rrf2 family protein; Region: rrf2_super; TIGR00738 335284005198 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 335284005199 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 335284005200 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 335284005201 catalytic residue [active] 335284005202 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 335284005203 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 335284005204 trimerization site [polypeptide binding]; other site 335284005205 active site 335284005206 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 335284005207 co-chaperone HscB; Provisional; Region: hscB; PRK03578 335284005208 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 335284005209 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 335284005210 chaperone protein HscA; Provisional; Region: hscA; PRK05183 335284005211 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 335284005212 catalytic loop [active] 335284005213 iron binding site [ion binding]; other site 335284005214 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 335284005215 cyclase homology domain; Region: CHD; cd07302 335284005216 nucleotidyl binding site; other site 335284005217 metal binding site [ion binding]; metal-binding site 335284005218 dimer interface [polypeptide binding]; other site 335284005219 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 335284005220 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 335284005221 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 335284005222 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 335284005223 ATP binding site [chemical binding]; other site 335284005224 putative Mg++ binding site [ion binding]; other site 335284005225 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 335284005226 nucleotide binding region [chemical binding]; other site 335284005227 ATP-binding site [chemical binding]; other site 335284005228 TRCF domain; Region: TRCF; cl04088 335284005229 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 335284005230 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 335284005231 NADH(P)-binding; Region: NAD_binding_10; pfam13460 335284005232 NAD binding site [chemical binding]; other site 335284005233 active site 335284005234 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 335284005235 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 335284005236 catalytic core [active] 335284005237 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 335284005238 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 335284005239 putative active site [active] 335284005240 putative metal binding site [ion binding]; other site 335284005241 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 335284005242 active site 335284005243 dimer interface [polypeptide binding]; other site 335284005244 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 335284005245 IHF - DNA interface [nucleotide binding]; other site 335284005246 IHF dimer interface [polypeptide binding]; other site 335284005247 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 335284005248 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 335284005249 RNA binding site [nucleotide binding]; other site 335284005250 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 335284005251 RNA binding site [nucleotide binding]; other site 335284005252 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 335284005253 RNA binding site [nucleotide binding]; other site 335284005254 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec4; cd05689 335284005255 RNA binding site [nucleotide binding]; other site 335284005256 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 335284005257 RNA binding site [nucleotide binding]; other site 335284005258 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec6; cd05691 335284005259 RNA binding site [nucleotide binding]; other site 335284005260 cytidylate kinase; Provisional; Region: cmk; PRK00023 335284005261 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 335284005262 CMP-binding site; other site 335284005263 The sites determining sugar specificity; other site 335284005264 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 335284005265 nucleoside/Zn binding site; other site 335284005266 dimer interface [polypeptide binding]; other site 335284005267 catalytic motif [active] 335284005268 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 335284005269 ligand binding site [chemical binding]; other site 335284005270 active site 335284005271 UGI interface [polypeptide binding]; other site 335284005272 catalytic site [active] 335284005273 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 335284005274 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284005275 Walker A motif; other site 335284005276 ATP binding site [chemical binding]; other site 335284005277 Walker B motif; other site 335284005278 arginine finger; other site 335284005279 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284005280 Walker A motif; other site 335284005281 ATP binding site [chemical binding]; other site 335284005282 Walker B motif; other site 335284005283 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 335284005284 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 335284005285 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 335284005286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005287 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 335284005288 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 335284005289 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 335284005290 substrate binding site [chemical binding]; other site 335284005291 active site 335284005292 gamma-glutamyl kinase; Provisional; Region: PRK05429 335284005293 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 335284005294 nucleotide binding site [chemical binding]; other site 335284005295 homotetrameric interface [polypeptide binding]; other site 335284005296 putative phosphate binding site [ion binding]; other site 335284005297 putative allosteric binding site; other site 335284005298 PUA domain; Region: PUA; cl00607 335284005299 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 335284005300 GTP1/OBG; Region: GTP1_OBG; pfam01018 335284005301 Obg GTPase; Region: Obg; cd01898 335284005302 G1 box; other site 335284005303 GTP/Mg2+ binding site [chemical binding]; other site 335284005304 Switch I region; other site 335284005305 G2 box; other site 335284005306 G3 box; other site 335284005307 Switch II region; other site 335284005308 G4 box; other site 335284005309 G5 box; other site 335284005310 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 335284005311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005312 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 335284005313 Lipocalin / cytosolic fatty-acid binding protein family; Region: Lipocalin; cl01150 335284005314 hypothetical protein; Provisional; Region: PRK08999 335284005315 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 335284005316 active site 335284005317 8-oxo-dGMP binding site [chemical binding]; other site 335284005318 nudix motif; other site 335284005319 metal binding site [ion binding]; metal-binding site 335284005320 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 335284005321 Hemin uptake protein hemP; Region: hemP; cl10043 335284005322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 335284005323 Family of unknown function (DUF490); Region: DUF490; pfam04357 335284005324 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 335284005325 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005326 Surface antigen; Region: Bac_surface_Ag; cl03097 335284005327 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 335284005328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 335284005329 putative substrate translocation pore; other site 335284005330 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 335284005331 diiron binding motif [ion binding]; other site 335284005332 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 335284005333 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 335284005334 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 335284005335 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 335284005336 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 335284005337 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 335284005338 Substrate binding site; other site 335284005339 metal-binding site 335284005340 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284005341 Phosphotransferase enzyme family; Region: APH; pfam01636 335284005342 OstA-like protein; Region: OstA; cl00844 335284005343 Organic solvent tolerance protein; Region: OstA_C; pfam04453 335284005344 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 335284005345 SurA N-terminal domain; Region: SurA_N_3; cl07813 335284005346 PPIC-type PPIASE domain; Region: Rotamase; cl08278 335284005347 PPIC-type PPIASE domain; Region: Rotamase; cl08278 335284005348 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 335284005349 putative catalytic site [active] 335284005350 putative metal binding site [ion binding]; other site 335284005351 putative phosphate binding site [ion binding]; other site 335284005352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005353 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 335284005354 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 335284005355 SOUL heme-binding protein; Region: SOUL; pfam04832 335284005356 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 335284005357 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 335284005358 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 335284005359 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 335284005360 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 335284005361 active site 335284005362 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 335284005363 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 335284005364 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 335284005365 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 335284005366 trimer interface [polypeptide binding]; other site 335284005367 active site 335284005368 UDP-GlcNAc binding site [chemical binding]; other site 335284005369 lipid binding site [chemical binding]; lipid-binding site 335284005370 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 335284005371 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005372 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005373 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005374 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005375 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 335284005376 Surface antigen; Region: Bac_surface_Ag; cl03097 335284005377 zinc metallopeptidase RseP; Provisional; Region: PRK10779 335284005378 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 335284005379 active site 335284005380 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 335284005381 protein binding site [polypeptide binding]; other site 335284005382 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 335284005383 protein binding site [polypeptide binding]; other site 335284005384 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 335284005385 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 335284005386 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 335284005387 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 335284005388 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 335284005389 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 335284005390 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 335284005391 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 335284005392 catalytic residue [active] 335284005393 putative FPP diphosphate binding site; other site 335284005394 putative FPP binding hydrophobic cleft; other site 335284005395 dimer interface [polypeptide binding]; other site 335284005396 putative IPP diphosphate binding site; other site 335284005397 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 335284005398 hinge region; other site 335284005399 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 335284005400 putative nucleotide binding site [chemical binding]; other site 335284005401 uridine monophosphate binding site [chemical binding]; other site 335284005402 homohexameric interface [polypeptide binding]; other site 335284005403 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 335284005404 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 335284005405 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 335284005406 FeS/SAM binding site; other site 335284005407 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 335284005408 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284005409 dimer interface [polypeptide binding]; other site 335284005410 phosphorylation site [posttranslational modification] 335284005411 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 335284005412 ATP binding site [chemical binding]; other site 335284005413 G-X-G motif; other site 335284005414 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 335284005415 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 335284005416 active site 335284005417 phosphorylation site [posttranslational modification] 335284005418 intermolecular recognition site; other site 335284005419 dimerization interface [polypeptide binding]; other site 335284005420 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284005421 Walker A motif; other site 335284005422 ATP binding site [chemical binding]; other site 335284005423 Walker B motif; other site 335284005424 arginine finger; other site 335284005425 Helix-turn-helix domains; Region: HTH; cl00088 335284005426 Catalytic domain of Protein Kinases; Region: PKc; cd00180 335284005427 active site 335284005428 ATP binding site [chemical binding]; other site 335284005429 substrate binding site [chemical binding]; other site 335284005430 activation loop (A-loop); other site 335284005431 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284005432 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 335284005433 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284005434 Walker A motif; other site 335284005435 ATP binding site [chemical binding]; other site 335284005436 Walker B motif; other site 335284005437 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284005438 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 335284005439 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 335284005440 putative C-terminal domain interface [polypeptide binding]; other site 335284005441 putative GSH binding site (G-site) [chemical binding]; other site 335284005442 putative dimer interface [polypeptide binding]; other site 335284005443 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 335284005444 putative N-terminal domain interface [polypeptide binding]; other site 335284005445 putative dimer interface [polypeptide binding]; other site 335284005446 putative substrate binding pocket (H-site) [chemical binding]; other site 335284005447 Predicted permeases [General function prediction only]; Region: RarD; COG2962 335284005448 EamA-like transporter family; Region: EamA; cl01037 335284005449 DNA gyrase subunit A; Validated; Region: PRK05560 335284005450 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 335284005451 CAP-like domain; other site 335284005452 active site 335284005453 primary dimer interface [polypeptide binding]; other site 335284005454 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005455 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005456 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005457 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005458 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005459 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284005460 Methyltransferase domain; Region: Methyltransf_31; pfam13847 335284005461 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 335284005462 S-adenosylmethionine binding site [chemical binding]; other site 335284005463 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 335284005464 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005465 Walker A/P-loop; other site 335284005466 ATP binding site [chemical binding]; other site 335284005467 Q-loop/lid; other site 335284005468 ABC transporter signature motif; other site 335284005469 Walker B; other site 335284005470 D-loop; other site 335284005471 H-loop/switch region; other site 335284005472 TOBE domain; Region: TOBE_2; cl01440 335284005473 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 335284005474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284005475 dimer interface [polypeptide binding]; other site 335284005476 conserved gate region; other site 335284005477 putative PBP binding loops; other site 335284005478 ABC-ATPase subunit interface; other site 335284005479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284005480 dimer interface [polypeptide binding]; other site 335284005481 conserved gate region; other site 335284005482 putative PBP binding loops; other site 335284005483 ABC-ATPase subunit interface; other site 335284005484 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 335284005485 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 335284005486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 335284005487 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 335284005488 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 335284005489 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 335284005490 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 335284005491 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 335284005492 Sel1 repeat; Region: Sel1; cl02723 335284005493 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 335284005494 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 335284005495 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 335284005496 putative active site [active] 335284005497 catalytic site [active] 335284005498 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 335284005499 putative active site [active] 335284005500 catalytic site [active] 335284005501 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 335284005502 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 335284005503 catalytic site [active] 335284005504 putative active site [active] 335284005505 putative substrate binding site [chemical binding]; other site 335284005506 dimer interface [polypeptide binding]; other site 335284005507 GTPase RsgA; Reviewed; Region: PRK12288 335284005508 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 335284005509 RNA binding site [nucleotide binding]; other site 