-- dump date 20140619_001208 -- class Genbank::misc_feature -- table misc_feature_note -- id note 374463000001 malate:quinone oxidoreductase; Validated; Region: PRK05257 374463000002 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 374463000003 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 374463000004 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 374463000005 dimerization interface [polypeptide binding]; other site 374463000006 ATP binding site [chemical binding]; other site 374463000007 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 374463000008 dimerization interface [polypeptide binding]; other site 374463000009 ATP binding site [chemical binding]; other site 374463000010 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 374463000011 putative active site [active] 374463000012 catalytic triad [active] 374463000013 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 374463000014 nucleoside/Zn binding site; other site 374463000015 dimer interface [polypeptide binding]; other site 374463000016 catalytic motif [active] 374463000017 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 374463000018 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 374463000019 dimer interface [polypeptide binding]; other site 374463000020 active site 374463000021 glycine-pyridoxal phosphate binding site [chemical binding]; other site 374463000022 folate binding site [chemical binding]; other site 374463000023 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374463000024 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 374463000025 active site 374463000026 dimerization interface [polypeptide binding]; other site 374463000027 cysteine desulfurase; Provisional; Region: PRK14012 374463000028 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 374463000029 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374463000030 catalytic residue [active] 374463000031 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 374463000032 active site 374463000033 multimer interface [polypeptide binding]; other site 374463000034 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374463000035 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 374463000036 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 374463000037 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 374463000038 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 374463000039 dimer interface [polypeptide binding]; other site 374463000040 motif 1; other site 374463000041 active site 374463000042 motif 2; other site 374463000043 motif 3; other site 374463000044 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 374463000045 anticodon binding site; other site 374463000046 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 374463000047 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 374463000048 Trp docking motif [polypeptide binding]; other site 374463000049 active site 374463000050 ribosome-associated GTPase EngA; Region: GTPase_EngA; TIGR03594 374463000051 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 374463000052 G1 box; other site 374463000053 GTP/Mg2+ binding site [chemical binding]; other site 374463000054 Switch I region; other site 374463000055 G2 box; other site 374463000056 Switch II region; other site 374463000057 G3 box; other site 374463000058 G4 box; other site 374463000059 G5 box; other site 374463000060 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 374463000061 G1 box; other site 374463000062 GTP/Mg2+ binding site [chemical binding]; other site 374463000063 Switch I region; other site 374463000064 G2 box; other site 374463000065 G3 box; other site 374463000066 Switch II region; other site 374463000067 G4 box; other site 374463000068 G5 box; other site 374463000069 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 374463000070 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 374463000071 active site 374463000072 dimer interface [polypeptide binding]; other site 374463000073 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 374463000074 dimer interface [polypeptide binding]; other site 374463000075 active site 374463000076 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 374463000077 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 374463000078 active site 374463000079 substrate-binding site [chemical binding]; other site 374463000080 metal-binding site [ion binding] 374463000081 ATP binding site [chemical binding]; other site 374463000082 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 374463000083 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 374463000084 dimer interface [polypeptide binding]; other site 374463000085 ADP-ribose binding site [chemical binding]; other site 374463000086 active site 374463000087 nudix motif; other site 374463000088 metal binding site [ion binding]; metal-binding site 374463000089 S-adenosylmethionine synthetase; Validated; Region: PRK05250 374463000090 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 374463000091 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 374463000092 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 374463000093 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 374463000094 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374463000095 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 374463000096 putative dimerization interface [polypeptide binding]; other site 374463000097 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 374463000098 CIMS - Cobalamine-independent methonine synthase, or MetE, N-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_N_terminal_like; cd03312 374463000099 THF binding site; other site 374463000100 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 374463000101 substrate binding site [chemical binding]; other site 374463000102 THF binding site; other site 374463000103 zinc-binding site [ion binding]; other site 374463000104 RmuC family; Region: RmuC; pfam02646 374463000105 homoserine O-succinyltransferase; Provisional; Region: PRK05368 374463000106 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 374463000107 proposed active site lysine [active] 374463000108 conserved cys residue [active] 374463000109 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 374463000110 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 374463000111 putative acyl-acceptor binding pocket; other site 374463000112 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 374463000113 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 