335284005510 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 335284005511 GTPase/Zn-binding domain interface [polypeptide binding]; other site 335284005512 GTP/Mg2+ binding site [chemical binding]; other site 335284005513 G4 box; other site 335284005514 G5 box; other site 335284005515 G1 box; other site 335284005516 Switch I region; other site 335284005517 G2 box; other site 335284005518 G3 box; other site 335284005519 Switch II region; other site 335284005520 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 335284005521 active site residue [active] 335284005522 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 335284005523 GSH binding site [chemical binding]; other site 335284005524 catalytic residues [active] 335284005525 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 335284005526 SecA binding site; other site 335284005527 Preprotein binding site; other site 335284005528 adenylate kinase; Reviewed; Region: adk; PRK00279 335284005529 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 335284005530 AMP-binding site [chemical binding]; other site 335284005531 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 335284005532 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 335284005533 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 335284005534 binding surface 335284005535 TPR motif; other site 335284005536 Cytochrome C biogenesis protein; Region: CcmH; cl01179 335284005537 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 335284005538 catalytic residues [active] 335284005539 central insert; other site 335284005540 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 335284005541 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 335284005542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 335284005543 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 335284005544 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 335284005545 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284005546 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 335284005547 S-adenosylmethionine binding site [chemical binding]; other site 335284005548 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 335284005549 23S rRNA interface [nucleotide binding]; other site 335284005550 L3 interface [polypeptide binding]; other site 335284005551 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 335284005552 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 335284005553 putative acyl-acceptor binding pocket; other site 335284005554 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 335284005555 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 335284005556 active site 335284005557 HIGH motif; other site 335284005558 dimer interface [polypeptide binding]; other site 335284005559 KMSKS motif; other site 335284005560 ScpA/B protein; Region: ScpA_ScpB; cl00598 335284005561 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 335284005562 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 335284005563 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 335284005564 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 335284005565 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 335284005566 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 335284005567 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 335284005568 substrate binding pocket [chemical binding]; other site 335284005569 chain length determination region; other site 335284005570 substrate-Mg2+ binding site; other site 335284005571 catalytic residues [active] 335284005572 aspartate-rich region 1; other site 335284005573 active site lid residues [active] 335284005574 aspartate-rich region 2; other site 335284005575 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 335284005576 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284005577 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284005578 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 335284005579 Protein export membrane protein; Region: SecD_SecF; cl14618 335284005580 Protein export membrane protein; Region: SecD_SecF; cl14618 335284005581 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 335284005582 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 335284005583 dimer interface [polypeptide binding]; other site 335284005584 allosteric magnesium binding site [ion binding]; other site 335284005585 active site 335284005586 aspartate-rich active site metal binding site; other site 335284005587 Schiff base residues; other site 335284005588 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 335284005589 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 335284005590 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 335284005591 putative dimer interface [polypeptide binding]; other site 335284005592 N-terminal domain interface [polypeptide binding]; other site 335284005593 putative substrate binding pocket (H-site) [chemical binding]; other site 335284005594 Integrase core domain; Region: rve; cl01316 335284005595 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 335284005596 Response regulator receiver domain; Region: Response_reg; pfam00072 335284005597 active site 335284005598 phosphorylation site [posttranslational modification] 335284005599 intermolecular recognition site; other site 335284005600 dimerization interface [polypeptide binding]; other site 335284005601 Response regulator receiver domain; Region: Response_reg; pfam00072 335284005602 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 335284005603 active site 335284005604 phosphorylation site [posttranslational modification] 335284005605 intermolecular recognition site; other site 335284005606 dimerization interface [polypeptide binding]; other site 335284005607 Cache domain; Region: Cache_1; pfam02743 335284005608 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 335284005609 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284005610 dimer interface [polypeptide binding]; other site 335284005611 phosphorylation site [posttranslational modification] 335284005612 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 335284005613 ATP binding site [chemical binding]; other site 335284005614 G-X-G motif; other site 335284005615 H+ Antiporter protein; Region: 2A0121; TIGR00900 335284005616 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 335284005617 putative substrate translocation pore; other site 335284005618 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 335284005619 putative homodimer interface [polypeptide binding]; other site 335284005620 putative homotetramer interface [polypeptide binding]; other site 335284005621 putative metal binding site [ion binding]; other site 335284005622 putative homodimer-homodimer interface [polypeptide binding]; other site 335284005623 putative allosteric switch controlling residues; other site 335284005624 HupE / UreJ protein; Region: HupE_UreJ; cl01011 335284005625 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 335284005626 Fic/DOC family; Region: Fic; cl00960 335284005627 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284005628 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 335284005629 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 335284005630 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 335284005631 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 335284005632 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284005633 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284005634 Cytochrome c; Region: Cytochrom_C; cl11414 335284005635 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 335284005636 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 335284005637 Cytochrome c; Region: Cytochrom_C; cl11414 335284005638 YceI-like domain; Region: YceI; cl01001 335284005639 benzoate transporter; Region: benE; TIGR00843 335284005640 Benzoate membrane transport protein; Region: BenE; pfam03594 335284005641 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 335284005642 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 335284005643 NADP binding site [chemical binding]; other site 335284005644 dimer interface [polypeptide binding]; other site 335284005645 Transcriptional regulator [Transcription]; Region: IclR; COG1414 335284005646 Helix-turn-helix domains; Region: HTH; cl00088 335284005647 Bacterial transcriptional regulator; Region: IclR; pfam01614 335284005648 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 335284005649 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 335284005650 active site 335284005651 putative substrate binding pocket [chemical binding]; other site 335284005652 Integral membrane protein TerC family; Region: TerC; cl10468 335284005653 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 335284005654 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 335284005655 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 335284005656 DNA binding residues [nucleotide binding] 335284005657 dimer interface [polypeptide binding]; other site 335284005658 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 335284005659 Arginase family; Region: Arginase; cl00306 335284005660 ornithine cyclodeaminase; Validated; Region: PRK07589 335284005661 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005662 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 335284005663 Helix-turn-helix domains; Region: HTH; cl00088 335284005664 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 335284005665 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 335284005666 active site 335284005667 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 335284005668 S-adenosylmethionine binding site [chemical binding]; other site 335284005669 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 335284005670 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284005671 active site 335284005672 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 335284005673 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 335284005674 active site 335284005675 homotetramer interface [polypeptide binding]; other site 335284005676 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 335284005677 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 335284005678 active site 335284005679 motif I; other site 335284005680 motif II; other site 335284005681 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 335284005682 Ligand binding site; other site 335284005683 metal-binding site 335284005684 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 335284005685 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 335284005686 XdhC Rossmann domain; Region: XdhC_C; pfam13478 335284005687 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 335284005688 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 335284005689 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 335284005690 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 335284005691 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 335284005692 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 335284005693 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 335284005694 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 335284005695 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 335284005696 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005697 H-loop/switch region; other site 335284005698 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 335284005699 BCCT family transporter; Region: BCCT; cl00569 335284005700 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 335284005701 active site 335284005702 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 335284005703 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284005704 NAD(P) binding site [chemical binding]; other site 335284005705 catalytic residues [active] 335284005706 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 335284005707 homotrimer interaction site [polypeptide binding]; other site 335284005708 putative active site [active] 335284005709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284005710 Helix-turn-helix domains; Region: HTH; cl00088 335284005711 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 335284005712 putative dimerization interface [polypeptide binding]; other site 335284005713 PPIC-type PPIASE domain; Region: Rotamase; cl08278 335284005714 OsmC-like protein; Region: OsmC; cl00767 335284005715 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 335284005716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284005717 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 335284005718 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 335284005719 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 335284005720 probable active site [active] 335284005721 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 335284005722 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 335284005723 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 335284005724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 335284005725 DNA-binding site [nucleotide binding]; DNA binding site 335284005726 UTRA domain; Region: UTRA; cl01230 335284005727 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 335284005728 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 335284005729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 335284005730 NMT1-like family; Region: NMT1_2; cl15260 335284005731 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 335284005732 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 335284005733 D-cysteine desulfhydrase; Validated; Region: PRK03910 335284005734 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 335284005735 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 335284005736 catalytic residue [active] 335284005737 Spore Coat Protein U domain; Region: SCPU; cl02253 335284005738 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 335284005739 putative fimbrial outer membrane usher protein; Provisional; Region: PRK15304 335284005740 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 335284005741 PapC C-terminal domain; Region: PapC_C; pfam13953 335284005742 Spore Coat Protein U domain; Region: SCPU; cl02253 335284005743 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 335284005744 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 335284005745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005746 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 335284005747 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 335284005748 Cation transport protein; Region: TrkH; cl10514 335284005749 Domain of unknown function (DUF305); Region: DUF305; cl15795 335284005750 Protein of unknown function, DUF; Region: DUF411; cl01142 335284005751 EamA-like transporter family; Region: EamA; cl01037 335284005752 Protein of unknown function DUF45; Region: DUF45; cl00636 335284005753 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005754 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 335284005755 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 335284005756 PIF1-like helicase; Region: PIF1; pfam05970 335284005757 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005758 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 335284005759 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 335284005760 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284005761 NAD(P) binding site [chemical binding]; other site 335284005762 catalytic residues [active] 335284005763 Protein of unknown function (DUF779); Region: DUF779; cl01432 335284005764 choline dehydrogenase; Validated; Region: PRK02106 335284005765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284005766 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 335284005767 Restriction endonuclease; Region: Mrr_cat; cl00516 335284005768 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 335284005769 YceI-like domain; Region: YceI; cl01001 335284005770 transketolase; Reviewed; Region: PRK12753 335284005771 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 335284005772 TPP-binding site [chemical binding]; other site 335284005773 dimer interface [polypeptide binding]; other site 335284005774 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 335284005775 PYR/PP interface [polypeptide binding]; other site 335284005776 dimer interface [polypeptide binding]; other site 335284005777 TPP binding site [chemical binding]; other site 335284005778 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 335284005779 seryl-tRNA synthetase; Provisional; Region: PRK05431 335284005780 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 335284005781 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 335284005782 dimer interface [polypeptide binding]; other site 335284005783 active site 335284005784 motif 1; other site 335284005785 motif 2; other site 335284005786 motif 3; other site 335284005787 YcxB-like protein; Region: YcxB; pfam14317 335284005788 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 335284005789 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 335284005790 dimerization interface [polypeptide binding]; other site 335284005791 DPS ferroxidase diiron center [ion binding]; other site 335284005792 ion pore; other site 335284005793 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 335284005794 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284005795 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 335284005796 Domain of unknown function DUF20; Region: UPF0118; pfam01594 335284005797 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 335284005798 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 335284005799 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 335284005800 dimerization interface [polypeptide binding]; other site 335284005801 putative ATP binding site [chemical binding]; other site 335284005802 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 335284005803 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 335284005804 active site 335284005805 substrate binding site [chemical binding]; other site 335284005806 cosubstrate binding site; other site 335284005807 catalytic site [active] 335284005808 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 335284005809 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 335284005810 NAD(P) binding site [chemical binding]; other site 335284005811 catalytic residues [active] 335284005812 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284005813 Helix-turn-helix domains; Region: HTH; cl00088 335284005814 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 335284005815 substrate binding pocket [chemical binding]; other site 335284005816 dimerization interface [polypeptide binding]; other site 335284005817 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 335284005818 tetramer interface [polypeptide binding]; other site 335284005819 active site 335284005820 Mg2+/Mn2+ binding site [ion binding]; other site 335284005821 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 335284005822 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 335284005823 putative active site [active] 335284005824 putative metal binding residues [ion binding]; other site 335284005825 signature motif; other site 335284005826 putative triphosphate binding site [ion binding]; other site 335284005827 CHAD domain; Region: CHAD; cl10506 335284005828 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 335284005829 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 335284005830 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 335284005831 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 335284005832 ANP binding site [chemical binding]; other site 335284005833 Substrate Binding Site II [chemical binding]; other site 335284005834 Substrate Binding Site I [chemical binding]; other site 335284005835 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 335284005836 active site 335284005837 substrate binding pocket [chemical binding]; other site 335284005838 dimer interface [polypeptide binding]; other site 335284005839 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 335284005840 active site 335284005841 catalytic site [active] 335284005842 substrate binding site [chemical binding]; other site 335284005843 Sensors of blue-light using FAD; Region: BLUF; cl04855 335284005844 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 335284005845 substrate binding site; other site 335284005846 dimer interface; other site 335284005847 Septum formation initiator; Region: DivIC; cl11433 335284005848 enolase; Provisional; Region: eno; PRK00077 335284005849 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 335284005850 dimer interface [polypeptide binding]; other site 335284005851 metal binding site [ion binding]; metal-binding site 335284005852 substrate binding pocket [chemical binding]; other site 335284005853 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 335284005854 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 335284005855 metal-binding site [ion binding] 335284005856 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 335284005857 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284005858 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 335284005859 metal-binding site [ion binding] 335284005860 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 335284005861 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 335284005862 NeuB family; Region: NeuB; cl00496 335284005863 CTP synthetase; Validated; Region: pyrG; PRK05380 335284005864 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 335284005865 Catalytic site [active] 335284005866 active site 335284005867 UTP binding site [chemical binding]; other site 335284005868 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 335284005869 active site 335284005870 putative oxyanion hole; other site 335284005871 catalytic triad [active] 335284005872 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 335284005873 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 335284005874 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 335284005875 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 335284005876 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 335284005877 eyelet of channel; other site 335284005878 trimer interface [polypeptide binding]; other site 335284005879 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 335284005880 active site 335284005881 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 335284005882 active site 335284005883 dinuclear metal binding site [ion binding]; other site 335284005884 dimerization interface [polypeptide binding]; other site 335284005885 polyphosphate kinase; Provisional; Region: PRK05443 335284005886 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 335284005887 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 335284005888 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 335284005889 putative active site [active] 335284005890 catalytic site [active] 335284005891 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 335284005892 putative domain interface [polypeptide binding]; other site 335284005893 putative active site [active] 335284005894 catalytic site [active] 335284005895 Transglycosylase; Region: Transgly; cl07896 335284005896 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 335284005897 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 335284005898 FAD binding domain; Region: FAD_binding_4; pfam01565 335284005899 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 335284005900 FAD binding domain; Region: FAD_binding_4; pfam01565 335284005901 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 335284005902 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 335284005903 Cysteine-rich domain; Region: CCG; pfam02754 335284005904 Cysteine-rich domain; Region: CCG; pfam02754 335284005905 L-lactate permease; Region: Lactate_perm; cl00701 335284005906 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 335284005907 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 335284005908 phosphate binding site [ion binding]; other site 335284005909 intramembrane serine protease GlpG; Provisional; Region: PRK10907 335284005910 Rhomboid family; Region: Rhomboid; cl11446 335284005911 Rhomboid family; Region: Rhomboid; cl11446 335284005912 MltA-interacting protein MipA; Region: MipA; cl01504 335284005913 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 335284005914 catalytic triad [active] 335284005915 dimer interface [polypeptide binding]; other site 335284005916 fumarate hydratase; Reviewed; Region: fumC; PRK00485 335284005917 Class II fumarases; Region: Fumarase_classII; cd01362 335284005918 active site 335284005919 tetramer interface [polypeptide binding]; other site 335284005920 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 335284005921 Predicted permease [General function prediction only]; Region: COG2056 335284005922 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 335284005923 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 335284005924 Found in ATP-dependent protease La (LON); Region: LON; smart00464 335284005925 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284005926 Walker A motif; other site 335284005927 ATP binding site [chemical binding]; other site 335284005928 Walker B motif; other site 335284005929 arginine finger; other site 335284005930 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 335284005931 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 335284005932 E-class dimer interface [polypeptide binding]; other site 335284005933 P-class dimer interface [polypeptide binding]; other site 335284005934 active site 335284005935 Cu2+ binding site [ion binding]; other site 335284005936 Zn2+ binding site [ion binding]; other site 335284005937 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 335284005938 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 335284005939 active site 335284005940 interdomain interaction site; other site 335284005941 putative metal-binding site [ion binding]; other site 335284005942 nucleotide binding site [chemical binding]; other site 335284005943 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 335284005944 domain I; other site 335284005945 DNA binding groove [nucleotide binding] 335284005946 phosphate binding site [ion binding]; other site 335284005947 domain II; other site 335284005948 domain III; other site 335284005949 nucleotide binding site [chemical binding]; other site 335284005950 catalytic site [active] 335284005951 domain IV; other site 335284005952 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 335284005953 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 335284005954 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 335284005955 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 335284005956 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 335284005957 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 335284005958 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 335284005959 Gram-negative bacterial tonB protein; Region: TonB; cl10048 335284005960 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 335284005961 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 335284005962 putative ligand binding residues [chemical binding]; other site 335284005963 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 335284005964 ABC-ATPase subunit interface; other site 335284005965 dimer interface [polypeptide binding]; other site 335284005966 putative PBP binding regions; other site 335284005967 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 335284005968 ABC-ATPase subunit interface; other site 335284005969 dimer interface [polypeptide binding]; other site 335284005970 putative PBP binding regions; other site 335284005971 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 335284005972 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 335284005973 Walker A/P-loop; other site 335284005974 ATP binding site [chemical binding]; other site 335284005975 Q-loop/lid; other site 335284005976 ABC transporter signature motif; other site 335284005977 Walker B; other site 335284005978 D-loop; other site 335284005979 H-loop/switch region; other site 335284005980 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 335284005981 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 335284005982 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 335284005983 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 335284005984 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 335284005985 N-terminal plug; other site 335284005986 ligand-binding site [chemical binding]; other site 335284005987 xanthine permease; Region: pbuX; TIGR03173 335284005988 Helix-turn-helix domains; Region: HTH; cl00088 335284005989 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 335284005990 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 335284005991 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 335284005992 active site 335284005993 homotetramer interface [polypeptide binding]; other site 335284005994 Predicted membrane protein [Function unknown]; Region: COG3748 335284005995 Protein of unknown function (DUF989); Region: DUF989; pfam06181 335284005996 Cytochrome c; Region: Cytochrom_C; cl11414 335284005997 Sodium:solute symporter family; Region: SSF; cl00456 335284005998 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 335284005999 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 335284006000 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 335284006001 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 335284006002 hypothetical protein; Provisional; Region: PRK11171 335284006003 Cupin domain; Region: Cupin_2; cl09118 335284006004 Cupin domain; Region: Cupin_2; cl09118 335284006005 Helix-turn-helix domains; Region: HTH; cl00088 335284006006 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 335284006007 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 335284006008 chorismate binding enzyme; Region: Chorismate_bind; cl10555 335284006009 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 335284006010 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 335284006011 glutamine binding [chemical binding]; other site 335284006012 catalytic triad [active] 335284006013 EamA-like transporter family; Region: EamA; cl01037 335284006014 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 335284006015 EamA-like transporter family; Region: EamA; cl01037 335284006016 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 335284006017 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 335284006018 Walker A/P-loop; other site 335284006019 ATP binding site [chemical binding]; other site 335284006020 Q-loop/lid; other site 335284006021 ABC transporter signature motif; other site 335284006022 Walker B; other site 335284006023 D-loop; other site 335284006024 H-loop/switch region; other site 335284006025 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 335284006026 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 335284006027 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284006028 dimer interface [polypeptide binding]; other site 335284006029 conserved gate region; other site 335284006030 putative PBP binding loops; other site 335284006031 ABC-ATPase subunit interface; other site 335284006032 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 335284006033 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 335284006034 substrate binding pocket [chemical binding]; other site 335284006035 membrane-bound complex binding site; other site 335284006036 hinge residues; other site 335284006037 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 335284006038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 335284006039 DNA-binding site [nucleotide binding]; DNA binding site 335284006040 UTRA domain; Region: UTRA; cl01230 335284006041 urocanate hydratase; Provisional; Region: PRK05414 335284006042 urocanate hydratase; Region: hutU; TIGR01228 335284006043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 335284006044 Nucleoside recognition; Region: Gate; cl00486 335284006045 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 335284006046 active sites [active] 335284006047 tetramer interface [polypeptide binding]; other site 335284006048 Arginase family; Region: Arginase; cl00306 335284006049 imidazolonepropionase; Validated; Region: PRK09356 335284006050 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 335284006051 active site 335284006052 glutamate dehydrogenase; Provisional; Region: PRK09414 335284006053 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 335284006054 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006055 NAD(P) binding pocket [chemical binding]; other site 335284006056 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 335284006057 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284006058 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 335284006059 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 335284006060 catalytic residues [active] 335284006061 Uncharacterized conserved protein (DUF2164); Region: DUF2164; cl02278 335284006062 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 335284006063 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 335284006064 substrate binding site [chemical binding]; other site 335284006065 catalytic Zn binding site [ion binding]; other site 335284006066 NAD binding site [chemical binding]; other site 335284006067 structural Zn binding site [ion binding]; other site 335284006068 dimer interface [polypeptide binding]; other site 335284006069 LysR family transcriptional regulator; Provisional; Region: PRK14997 335284006070 Helix-turn-helix domains; Region: HTH; cl00088 335284006071 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 335284006072 dimerization interface [polypeptide binding]; other site 335284006073 Domain of unknown function DUF302; Region: DUF302; cl01364 335284006074 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 335284006075 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 335284006076 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 335284006077 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 335284006078 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 335284006079 MoxR-like ATPases [General function prediction only]; Region: COG0714 335284006080 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006081 Cytochrome c; Region: Cytochrom_C; cl11414 335284006082 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 335284006083 putative active site [active] 335284006084 heme pocket [chemical binding]; other site 335284006085 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 335284006086 metal binding site [ion binding]; metal-binding site 335284006087 active site 335284006088 I-site; other site 335284006089 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 335284006090 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 335284006091 Radical SAM superfamily; Region: Radical_SAM; pfam04055 335284006092 elongation factor P; Validated; Region: PRK00529 335284006093 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 335284006094 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 335284006095 RNA binding site [nucleotide binding]; other site 335284006096 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 335284006097 RNA binding site [nucleotide binding]; other site 335284006098 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 335284006099 GAF domain; Region: GAF; cl15785 335284006100 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284006101 dimer interface [polypeptide binding]; other site 335284006102 phosphorylation site [posttranslational modification] 335284006103 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 335284006104 ATP binding site [chemical binding]; other site 335284006105 Mg2+ binding site [ion binding]; other site 335284006106 G-X-G motif; other site 335284006107 Response regulator receiver domain; Region: Response_reg; pfam00072 335284006108 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 335284006109 active site 335284006110 phosphorylation site [posttranslational modification] 335284006111 intermolecular recognition site; other site 335284006112 dimerization interface [polypeptide binding]; other site 335284006113 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 335284006114 putative ATP binding site [chemical binding]; other site 335284006115 putative substrate interface [chemical binding]; other site 335284006116 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 335284006117 active site 335284006118 general secretion pathway protein D; Region: type_II_gspD; TIGR02517 335284006119 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 335284006120 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 335284006121 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 335284006122 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 335284006123 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 335284006124 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 335284006125 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 335284006126 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 335284006127 H-NS histone family; Region: Histone_HNS; pfam00816 335284006128 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 335284006129 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 335284006130 dimer interface [polypeptide binding]; other site 335284006131 ssDNA binding site [nucleotide binding]; other