374463000114 active site 374463000115 HIGH motif; other site 374463000116 dimer interface [polypeptide binding]; other site 374463000117 KMSKS motif; other site 374463000118 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 374463000119 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 374463000120 substrate binding site [chemical binding]; other site 374463000121 hexamer interface [polypeptide binding]; other site 374463000122 metal binding site [ion binding]; metal-binding site 374463000123 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 374463000124 active site 374463000125 dimer interface [polypeptide binding]; other site 374463000126 metal binding site [ion binding]; metal-binding site 374463000127 shikimate kinase; Reviewed; Region: aroK; PRK00131 374463000128 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 374463000129 ADP binding site [chemical binding]; other site 374463000130 magnesium binding site [ion binding]; other site 374463000131 putative shikimate binding site; other site 374463000132 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 374463000133 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 374463000134 domain interface [polypeptide binding]; other site 374463000135 putative active site [active] 374463000136 catalytic site [active] 374463000137 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 374463000138 domain interface [polypeptide binding]; other site 374463000139 putative active site [active] 374463000140 catalytic site [active] 374463000141 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 374463000142 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 374463000143 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 374463000144 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 374463000145 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 374463000146 hinge; other site 374463000147 active site 374463000148 serine endoprotease; Provisional; Region: PRK10139 374463000149 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 374463000150 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 374463000151 protein binding site [polypeptide binding]; other site 374463000152 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 374463000153 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 374463000154 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 374463000155 23S rRNA interface [nucleotide binding]; other site 374463000156 L3 interface [polypeptide binding]; other site 374463000157 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 374463000158 hypothetical protein; Provisional; Region: PRK05208 374463000159 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 374463000160 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 374463000161 purine monophosphate binding site [chemical binding]; other site 374463000162 dimer interface [polypeptide binding]; other site 374463000163 putative catalytic residues [active] 374463000164 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 374463000165 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 374463000166 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 374463000167 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 374463000168 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 374463000169 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 374463000170 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 374463000171 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 374463000172 putative dimer interface [polypeptide binding]; other site 374463000173 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 374463000174 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 374463000175 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 374463000176 PLD-like domain; Region: PLDc_2; pfam13091 374463000177 putative active site [active] 374463000178 catalytic site [active] 374463000179 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 374463000180 IHF dimer interface [polypeptide binding]; other site 374463000181 IHF - DNA interface [nucleotide binding]; other site 374463000182 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 374463000183 ThiC-associated domain; Region: ThiC-associated; pfam13667 374463000184 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 374463000185 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 374463000186 thiamine phosphate binding site [chemical binding]; other site 374463000187 active site 374463000188 pyrophosphate binding site [ion binding]; other site 374463000189 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 374463000190 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 374463000191 ATP binding site [chemical binding]; other site 374463000192 substrate interface [chemical binding]; other site 374463000193 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 374463000194 thiS-thiF/thiG interaction site; other site 374463000195 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 374463000196 ThiS interaction site; other site 374463000197 putative active site [active] 374463000198 tetramer interface [polypeptide binding]; other site 374463000199 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 374463000200 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 374463000201 FeS/SAM binding site; other site 374463000202 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 374463000203 rod shape-determining protein MreD; Region: MreD; cl01087 374463000204 rod shape-determining protein MreC; Region: mreC; TIGR00219 374463000205 rod shape-determining protein MreC; Region: MreC; pfam04085 374463000206 rod shape-determining protein MreB; Provisional; Region: PRK13927 374463000207 MreB and similar proteins; Region: MreB_like; cd10225 374463000208 nucleotide binding site [chemical binding]; other site 374463000209 Mg binding site [ion binding]; other site 374463000210 putative protofilament interaction site [polypeptide binding]; other site 374463000211 RodZ interaction site [polypeptide binding]; other site 374463000212 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 374463000213 Dehydroquinase class II; Region: DHquinase_II; pfam01220 374463000214 active site 374463000215 trimer interface [polypeptide binding]; other site 374463000216 dimer interface [polypeptide binding]; other site 374463000217 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 374463000218 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 374463000219 carboxyltransferase (CT) interaction