site 335284006132 tetramer (dimer of dimers) interface [polypeptide binding]; other site 335284006133 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 335284006134 Major Facilitator Superfamily; Region: MFS_1; pfam07690 335284006135 putative substrate translocation pore; other site 335284006136 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 335284006137 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 335284006138 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006139 Walker A/P-loop; other site 335284006140 ATP binding site [chemical binding]; other site 335284006141 Q-loop/lid; other site 335284006142 ABC transporter signature motif; other site 335284006143 Walker B; other site 335284006144 D-loop; other site 335284006145 H-loop/switch region; other site 335284006146 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 335284006147 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 335284006148 Transposase IS200 like; Region: Y1_Tnp; cl00848 335284006149 Protein of unknown function (DUF503); Region: DUF503; cl00669 335284006150 Uncharacterized conserved protein [Function unknown]; Region: COG2966 335284006151 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 335284006152 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 335284006153 glutathione reductase; Validated; Region: PRK06116 335284006154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284006155 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 335284006156 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 335284006157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284006158 Coenzyme A binding pocket [chemical binding]; other site 335284006159 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 335284006160 iron-sulfur cluster [ion binding]; other site 335284006161 [2Fe-2S] cluster binding site [ion binding]; other site 335284006162 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 335284006163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284006164 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 335284006165 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 335284006166 Permutation of conserved domain; other site 335284006167 active site 335284006168 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 335284006169 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 335284006170 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 335284006171 metal binding site [ion binding]; metal-binding site 335284006172 active site 335284006173 I-site; other site 335284006174 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 335284006175 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 335284006176 Intracellular septation protein A; Region: IspA; cl01098 335284006177 YCII-related domain; Region: YCII; cl00999 335284006178 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 335284006179 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; cl16911 335284006180 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006181 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 335284006182 UbiA prenyltransferase family; Region: UbiA; cl00337 335284006183 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; cl16911 335284006184 Bacitracin resistance protein BacA; Region: BacA; cl00858 335284006185 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 335284006186 signal recognition particle protein; Provisional; Region: PRK10867 335284006187 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 335284006188 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 335284006189 P loop; other site 335284006190 GTP binding site [chemical binding]; other site 335284006191 Signal peptide binding domain; Region: SRP_SPB; pfam02978 335284006192 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 335284006193 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 335284006194 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 335284006195 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 335284006196 putative active site [active] 335284006197 putative substrate binding site [chemical binding]; other site 335284006198 putative cosubstrate binding site; other site 335284006199 catalytic site [active] 335284006200 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 335284006201 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 335284006202 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 335284006203 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 335284006204 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 335284006205 substrate binding site [chemical binding]; other site 335284006206 hexamer interface [polypeptide binding]; other site 335284006207 metal binding site [ion binding]; metal-binding site 335284006208 Protein of unknown function (DUF2805); Region: DUF2805; cl11923 335284006209 Predicted esterase [General function prediction only]; Region: COG0627 335284006210 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 335284006211 Peptidase C13 family; Region: Peptidase_C13; cl02159 335284006212 heat shock protein 90; Provisional; Region: PRK05218 335284006213 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 335284006214 ATP binding site [chemical binding]; other site 335284006215 Mg2+ binding site [ion binding]; other site 335284006216 G-X-G motif; other site 335284006217 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 335284006218 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 335284006219 tetramer interface [polypeptide binding]; other site 335284006220 heme binding pocket [chemical binding]; other site 335284006221 NADPH binding site [chemical binding]; other site 335284006222 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 335284006223 LytB protein; Region: LYTB; cl00507 335284006224 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 335284006225 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 335284006226 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 335284006227 catalytic site [active] 335284006228 G-X2-G-X-G-K; other site 335284006229 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 335284006230 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 335284006231 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284006232 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 335284006233 metal binding triad [ion binding]; metal-binding site 335284006234 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 335284006235 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 335284006236 homotrimer interaction site [polypeptide binding]; other site 335284006237 putative active site [active] 335284006238 primosome assembly protein PriA; Validated; Region: PRK05580 335284006239 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 335284006240 ATP binding site [chemical binding]; other site 335284006241 putative Mg++ binding site [ion binding]; other site 335284006242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006243 Cation efflux family; Region: Cation_efflux; cl00316 335284006244 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 335284006245 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 335284006246 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 335284006247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006248 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 335284006249 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; cl16911 335284006250 recombinase A; Provisional; Region: recA; PRK09354 335284006251 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 335284006252 hexamer interface [polypeptide binding]; other site 335284006253 Walker A motif; other site 335284006254 ATP binding site [chemical binding]; other site 335284006255 Walker B motif; other site 335284006256 RecX family; Region: RecX; cl00936 335284006257 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 335284006258 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 335284006259 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 335284006260 dihydropteroate synthase; Region: DHPS; TIGR01496 335284006261 substrate binding pocket [chemical binding]; other site 335284006262 dimer interface [polypeptide binding]; other site 335284006263 inhibitor binding site; inhibition site 335284006264 FtsH Extracellular; Region: FtsH_ext; pfam06480 335284006265 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 335284006266 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284006267 Walker A motif; other site 335284006268 ATP binding site [chemical binding]; other site 335284006269 Walker B motif; other site 335284006270 arginine finger; other site 335284006271 Peptidase family M41; Region: Peptidase_M41; pfam01434 335284006272 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; cl16911 335284006273 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 335284006274 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 335284006275 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 335284006276 putative heme binding site [chemical binding]; other site 335284006277 Protein of unknown function (DUF721); Region: DUF721; cl02324 335284006278 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 335284006279 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 335284006280 cell division protein FtsZ; Validated; Region: PRK09330 335284006281 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 335284006282 nucleotide binding site [chemical binding]; other site 335284006283 SulA interaction site; other site 335284006284 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 335284006285 Cell division protein FtsA; Region: FtsA; cl11496 335284006286 Cell division protein FtsA; Region: FtsA; cl11496 335284006287 Cell division protein FtsQ; Region: FtsQ; pfam03799 335284006288 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 335284006289 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 335284006290 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284006291 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 335284006292 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 335284006293 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284006294 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 335284006295 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 335284006296 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 335284006297 active site 335284006298 homodimer interface [polypeptide binding]; other site 335284006299 glutathione synthetase; Provisional; Region: PRK05246 335284006300 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 335284006301 ATP-grasp domain; Region: ATP-grasp_4; cl03087 335284006302 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 335284006303 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284006304 active site 335284006305 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 335284006306 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 335284006307 putative NAD(P) binding site [chemical binding]; other site 335284006308 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 335284006309 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 335284006310 amidase catalytic site [active] 335284006311 Zn binding residues [ion binding]; other site 335284006312 substrate binding site [chemical binding]; other site 335284006313 MviN-like protein; Region: MVIN; pfam03023 335284006314 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 335284006315 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 335284006316 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 335284006317 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 335284006318 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 335284006319 active site 335284006320 Riboflavin kinase; Region: Flavokinase; cl03312 335284006321 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 335284006322 malate dehydrogenase; Provisional; Region: PRK05442 335284006323 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 335284006324 NAD(P) binding site [chemical binding]; other site 335284006325 dimer interface [polypeptide binding]; other site 335284006326 malate binding site [chemical binding]; other site 335284006327 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 335284006328 B1 nucleotide binding pocket [chemical binding]; other site 335284006329 B2 nucleotide binding pocket [chemical binding]; other site 335284006330 CAS motifs; other site 335284006331 active site 335284006332 lytic murein transglycosylase; Provisional; Region: PRK11619 335284006333 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 335284006334 N-acetyl-D-glucosamine binding site [chemical binding]; other site 335284006335 catalytic residue [active] 335284006336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 335284006337 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 335284006338 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 335284006339 FeS/SAM binding site; other site 335284006340 TRAM domain; Region: TRAM; cl01282 335284006341 LysE type translocator; Region: LysE; cl00565 335284006342 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 335284006343 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 335284006344 metal binding site [ion binding]; metal-binding site 335284006345 putative dimer interface [polypeptide binding]; other site 335284006346 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 335284006347 nucleoside/Zn binding site; other site 335284006348 dimer interface [polypeptide binding]; other site 335284006349 catalytic motif [active] 335284006350 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 335284006351 phosphodiesterase; Provisional; Region: PRK12704 335284006352 Cell division protein ZapA; Region: ZapA; cl01146 335284006353 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 335284006354 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 335284006355 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 335284006356 dimer interface [polypeptide binding]; other site 335284006357 motif 1; other site 335284006358 active site 335284006359 motif 2; other site 335284006360 motif 3; other site 335284006361 PspC domain; Region: PspC; cl00864 335284006362 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 335284006363 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284006364 active site 335284006365 nucleotide binding site [chemical binding]; other site 335284006366 HIGH motif; other site 335284006367 KMSKS motif; other site 335284006368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006369 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 335284006370 Protein of unknown function (DUF962); Region: DUF962; cl01879 335284006371 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 335284006372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006373 NAD(P) binding site [chemical binding]; other site 335284006374 active site 335284006375 Peptidase family M48; Region: Peptidase_M48; cl12018 335284006376 BolA-like protein; Region: BolA; cl00386 335284006377 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 335284006378 thioredoxin 2; Provisional; Region: PRK10996 335284006379 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 335284006380 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 335284006381 catalytic residues [active] 335284006382 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 335284006383 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 335284006384 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 335284006385 dimerization interface [polypeptide binding]; other site 335284006386 putative DNA binding site [nucleotide binding]; other site 335284006387 putative Zn2+ binding site [ion binding]; other site 335284006388 high affinity sulphate transporter 1; Region: sulP; TIGR00815 335284006389 Sulfate transporter family; Region: Sulfate_transp; cl15842 335284006390 Sulfate transporter family; Region: Sulfate_transp; cl15842 335284006391 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 335284006392 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 335284006393 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 335284006394 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 335284006395 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 335284006396 putative C-terminal domain interface [polypeptide binding]; other site 335284006397 putative GSH binding site (G-site) [chemical binding]; other site 335284006398 putative dimer interface [polypeptide binding]; other site 335284006399 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 335284006400 putative dimer interface [polypeptide binding]; other site 335284006401 putative N-terminal domain interface [polypeptide binding]; other site 335284006402 putative substrate binding pocket (H-site) [chemical binding]; other site 335284006403 alkyl hydroperoxide reductase, F subunit; Region: AhpF; TIGR03140 335284006404 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 335284006405 catalytic residue [active] 335284006406 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 335284006407 catalytic residues [active] 335284006408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 335284006409 Protein of unknown function (DUF465); Region: DUF465; cl01070 335284006410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284006411 Helix-turn-helix domains; Region: HTH; cl00088 335284006412 Helix-turn-helix domains; Region: HTH; cl00088 335284006413 putative transposase OrfB; Reviewed; Region: PHA02517 335284006414 HTH-like domain; Region: HTH_21; pfam13276 335284006415 Integrase core domain; Region: rve; cl01316 335284006416 Integrase core domain; Region: rve_3; cl15866 335284006417 peroxiredoxin; Region: AhpC; TIGR03137 335284006418 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 335284006419 dimer interface [polypeptide binding]; other site 335284006420 decamer (pentamer of dimers) interface [polypeptide binding]; other site 335284006421 catalytic triad [active] 335284006422 peroxidatic and resolving cysteines [active] 335284006423 Transcriptional regulator [Transcription]; Region: LysR; COG0583 335284006424 Helix-turn-helix domains; Region: HTH; cl00088 335284006425 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 335284006426 dimerization interface [polypeptide binding]; other site 335284006427 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284006428 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; cl16911 335284006429 Protein of unknown function DUF45; Region: DUF45; cl00636 335284006430 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 335284006431 Imelysin; Region: Peptidase_M75; cl09159 335284006432 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 335284006433 Imelysin; Region: Peptidase_M75; cl09159 335284006434 putative outer membrane lipoprotein; Provisional; Region: PRK10510 335284006435 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 335284006436 ligand binding site [chemical binding]; other site 335284006437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 335284006438 putative acyl-acceptor binding pocket; other site 335284006439 septum formation inhibitor; Reviewed; Region: minC; PRK04804 335284006440 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 335284006441 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 335284006442 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 335284006443 Switch I; other site 335284006444 Switch II; other site 335284006445 Septum formation topological specificity factor MinE; Region: MinE; cl00538 335284006446 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 335284006447 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 335284006448 CheB methylesterase; Region: CheB_methylest; pfam01339 335284006449 intersubunit interface [polypeptide binding]; other site 335284006450 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 335284006451 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 335284006452 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 335284006453 putative binding surface; other site 335284006454 active site 335284006455 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 335284006456 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 335284006457 putative binding surface; other site 335284006458 active site 335284006459 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 335284006460 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 335284006461 putative binding surface; other site 335284006462 active site 335284006463 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 335284006464 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 335284006465 ATP binding site [chemical binding]; other site 335284006466 Mg2+ binding site [ion binding]; other site 335284006467 G-X-G motif; other site 335284006468 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 335284006469 Response regulator receiver domain; Region: Response_reg; pfam00072 335284006470 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 335284006471 active site 335284006472 phosphorylation site [posttranslational modification] 335284006473 intermolecular recognition site; other site 335284006474 dimerization interface [polypeptide binding]; other site 335284006475 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; cl16911 335284006476 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 335284006477 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 335284006478 dimer interface [polypeptide binding]; other site 335284006479 putative CheW interface [polypeptide binding]; other site 335284006480 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 335284006481 Response regulator receiver domain; Region: Response_reg; pfam00072 335284006482 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 335284006483 active site 335284006484 phosphorylation site [posttranslational modification] 335284006485 intermolecular recognition site; other site 335284006486 dimerization interface [polypeptide binding]; other site 335284006487 Response regulator receiver domain; Region: Response_reg; pfam00072 335284006488 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 335284006489 active site 335284006490 phosphorylation site [posttranslational modification] 335284006491 intermolecular recognition site; other site 335284006492 dimerization interface [polypeptide binding]; other site 335284006493 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 335284006494 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284006495 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284006496 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 335284006497 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 335284006498 active site 335284006499 phosphorylation site [posttranslational modification] 335284006500 intermolecular recognition site; other site 335284006501 dimerization interface [polypeptide binding]; other site 335284006502 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284006503 DNA binding site [nucleotide binding] 335284006504 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 335284006505 dimerization interface [polypeptide binding]; other site 335284006506 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284006507 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 335284006508 dimer interface [polypeptide binding]; other site 335284006509 phosphorylation site [posttranslational modification] 335284006510 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 335284006511 ATP binding site [chemical binding]; other site 335284006512 G-X-G motif; other site 335284006513 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 335284006514 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 335284006515 Walker A/P-loop; other site 335284006516 ATP binding site [chemical binding]; other site 335284006517 Q-loop/lid; other site 335284006518 ABC transporter signature motif; other site 335284006519 Walker B; other site 335284006520 D-loop; other site 335284006521 H-loop/switch region; other site 335284006522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 335284006523 NMT1-like family; Region: NMT1_2; cl15260 335284006524 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 335284006525 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 335284006526 active site 335284006527 catalytic tetrad [active] 335284006528 CcmE; Region: CcmE; cl00994 335284006529 Heme exporter protein D (CcmD); Region: CcmD; cl11475 335284006530 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 335284006531 CcmB protein; Region: CcmB; cl01016 335284006532 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 335284006533 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006534 Walker A/P-loop; other site 335284006535 ATP binding site [chemical binding]; other site 335284006536 Q-loop/lid; other site 335284006537 ABC transporter signature motif; other site 335284006538 Walker B; other site 335284006539 D-loop; other site 335284006540 H-loop/switch region; other site 335284006541 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 335284006542 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 335284006543 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 335284006544 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 335284006545 Flavoprotein; Region: Flavoprotein; cl08021 335284006546 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 335284006547 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 335284006548 hypothetical protein; Reviewed; Region: PRK00024 335284006549 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 335284006550 MPN+ (JAMM) motif; other site 335284006551 Zinc-binding site [ion binding]; other site 335284006552 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 335284006553 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 335284006554 active site 335284006555 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 335284006556 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 335284006557 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 335284006558 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 335284006559 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 335284006560 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 335284006561 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 335284006562 putative active site [active] 335284006563 putative CoA binding site [chemical binding]; other site 335284006564 nudix motif; other site 335284006565 metal binding site [ion binding]; metal-binding site 335284006566 HPP family; Region: HPP; pfam04982 335284006567 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 335284006568 nudix motif; other site 335284006569 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284006570 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 335284006571 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 335284006572 Peptidase M16C associated; Region: M16C_assoc; pfam08367 335284006573 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 335284006574 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 335284006575 Ligand Binding Site [chemical binding]; other site 335284006576 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 335284006577 Helix-turn-helix domains; Region: HTH; cl00088 335284006578 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 335284006579 putative dimerization interface [polypeptide binding]; other site 335284006580 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 335284006581 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 335284006582 DNA-binding site [nucleotide binding]; DNA binding site 335284006583 RNA-binding motif; other site 335284006584 Protein of unknown function (DUF454); Region: DUF454; cl01063 335284006585 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 335284006586 putative metal binding site [ion binding]; other site 335284006587 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 335284006588 TPR repeat; Region: TPR_11; pfam13414 335284006589 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 335284006590 TPR motif; other site 335284006591 binding surface 335284006592 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 335284006593 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 335284006594 HIGH motif; other site 335284006595 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 335284006596 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 335284006597 active site 335284006598 KMSKS motif; other site 335284006599 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 335284006600 tRNA binding surface [nucleotide binding]; other site 335284006601 anticodon binding site; other site 335284006602 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 335284006603 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: MDN1; COG5271 335284006604 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 335284006605 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 335284006606 Membrane transport protein; Region: Mem_trans; cl09117 335284006607 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 335284006608 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 335284006609 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 335284006610 phosphoserine phosphatase SerB; Region: serB; TIGR00338 335284006611 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 335284006612 motif II; other site 335284006613 Domain of unknown function (DUF368); Region: DUF368; cl00893 335284006614 biotin synthetase; Region: bioB; TIGR00433 335284006615 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 335284006616 FeS/SAM binding site; other site 335284006617 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 335284006618 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 335284006619 ribonuclease PH; Reviewed; Region: rph; PRK00173 335284006620 Ribonuclease PH; Region: RNase_PH_bact; cd11362 335284006621 hexamer interface [polypeptide binding]; other site 335284006622 active site 335284006623 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 335284006624 AMP-binding enzyme; Region: AMP-binding; cl15778 335284006625 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284006626 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 335284006627 AMP-binding enzyme; Region: AMP-binding; cl15778 335284006628 AMP-binding enzyme; Region: AMP-binding; cl15778 335284006629 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 335284006630 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 335284006631 CAP-like domain; other site 335284006632 active site 335284006633 primary dimer interface [polypeptide binding]; other site 335284006634 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 335284006635 SEC-C motif; Region: SEC-C; pfam02810 335284006636 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 335284006637 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 335284006638 active site 335284006639 motif I; other site 335284006640 motif II; other site 335284006641 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 335284006642 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 335284006643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006644 NAD(P) binding site [chemical binding]; other site 335284006645 active site 335284006646 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 335284006647 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 335284006648 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 335284006649 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 335284006650 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 335284006651 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006652 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 335284006653 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 335284006654 active site 335284006655 dimer interface [polypeptide binding]; other site 335284006656 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 335284006657 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 335284006658 active site 335284006659 FMN binding site [chemical binding]; other site 335284006660 substrate binding site [chemical binding]; other site 335284006661 3Fe-4S cluster binding site [ion binding]; other site 335284006662 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 335284006663 domain interface; other site 335284006664 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 335284006665 active site 335284006666 dimer interface [polypeptide binding]; other site 335284006667 metal binding site [ion binding]; metal-binding site 335284006668 shikimate kinase; Reviewed; Region: aroK; PRK00131 335284006669 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 335284006670 ADP binding site [chemical binding]; other site 335284006671 magnesium binding site [ion binding]; other site 335284006672 putative shikimate binding site; other site 335284006673 AMIN domain; Region: AMIN; pfam11741 335284006674 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 335284006675 Secretin and TonB N terminus short domain; Region: STN; cl06624 335284006676 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 335284006677 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 335284006678 Pilus assembly protein, PilP; Region: PilP; pfam04351 335284006679 Pilus assembly protein, PilO; Region: PilO; cl01234 335284006680 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 335284006681 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 335284006682 Competence protein A; Region: Competence_A; pfam11104 335284006683 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 335284006684 Transglycosylase; Region: Transgly; cl07896 335284006685 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284006686 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284006687 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 335284006688 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 335284006689 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 335284006690 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 335284006691 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 335284006692 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 335284006693 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 335284006694 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 335284006695 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 335284006696 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 335284006697 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 335284006698 DNA binding site [nucleotide binding] 335284006699 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 335284006700 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 335284006701 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 335284006702 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 335284006703 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 335284006704 RPB11 interaction site [polypeptide binding]; other site 335284006705 RPB12 interaction site [polypeptide binding]; other site 335284006706 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 335284006707 RPB3 interaction site [polypeptide binding]; other site 335284006708 RPB1 interaction site [polypeptide binding]; other site 335284006709 RPB11 interaction site [polypeptide binding]; other site 335284006710 RPB10 interaction site [polypeptide binding]; other site 335284006711 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 335284006712 core dimer interface [polypeptide binding]; other site 335284006713 peripheral dimer interface [polypeptide binding]; other site 335284006714 L10 interface [polypeptide binding]; other site 335284006715 L11 interface [polypeptide binding]; other site 335284006716 putative EF-Tu interaction site [polypeptide binding]; other site 335284006717 putative EF-G interaction site [polypeptide binding]; other site 335284006718 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 335284006719 23S rRNA interface [nucleotide binding]; other site 335284006720 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 335284006721 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 335284006722 mRNA/rRNA interface [nucleotide binding]; other site 335284006723 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 335284006724 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 335284006725 23S rRNA interface [nucleotide binding]; other site 335284006726 L7/L12 interface [polypeptide binding]; other site 335284006727 putative thiostrepton binding site; other site 335284006728 L25 interface [polypeptide binding]; other site 335284006729 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 335284006730 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 335284006731 putative homodimer interface [polypeptide binding]; other site 335284006732 KOW motif; Region: KOW; cl00354 335284006733 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 335284006734 elongation factor Tu; Reviewed; Region: PRK00049 335284006735 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 335284006736 G1 box; other site 335284006737 GEF interaction site [polypeptide binding]; other site 335284006738 GTP/Mg2+ binding site [chemical binding]; other site 335284006739 Switch I region; other site 335284006740 G2 box; other site 335284006741 G3 box; other site 335284006742 Switch II region; other site 335284006743 G4 box; other site 335284006744 G5 box; other site 335284006745 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 335284006746 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 335284006747 