site; other site 374463000220 biotinylation site [posttranslational modification]; other site 374463000221 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 374463000222 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374463000223 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 374463000224 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 374463000225 inner membrane protein; Provisional; Region: PRK10995 374463000226 oligopeptidase A; Provisional; Region: PRK10911 374463000227 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 374463000228 active site 374463000229 Zn binding site [ion binding]; other site 374463000230 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374463000231 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 374463000232 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 374463000233 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 374463000234 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 374463000235 P loop; other site 374463000236 GTP binding site [chemical binding]; other site 374463000237 cell division protein FtsE; Provisional; Region: PRK10908 374463000238 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 374463000239 Walker A/P-loop; other site 374463000240 ATP binding site [chemical binding]; other site 374463000241 Q-loop/lid; other site 374463000242 ABC transporter signature motif; other site 374463000243 Walker B; other site 374463000244 D-loop; other site 374463000245 H-loop/switch region; other site 374463000246 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 374463000247 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 374463000248 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 374463000249 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374463000250 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 374463000251 DNA binding residues [nucleotide binding] 374463000252 FMN reductase; Validated; Region: fre; PRK08051 374463000253 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 374463000254 FAD binding pocket [chemical binding]; other site 374463000255 FAD binding motif [chemical binding]; other site 374463000256 phosphate binding motif [ion binding]; other site 374463000257 beta-alpha-beta structure motif; other site 374463000258 NAD binding pocket [chemical binding]; other site 374463000259 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 374463000260 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 374463000261 domain interfaces; other site 374463000262 active site 374463000263 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 374463000264 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 374463000265 active site 374463000266 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 374463000267 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 374463000268 putative active site [active] 374463000269 catalytic triad [active] 374463000270 putative dimer interface [polypeptide binding]; other site 374463000271 metal-binding heat shock protein; Provisional; Region: PRK00016 374463000272 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 374463000273 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 374463000274 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 374463000275 FeS/SAM binding site; other site 374463000276 TRAM domain; Region: TRAM; pfam01938 374463000277 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 374463000278 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 374463000279 nucleotide binding pocket [chemical binding]; other site 374463000280 K-X-D-G motif; other site 374463000281 catalytic site [active] 374463000282 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 374463000283 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 374463000284 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 374463000285 Dimer interface [polypeptide binding]; other site 374463000286 BRCT sequence motif; other site 374463000287 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 374463000288 FtsZ protein binding site [polypeptide binding]; other site 374463000289 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 374463000290 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 374463000291 dimer interface [polypeptide binding]; other site 374463000292 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463000293 catalytic residue [active] 374463000294 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 374463000295 dimerization domain swap beta strand [polypeptide binding]; other site 374463000296 regulatory protein interface [polypeptide binding]; other site 374463000297 active site 374463000298 regulatory phosphorylation site [posttranslational modification]; other site 374463000299 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 374463000300 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 374463000301 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 374463000302 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 374463000303 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 374463000304 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 374463000305 active site 374463000306 ATP binding site [chemical binding]; other site 374463000307 substrate binding site [chemical binding]; other site 374463000308 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 374463000309 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 374463000310 dimerization interface [polypeptide binding]; other site 374463000311 putative ATP binding site [chemical binding]; other site 374463000312 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 374463000313 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 374463000314 active site 374463000315 substrate binding site [chemical binding]; other site 374463000316 cosubstrate binding site; other site 374463000317 catalytic site [active] 374463000318 polyphosphate kinase; Provisional; Region: PRK05443 374463000319 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 374463000320 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 374463000321 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 374463000322 domain interface [polypeptide binding]; other site 374463000323 active site 374463000324 catalytic site [active] 374463000325 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 374463000326 domain interface [polypeptide binding]; other site 374463000327 active site 374463000328 catalytic site [active] 374463000329 transketolase; Reviewed; Region: PRK12753 