Antibiotic Binding Site [chemical binding]; other site 335284006748 elongation factor G; Reviewed; Region: PRK00007 335284006749 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 335284006750 G1 box; other site 335284006751 putative GEF interaction site [polypeptide binding]; other site 335284006752 GTP/Mg2+ binding site [chemical binding]; other site 335284006753 Switch I region; other site 335284006754 G2 box; other site 335284006755 G3 box; other site 335284006756 Switch II region; other site 335284006757 G4 box; other site 335284006758 G5 box; other site 335284006759 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 335284006760 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 335284006761 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 335284006762 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 335284006763 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 335284006764 S17 interaction site [polypeptide binding]; other site 335284006765 S8 interaction site; other site 335284006766 16S rRNA interaction site [nucleotide binding]; other site 335284006767 streptomycin interaction site [chemical binding]; other site 335284006768 23S rRNA interaction site [nucleotide binding]; other site 335284006769 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 335284006770 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 335284006771 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 335284006772 dimer interface [polypeptide binding]; other site 335284006773 active site 335284006774 chorismate binding enzyme; Region: Chorismate_bind; cl10555 335284006775 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 335284006776 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 335284006777 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284006778 homodimer interface [polypeptide binding]; other site 335284006779 catalytic residue [active] 335284006780 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 335284006781 histidinol dehydrogenase; Region: hisD; TIGR00069 335284006782 NAD binding site [chemical binding]; other site 335284006783 dimerization interface [polypeptide binding]; other site 335284006784 product binding site; other site 335284006785 substrate binding site [chemical binding]; other site 335284006786 zinc binding site [ion binding]; other site 335284006787 catalytic residues [active] 335284006788 ATP phosphoribosyltransferase; Region: HisG; cl15266 335284006789 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 335284006790 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 335284006791 hinge; other site 335284006792 active site 335284006793 BolA-like protein; Region: BolA; cl00386 335284006794 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 335284006795 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 335284006796 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 335284006797 outer membrane lipoprotein; Provisional; Region: PRK11023 335284006798 BON domain; Region: BON; cl02771 335284006799 Restriction endonuclease; Region: Mrr_cat; cl00516 335284006800 Predicted methyltransferases [General function prediction only]; Region: COG0313 335284006801 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 335284006802 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 335284006803 substrate binding site [chemical binding]; other site 335284006804 ATP binding site [chemical binding]; other site 335284006805 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 335284006806 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 335284006807 homodimer interface [polypeptide binding]; other site 335284006808 substrate-cofactor binding pocket; other site 335284006809 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284006810 catalytic residue [active] 335284006811 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 335284006812 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 335284006813 NifU-like domain; Region: NifU; cl00484 335284006814 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284006815 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 335284006816 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284006817 active site 335284006818 nucleotide binding site [chemical binding]; other site 335284006819 HIGH motif; other site 335284006820 KMSKS motif; other site 335284006821 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 335284006822 nudix motif; other site 335284006823 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 335284006824 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 335284006825 active site 335284006826 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 335284006827 active site 335284006828 catalytic triad [active] 335284006829 oxyanion hole [active] 335284006830 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 335284006831 YceI-like domain; Region: YceI; cl01001 335284006832 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 335284006833 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 335284006834 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 335284006835 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 335284006836 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 335284006837 exodeoxyribonuclease X; Provisional; Region: PRK07983 335284006838 active site 335284006839 catalytic site [active] 335284006840 substrate binding site [chemical binding]; other site 335284006841 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 335284006842 Peptidase family M23; Region: Peptidase_M23; pfam01551 335284006843 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 335284006844 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284006845 dimer interface [polypeptide binding]; other site 335284006846 phosphorylation site [posttranslational modification] 335284006847 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 335284006848 ATP binding site [chemical binding]; other site 335284006849 Mg2+ binding site [ion binding]; other site 335284006850 G-X-G motif; other site 335284006851 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 335284006852 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 335284006853 active site 335284006854 phosphorylation site [posttranslational modification] 335284006855 intermolecular recognition site; other site 335284006856 dimerization interface [polypeptide binding]; other site 335284006857 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284006858 DNA binding site [nucleotide binding] 335284006859 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 335284006860 putative active site [active] 335284006861 dimerization interface [polypeptide binding]; other site 335284006862 putative tRNAtyr binding site [nucleotide binding]; other site 335284006863 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 335284006864 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 335284006865 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 335284006866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284006867 dimer interface [polypeptide binding]; other site 335284006868 conserved gate region; other site 335284006869 putative PBP binding loops; other site 335284006870 ABC-ATPase subunit interface; other site 335284006871 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 335284006872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 335284006873 dimer interface [polypeptide binding]; other site 335284006874 conserved gate region; other site 335284006875 putative PBP binding loops; other site 335284006876 ABC-ATPase subunit interface; other site 335284006877 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 335284006878 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 335284006879 Walker A/P-loop; other site 335284006880 ATP binding site [chemical binding]; other site 335284006881 Q-loop/lid; other site 335284006882 ABC transporter signature motif; other site 335284006883 Walker B; other site 335284006884 D-loop; other site 335284006885 H-loop/switch region; other site 335284006886 transcriptional regulator PhoU; Provisional; Region: PRK11115 335284006887 PhoU domain; Region: PhoU; pfam01895 335284006888 PhoU domain; Region: PhoU; pfam01895 335284006889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 335284006890 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 335284006891 Isochorismatase family; Region: Isochorismatase; pfam00857 335284006892 catalytic triad [active] 335284006893 dimer interface [polypeptide binding]; other site 335284006894 conserved cis-peptide bond; other site 335284006895 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 335284006896 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 335284006897 dimer interface [polypeptide binding]; other site 335284006898 active site 335284006899 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 335284006900 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 335284006901 substrate binding site [chemical binding]; other site 335284006902 oxyanion hole (OAH) forming residues; other site 335284006903 trimer interface [polypeptide binding]; other site 335284006904 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284006905 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 335284006906 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 335284006907 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 335284006908 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 335284006909 substrate binding pocket [chemical binding]; other site 335284006910 chain length determination region; other site 335284006911 substrate-Mg2+ binding site; other site 335284006912 catalytic residues [active] 335284006913 aspartate-rich region 1; other site 335284006914 active site lid residues [active] 335284006915 aspartate-rich region 2; other site 335284006916 Protein of unknown function DUF72; Region: DUF72; cl00777 335284006917 Sel1 repeat; Region: Sel1; cl02723 335284006918 Sel1 repeat; Region: Sel1; cl02723 335284006919 Sel1 repeat; Region: Sel1; cl02723 335284006920 Sel1 repeat; Region: Sel1; cl02723 335284006921 Sel1 repeat; Region: Sel1; cl02723 335284006922 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 335284006923 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 335284006924 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 335284006925 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 335284006926 active site 335284006927 dimerization interface [polypeptide binding]; other site 335284006928 trigger factor; Provisional; Region: tig; PRK01490 335284006929 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 335284006930 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 335284006931 Clp protease; Region: CLP_protease; pfam00574 335284006932 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 335284006933 oligomer interface [polypeptide binding]; other site 335284006934 active site residues [active] 335284006935 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 335284006936 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 335284006937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284006938 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 335284006939 Walker A motif; other site 335284006940 ATP binding site [chemical binding]; other site 335284006941 Walker B motif; other site 335284006942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 335284006943 Cytochrome c [Energy production and conversion]; Region: COG3258 335284006944 Cytochrome c; Region: Cytochrom_C; cl11414 335284006945 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 335284006946 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 335284006947 Sporulation related domain; Region: SPOR; cl10051 335284006948 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 335284006949 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 335284006950 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284006951 active site 335284006952 HIGH motif; other site 335284006953 nucleotide binding site [chemical binding]; other site 335284006954 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 335284006955 KMSK motif region; other site 335284006956 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 335284006957 tRNA binding surface [nucleotide binding]; other site 335284006958 anticodon binding site; other site 335284006959 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 335284006960 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; cl16911 335284006961 Methyltransferase domain; Region: Methyltransf_31; pfam13847 335284006962 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 335284006963 S-adenosylmethionine binding site [chemical binding]; other site 335284006964 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 335284006965 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; cl16911 335284006966 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 335284006967 Transglycosylase SLT domain; Region: SLT_2; pfam13406 335284006968 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 335284006969 N-acetyl-D-glucosamine binding site [chemical binding]; other site 335284006970 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 335284006971 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 335284006972 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 335284006973 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 335284006974 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 335284006975 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 335284006976 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 335284006977 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 335284006978 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 335284006979 Sodium:solute symporter family; Region: SSF; cl00456 335284006980 Rhomboid family; Region: Rhomboid; cl11446 335284006981 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 335284006982 Dodecin; Region: Dodecin; cl01328 335284006983 DctM-like transporters; Region: DctM; pfam06808 335284006984 Na+/H+ antiporter family; Region: Na_H_antiporter; cl15356 335284006985 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 335284006986 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 335284006987 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 335284006988 putative active site [active] 335284006989 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 335284006990 active site 335284006991 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 335284006992 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 335284006993 putative NAD(P) binding site [chemical binding]; other site 335284006994 homotetramer interface [polypeptide binding]; other site 335284006995 homodimer interface [polypeptide binding]; other site 335284006996 active site 335284006997 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284006998 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 335284006999 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 335284007000 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 335284007001 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 335284007002 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 335284007003 active site 335284007004 HIGH motif; other site 335284007005 dimer interface [polypeptide binding]; other site 335284007006 KMSKS motif; other site 335284007007 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 335284007008 RNA binding surface [nucleotide binding]; other site 335284007009 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 335284007010 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 335284007011 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 335284007012 dimer interface [polypeptide binding]; other site 335284007013 active site 335284007014 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 335284007015 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 335284007016 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 335284007017 active site 335284007018 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 335284007019 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 335284007020 putative substrate translocation pore; other site 335284007021 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 335284007022 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 335284007023 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 335284007024 putative active site [active] 335284007025 catalytic triad [active] 335284007026 putative dimer interface [polypeptide binding]; other site 335284007027 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 335284007028 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 335284007029 Transporter associated domain; Region: CorC_HlyC; cl08393 335284007030 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 335284007031 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 335284007032 Flagellin N-methylase; Region: FliB; cl00497 335284007033 Dienelactone hydrolase family; Region: DLH; pfam01738 335284007034 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 335284007035 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 335284007036 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 335284007037 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 335284007038 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 335284007039 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 335284007040 GTP/Mg2+ binding site [chemical binding]; other site 335284007041 G4 box; other site 335284007042 G5 box; other site 335284007043 G1 box; other site 335284007044 Switch I region; other site 335284007045 G2 box; other site 335284007046 G3 box; other site 335284007047 Switch II region; other site 335284007048 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 335284007049 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 335284007050 minor groove reading motif; other site 335284007051 helix-hairpin-helix signature motif; other site 335284007052 substrate binding pocket [chemical binding]; other site 335284007053 active site 335284007054 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 335284007055 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 335284007056 nudix motif; other site 335284007057 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 335284007058 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 335284007059 active site 335284007060 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 335284007061 catalytic triad [active] 335284007062 dimer interface [polypeptide binding]; other site 335284007063 ATP-dependent helicase HepA; Validated; Region: PRK04914 335284007064 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 335284007065 ATP binding site [chemical binding]; other site 335284007066 putative Mg++ binding site [ion binding]; other site 335284007067 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 335284007068 nucleotide binding region [chemical binding]; other site 335284007069 ATP-binding site [chemical binding]; other site 335284007070 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 335284007071 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284007072 dimer interface [polypeptide binding]; other site 335284007073 phosphorylation site [posttranslational modification] 335284007074 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 335284007075 ATP binding site [chemical binding]; other site 335284007076 G-X-G motif; other site 335284007077 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 335284007078 Response regulator receiver domain; Region: Response_reg; pfam00072 335284007079 active site 335284007080 phosphorylation site [posttranslational modification] 335284007081 intermolecular recognition site; other site 335284007082 dimerization interface [polypeptide binding]; other site 335284007083 Response regulator receiver domain; Region: Response_reg; pfam00072 335284007084 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 335284007085 active site 335284007086 phosphorylation site [posttranslational modification] 335284007087 intermolecular recognition site; other site 335284007088 dimerization interface [polypeptide binding]; other site 335284007089 glycerate dehydrogenase; Provisional; Region: PRK06487 335284007090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284007091 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 335284007092 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 335284007093 active site 335284007094 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 335284007095 catalytic residues [active] 335284007096 transcription termination factor Rho; Provisional; Region: rho; PRK09376 335284007097 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 335284007098 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 335284007099 RNA binding site [nucleotide binding]; other site 335284007100 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 335284007101 multimer interface [polypeptide binding]; other site 335284007102 Walker A motif; other site 335284007103 ATP binding site [chemical binding]; other site 335284007104 Walker B motif; other site 335284007105 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 335284007106 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 335284007107 IHF - DNA interface [nucleotide binding]; other site 335284007108 IHF dimer interface [polypeptide binding]; other site 335284007109 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 335284007110 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 335284007111 putative tRNA-binding site [nucleotide binding]; other site 335284007112 B3/4 domain; Region: B3_4; cl11458 335284007113 tRNA synthetase B5 domain; Region: B5; cl08394 335284007114 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 335284007115 dimer interface [polypeptide binding]; other site 335284007116 motif 1; other site 335284007117 motif 3; other site 335284007118 motif 2; other site 335284007119 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 335284007120 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 335284007121 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 335284007122 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 335284007123 dimer interface [polypeptide binding]; other site 335284007124 motif 1; other site 335284007125 active site 335284007126 motif 2; other site 335284007127 motif 3; other site 335284007128 ribosomal protein L20; Region: rpl20; CHL00068 335284007129 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 335284007130 23S rRNA binding site [nucleotide binding]; other site 335284007131 L21 binding site [polypeptide binding]; other site 335284007132 L13 binding site [polypeptide binding]; other site 335284007133 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 335284007134 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 335284007135 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 335284007136 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 335284007137 twin arginine translocase protein A; Validated; Region: tatE; PRK01614 335284007138 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 335284007139 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 335284007140 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 335284007141 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 335284007142 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 335284007143 Family description; Region: UvrD_C_2; cl15862 335284007144 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 335284007145 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 335284007146 FMN binding site [chemical binding]; other site 335284007147 active site 335284007148 catalytic residues [active] 335284007149 substrate binding site [chemical binding]; other site 335284007150 MAPEG family; Region: MAPEG; cl09190 335284007151 OsmC-like protein; Region: OsmC; cl00767 335284007152 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 335284007153 putative active site [active] 335284007154 Ap4A binding site [chemical binding]; other site 335284007155 nudix motif; other site 335284007156 putative metal binding site [ion binding]; other site 335284007157 NRDE protein; Region: NRDE; cl01315 335284007158 conserved hypothetical protein; Region: TIGR02231 335284007159 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 335284007160 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 335284007161 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 335284007162 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 335284007163 dimerization interface [polypeptide binding]; other site 335284007164 active site 335284007165 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 335284007166 folate binding site [chemical binding]; other site 335284007167 NADP+ binding site [chemical binding]; other site 335284007168 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 335284007169 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 335284007170 GIY-YIG motif/motif A; other site 335284007171 active site 335284007172 catalytic site [active] 335284007173 putative DNA binding site [nucleotide binding]; other site 335284007174 metal binding site [ion binding]; metal-binding site 335284007175 UvrB/uvrC motif; Region: UVR; pfam02151 335284007176 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 335284007177 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 335284007178 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 335284007179 CoenzymeA binding site [chemical binding]; other site 335284007180 subunit interaction site [polypeptide binding]; other site 335284007181 PHB binding site; other site 335284007182 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 335284007183 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 335284007184 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 335284007185 RimM N-terminal domain; Region: RimM; pfam01782 335284007186 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 335284007187 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 335284007188 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 335284007189 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 335284007190 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284007191 dimer interface [polypeptide binding]; other site 335284007192 phosphorylation site [posttranslational modification] 335284007193 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 335284007194 ATP binding site [chemical binding]; other site 335284007195 Mg2+ binding site [ion binding]; other site 335284007196 G-X-G motif; other site 335284007197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 335284007198 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 335284007199 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 335284007200 dimer interface [polypeptide binding]; other site 335284007201 phosphorylation site [posttranslational modification] 335284007202 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 335284007203 ATP binding site [chemical binding]; other site 335284007204 Mg2+ binding site [ion binding]; other site 335284007205 G-X-G motif; other site 335284007206 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 335284007207 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 335284007208 active site 335284007209 phosphorylation site [posttranslational modification] 335284007210 intermolecular recognition site; other site 335284007211 dimerization interface [polypeptide binding]; other site 335284007212 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 335284007213 DNA binding site [nucleotide binding] 335284007214 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 335284007215 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 335284007216 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 335284007217 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 335284007218 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 335284007219 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 335284007220 alpha subunit interaction interface [polypeptide binding]; other site 335284007221 Walker A motif; other site 335284007222 ATP binding site [chemical binding]; other site 335284007223 Walker B motif; other site 335284007224 inhibitor binding site; inhibition site 335284007225 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 335284007226 ATP synthase; Region: ATP-synt; cl00365 335284007227 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 335284007228 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 335284007229 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 335284007230 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 335284007231 beta subunit interaction interface [polypeptide binding]; other site 335284007232 Walker A motif; other site 335284007233 ATP binding site [chemical binding]; other site 335284007234 Walker B motif; other site 335284007235 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 335284007236 Plant ATP synthase F0; Region: YMF19; cl07975 335284007237 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 335284007238 Plant ATP synthase F0; Region: YMF19; cl07975 335284007239 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 335284007240 ATP synthase subunit C; Region: ATP-synt_C; cl00466 335284007241 ATP synthase A chain; Region: ATP-synt_A; cl00413 335284007242 ATP synthase I chain; Region: ATP_synt_I; cl09170 335284007243 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 335284007244 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 335284007245 intersubunit interface [polypeptide binding]; other site 335284007246 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 335284007247 metal binding site 2 [ion binding]; metal-binding site 335284007248 putative DNA binding helix; other site 335284007249 metal binding site 1 [ion binding]; metal-binding site 335284007250 dimer interface [polypeptide binding]; other site 335284007251 structural Zn2+ binding site [ion binding]; other site 335284007252 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 335284007253 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 335284007254 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 335284007255 ABC-ATPase subunit interface; other site 335284007256 dimer interface [polypeptide binding]; other site 335284007257 putative PBP binding regions; other site 335284007258 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 335284007259 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 335284007260 active site 335284007261 metal binding site [ion binding]; metal-binding site 335284007262 hexamer interface [polypeptide binding]; other site 335284007263 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 335284007264 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284007265 active site 335284007266 HIGH motif; other site 335284007267 nucleotide binding site [chemical binding]; other site 335284007268 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 335284007269 active site 335284007270 KMSKS motif; other site 335284007271 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 335284007272 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 335284007273 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284007274 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 335284007275 Sulfate transporter family; Region: Sulfate_transp; cl15842 335284007276 Sulfate transporter family; Region: Sulfate_transp; cl15842 335284007277 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 335284007278 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 335284007279 Ligand Binding Site [chemical binding]; other site 335284007280 Nitrogen regulatory protein P-II; Region: P-II; cl00412 335284007281 Nitrogen regulatory protein P-II; Region: P-II; smart00938 335284007282 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 335284007283 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 335284007284 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 335284007285 active site 335284007286 substrate binding site [chemical binding]; other site 335284007287 Mg2+ binding site [ion binding]; other site 335284007288 integrase; Provisional; Region: PRK09692 335284007289 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 335284007290 active site 335284007291 Int/Topo IB signature motif; other site 335284007292 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 335284007293 Domain of unknown function (DUF932); Region: DUF932; cl12129 335284007294 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 335284007295 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 335284007296 leucine-rich repeat receptor-like protein kinase; Provisional; Region: PLN00113 335284007297 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 335284007298 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284007299 DNA helicase IV; Provisional; Region: helD; PRK11054 335284007300 Family description; Region: UvrD_C_2; cl15862 335284007301 Uncharacterized conserved protein (DUF2039); Region: DUF2039; pfam10217 335284007302 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 335284007303 Protein of unknown function DUF262; Region: DUF262; cl14890 335284007304 Protein of unknown function DUF262; Region: DUF262; cl14890 335284007305 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 335284007306 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 335284007307 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 335284007308 ATP binding site [chemical binding]; other site 335284007309 putative Mg++ binding site [ion binding]; other site 335284007310 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 335284007311 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 335284007312 HsdM N-terminal domain; Region: HsdM_N; pfam12161 335284007313 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 335284007314 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; cl16911 335284007315 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 335284007316 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 335284007317 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 335284007318 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 335284007319 Z1 domain; Region: Z1; pfam10593 335284007320 AIPR protein; Region: AIPR; pfam10592 335284007321 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 335284007322 putative active site [active] 335284007323 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 335284007324 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 335284007325 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 335284007326 putative active site [active] 335284007327 catalytic site [active] 335284007328 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 335284007329 putative active site [active] 335284007330 catalytic site [active] 335284007331 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 335284007332 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; cl16911 335284007333 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 335284007334 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 335284007335 Mg++ binding site [ion binding]; other site 335284007336 putative catalytic motif [active] 335284007337 putative substrate binding site [chemical binding]; other site 335284007338 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 335284007339 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 335284007340 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284007341 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 335284007342 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 335284007343 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 335284007344 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 335284007345 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 335284007346 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 335284007347 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 335284007348 Septum formation initiator; Region: DivIC; cl11433 335284007349 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; cl16911 335284007350 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 335284007351 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 335284007352 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 335284007353 HIGH motif; other site 335284007354 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 335284007355 active site 335284007356 KMSKS motif; other site 335284007357 LysE type translocator; Region: LysE; cl00565 335284007358 aconitate hydratase; Validated; Region: PRK09277 335284007359 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 335284007360 substrate binding site [chemical binding]; other site 335284007361 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 335284007362 ligand binding site [chemical binding]; other site 335284007363 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 335284007364 substrate binding site [chemical binding]; other site 335284007365 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 335284007366 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 335284007367 hypothetical protein; Provisional; Region: PRK01752 335284007368 SEC-C motif; Region: SEC-C; pfam02810 335284007369 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 335284007370 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 335284007371 putative active site [active] 335284007372 putative dimer interface [polypeptide binding]; other site 335284007373 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 335284007374 Phosphotransferase enzyme family; Region: APH; pfam01636 335284007375 active site 335284007376 substrate binding site [chemical binding]; other site 335284007377 ATP binding site [chemical binding]; other site 335284007378 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 335284007379 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 335284007380 substrate binding site [chemical binding]; other site 335284007381 glutamase interaction surface [polypeptide binding]; other site 335284007382 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 335284007383 homopentamer interface [polypeptide binding]; other site 335284007384 active site 335284007385 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 335284007386 putative RNA binding site [nucleotide binding]; other site 335284007387 thiamine monophosphate kinase; Provisional; Region: PRK05731 335284007388 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 335284007389 ATP binding site [chemical binding]; other site 335284007390 dimerization interface [polypeptide binding]; other site 335284007391 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 335284007392 tetramer interfaces [polypeptide binding]; other site 335284007393 binuclear metal-binding site [ion binding]; other site 335284007394 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 335284007395 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 335284007396 Substrate binding site; other site 335284007397 Mg++ binding site; other site 335284007398 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 335284007399 active site 335284007400 substrate binding site [chemical binding]; other site 335284007401 CoA binding site [chemical binding]; other site 335284007402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 335284007403 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 335284007404 glutaminase active site [active] 335284007405 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 335284007406 dimer interface [polypeptide binding]; other site 335284007407 active site 335284007408 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 335284007409 dimer interface [polypeptide binding]; other site 335284007410 active site 335284007411 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 335284007412 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 335284007413 putative NAD(P) binding site [chemical binding]; other site 335284007414 putative substrate binding site [chemical binding]; other site 335284007415 catalytic Zn binding site [ion binding]; other site 335284007416 structural Zn binding site [ion binding]; other site 335284007417 dimer interface [polypeptide binding]; other site 335284007418 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 335284007419 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 335284007420 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284007421 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 335284007422 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284007423 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 335284007424 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 335284007425 ssDNA binding site; other site 335284007426 generic binding surface II; other site 335284007427 DEAD-like helicases superfamily; Region: DEXDc; smart00487 335284007428 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 335284007429 ATP binding site [chemical binding]; other site 335284007430 putative Mg++ binding site [ion binding]; other site 335284007431 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 335284007432 nucleotide binding region [chemical binding]; other site 335284007433 ATP-binding site [chemical binding]; other site 335284007434 hypothetical protein; Provisional; Region: PRK10279 335284007435 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 335284007436 nucleophile elbow; other site 335284007437 Fibronectin type III-like domain; Region: Fn3-like; cl15273 335284007438 N-acetylglutamate synthase; Validated; Region: PRK05279 335284007439 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 335284007440 putative feedback inhibition sensing region; other site 335284007441 putative nucleotide binding site [chemical binding]; other site 335284007442 putative substrate binding site [chemical binding]; other site 335284007443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 335284007444 Coenzyme A binding pocket [chemical binding]; other site 335284007445 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 335284007446 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 335284007447 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 335284007448 Conserved TM helix; Region: TM_helix; pfam05552 335284007449 Conserved TM helix; Region: TM_helix; pfam05552 335284007450 Conserved TM helix; Region: TM_helix; pfam05552 335284007451 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 335284007452 classical (c) SDRs; Region: SDR_c; cd05233 335284007453 NAD(P) binding site [chemical binding]; other site 335284007454 active site 335284007455 MULE transposase domain; Region: MULE; pfam10551 335284007456 Transposase, Mutator family; Region: Transposase_mut; pfam00872 335284007457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284007458 Helix-turn-helix domains; Region: HTH; cl00088 335284007459 Helix-turn-helix domains; Region: HTH; cl00088 335284007460 putative transposase OrfB; Reviewed; Region: PHA02517 335284007461 HTH-like domain; Region: HTH_21; pfam13276 335284007462 Integrase core domain; Region: rve; cl01316 335284007463 Integrase core domain; Region: rve_3; cl15866 335284007464 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 335284007465 putative acyl-acceptor binding pocket; other site 335284007466 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 335284007467 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 335284007468 ATP binding site [chemical binding]; other site 335284007469 Mg2+ binding site [ion binding]; other site 335284007470 G-X-G motif; other site 335284007471 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 335284007472 anchoring element; other site 335284007473 dimer interface [polypeptide binding]; other site 335284007474 ATP binding site [chemical binding]; other site 335284007475 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 335284007476 active site 335284007477 metal binding site [ion binding]; metal-binding site 335284007478 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 335284007479 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 335284007480 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 335284007481 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 335284007482 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 335284007483 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 335284007484 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 335284007485 active site 335284007486 dimer interface [polypeptide binding]; other site 335284007487 motif 1; other site 335284007488 motif 2; other site 335284007489 motif 3; other site 335284007490 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 335284007491 anticodon binding site; other site 335284007492 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 335284007493 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 335284007494 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 335284007495 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 335284007496 ribonuclease R; Region: RNase_R; TIGR02063 335284007497 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 335284007498 RNB domain; Region: RNB; pfam00773 335284007499 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 335284007500 RNA binding site [nucleotide binding]; other site 335284007501 Mechanosensitive ion channel; Region: MS_channel; pfam00924 335284007502 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 335284007503 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 335284007504 catalytic residues [active] 335284007505 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 335284007506 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 335284007507 E3 interaction surface; other site 335284007508 lipoyl attachment site [posttranslational modification]; other site 335284007509 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 335284007510 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 335284007511 FMN-binding domain; Region: FMN_bind; cl01081 335284007512 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 335284007513 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 335284007514 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 335284007515 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 335284007516 catalytic loop [active] 335284007517 iron binding site [ion binding]; other site 335284007518 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 335284007519 FAD binding pocket [chemical binding]; other site 335284007520 FAD binding motif [chemical binding]; other site 335284007521 phosphate binding motif [ion binding]; other site 335284007522 beta-alpha-beta structure motif; other site 335284007523 NAD binding pocket [chemical binding]; other site 335284007524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284007525 short chain dehydrogenase; Provisional; Region: PRK06181 335284007526 NAD(P) binding site [chemical binding]; other site 335284007527 active site 335284007528 ApbE family; Region: ApbE; cl00643 335284007529 Protein of unknown function (DUF539); Region: DUF539; cl01129 335284007530 cyanate transporter; Region: CynX; TIGR00896 335284007531 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 335284007532 putative substrate translocation pore; other site 335284007533 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 335284007534 active site 335284007535 catalytic triad [active] 335284007536 oxyanion hole [active] 335284007537 switch loop; other site 335284007538 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 335284007539 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 335284007540 Walker A/P-loop; other site 335284007541 ATP binding site [chemical binding]; other site 335284007542 Q-loop/lid; other site 335284007543 ABC transporter signature motif; other site 335284007544 Walker B; other site 335284007545 D-loop; other site 335284007546 H-loop/switch region; other site 335284007547 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 335284007548 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 335284007549 FtsX-like permease family; Region: FtsX; cl15850 335284007550 putative transposase OrfB; Reviewed; Region: PHA02517 335284007551 HTH-like domain; Region: HTH_21; pfam13276 335284007552 Integrase core domain; Region: rve; cl01316 335284007553 Integrase core domain; Region: rve_3; cl15866 335284007554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 335284007555 Helix-turn-helix domains; Region: HTH; cl00088 335284007556 Helix-turn-helix domains; Region: HTH; cl00088 335284007557 Protein kinase domain; Region: Pkinase; pfam00069 335284007558 Catalytic domain of Protein Kinases; Region: PKc; cd00180 335284007559 active site 335284007560 ATP binding site [chemical binding]; other site 335284007561 substrate binding site [chemical binding]; other site 335284007562 activation loop (A-loop); other site 335284007563 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 335284007564 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 335284007565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284007566 homodimer interface [polypeptide binding]; other site 335284007567 catalytic residue [active] 335284007568 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 335284007569 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 335284007570 putative active site [active] 335284007571 oxyanion strand; other site 335284007572 catalytic triad [active] 335284007573 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 335284007574 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 335284007575 putative active site pocket [active] 335284007576 4-fold oligomerization interface [polypeptide binding]; other site 335284007577 metal binding residues [ion binding]; metal-binding site 335284007578 3-fold/trimer interface [polypeptide binding]; other site 335284007579 Domain of unknown function (DUF4385); Region: DUF4385; pfam14328 335284007580 phosphoglycolate phosphatase; Provisional; Region: PRK13222 335284007581 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 335284007582 active site 335284007583 motif I; other site 335284007584 motif II; other site 335284007585 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 335284007586 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 335284007587 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 335284007588 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 335284007589 Penicillin amidase; Region: Penicil_amidase; pfam01804 335284007590 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 335284007591 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 335284007592 active site 335284007593 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 335284007594 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 335284007595 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 335284007596 FeS/SAM binding site; other site 335284007597 HemN C-terminal domain; Region: HemN_C; pfam06969 335284007598 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 335284007599 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 335284007600 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 335284007601 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 335284007602 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 335284007603 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 335284007604 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 335284007605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 335284007606 catalytic residue [active] 335284007607 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 335284007608 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 335284007609 S-adenosylmethionine binding site [chemical binding]; other site 335284007610 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 335284007611 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 335284007612 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 335284007613 dimer interface [polypeptide binding]; other site 335284007614 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 335284007615 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 335284007616 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 335284007617 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 335284007618 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 335284007619 putative active site [active] 335284007620 putative metal binding site [ion binding]; other site 335284007621 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 335284007622 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 335284007623 putative active site [active] 335284007624 putative metal binding site [ion binding]; other site 335284007625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 335284007626 TIGR01777 family protein; Region: yfcH 335284007627 NAD(P) binding site [chemical binding]; other site 335284007628 active site 335284007629 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 335284007630 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 335284007631 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 335284007632 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 335284007633 putative peptidoglycan binding site; other site 335284007634 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 335284007635 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 335284007636 pyridoxal 5'-phosphate binding site [chemical binding]; other site 335284007637 catalytic residue [active] 335284007638 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 335284007639 putative RNA binding site [nucleotide binding]; other site 335284007640 16S rRNA methyltransferase B; Provisional; Region: PRK10901 335284007641 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; cl16911 335284007642 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 335284007643 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 335284007644 putative active site [active] 335284007645 substrate binding site [chemical binding]; other site 335284007646 putative cosubstrate binding site; other site 335284007647 catalytic site [active] 335284007648 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 335284007649 substrate binding site [chemical binding]; other site 335284007650 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 335284007651 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 335284007652 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 335284007653 ATP binding site [chemical binding]; other site 335284007654 Mg2+ binding site [ion binding]; other site 335284007655 G-X-G motif; other site 335284007656 Response regulator receiver domain; Region: Response_reg; pfam00072 335284007657 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 335284007658 active site 335284007659 phosphorylation site [posttranslational modification] 335284007660 intermolecular recognition site; other site 335284007661 dimerization interface [polypeptide binding]; other site 335284007662 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 335284007663 Lumazine binding domain; Region: Lum_binding; pfam00677 335284007664 Lumazine binding domain; Region: Lum_binding; pfam00677 335284007665 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 335284007666 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 335284007667 catalytic motif [active] 335284007668 Zn binding site [ion binding]; other site 335284007669 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 335284007670 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 335284007671 ATP cone domain; Region: ATP-cone; pfam03477 335284007672 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 335284007673 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 335284007674 trmE is a tRNA modification GTPase; Region: trmE; cd04164 335284007675 G1 box; other site 335284007676 GTP/Mg2+ binding site [chemical binding]; other site 335284007677 Switch I region; other site 335284007678 G2 box; other site 335284007679 Switch II region; other site 335284007680 G3 box; other site 335284007681 G4 box; other site 335284007682 G5 box; other site 335284007683 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 335284007684 membrane protein insertase; Provisional; Region: PRK01318 335284007685 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 335284007686 Haemolytic domain; Region: Haemolytic; cl00506