374463000330 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 374463000331 TPP-binding site [chemical binding]; other site 374463000332 dimer interface [polypeptide binding]; other site 374463000333 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 374463000334 PYR/PP interface [polypeptide binding]; other site 374463000335 dimer interface [polypeptide binding]; other site 374463000336 TPP binding site [chemical binding]; other site 374463000337 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374463000338 transaldolase-like protein; Provisional; Region: PTZ00411 374463000339 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 374463000340 active site 374463000341 dimer interface [polypeptide binding]; other site 374463000342 catalytic residue [active] 374463000343 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 374463000344 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 374463000345 dimer interface [polypeptide binding]; other site 374463000346 conserved gate region; other site 374463000347 putative PBP binding loops; other site 374463000348 ABC-ATPase subunit interface; other site 374463000349 sulfate transport protein; Provisional; Region: cysT; CHL00187 374463000350 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 374463000351 dimer interface [polypeptide binding]; other site 374463000352 conserved gate region; other site 374463000353 putative PBP binding loops; other site 374463000354 ABC-ATPase subunit interface; other site 374463000355 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 374463000356 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 374463000357 Walker A/P-loop; other site 374463000358 ATP binding site [chemical binding]; other site 374463000359 Q-loop/lid; other site 374463000360 ABC transporter signature motif; other site 374463000361 Walker B; other site 374463000362 D-loop; other site 374463000363 H-loop/switch region; other site 374463000364 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 374463000365 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 374463000366 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 374463000367 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 374463000368 active site 374463000369 HIGH motif; other site 374463000370 dimer interface [polypeptide binding]; other site 374463000371 KMSKS motif; other site 374463000372 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 374463000373 RNA binding surface [nucleotide binding]; other site 374463000374 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 374463000375 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 374463000376 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 374463000377 transcriptional regulator SlyA; Provisional; Region: PRK03573 374463000378 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 374463000379 ribonuclease T; Provisional; Region: PRK05168 374463000380 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 374463000381 active site 374463000382 catalytic site [active] 374463000383 substrate binding site [chemical binding]; other site 374463000384 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 374463000385 putative GSH binding site [chemical binding]; other site 374463000386 catalytic residues [active] 374463000387 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 374463000388 Lumazine binding domain; Region: Lum_binding; pfam00677 374463000389 Lumazine binding domain; Region: Lum_binding; pfam00677 374463000390 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 374463000391 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 374463000392 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374463000393 active site 374463000394 HIGH motif; other site 374463000395 nucleotide binding site [chemical binding]; other site 374463000396 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 374463000397 KMSKS motif; other site 374463000398 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 374463000399 flavodoxin FldA; Validated; Region: PRK09267 374463000400 Uncharacterized conserved protein [Function unknown]; Region: COG0327 374463000401 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 374463000402 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 374463000403 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 374463000404 CoA-ligase; Region: Ligase_CoA; pfam00549 374463000405 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 374463000406 CoA binding domain; Region: CoA_binding; smart00881 374463000407 CoA-ligase; Region: Ligase_CoA; pfam00549 374463000408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 374463000409 ligand binding site [chemical binding]; other site 374463000410 tol-pal system protein YbgF; Provisional; Region: PRK10803 374463000411 quinolinate synthetase; Provisional; Region: PRK09375 374463000412 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 374463000413 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 374463000414 Ligand Binding Site [chemical binding]; other site 374463000415 TilS substrate binding domain; Region: TilS; pfam09179 374463000416 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 374463000417 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 374463000418 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 374463000419 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 374463000420 ABC-ATPase subunit interface; other site 374463000421 dimer interface [polypeptide binding]; other site 374463000422 putative PBP binding regions; other site 374463000423 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 374463000424 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 374463000425 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 374463000426 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 374463000427 dimer interface [polypeptide binding]; other site 374463000428 ssDNA binding site [nucleotide binding]; other site 374463000429 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374463000430 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 374463000431 MarR family; Region: MarR; pfam01047 374463000432 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 374463000433 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 374463000434 catalytic site [active] 374463000435 G-X2-G-X-G-K; other site 374463000436 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 374463000437 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 374463000438 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 374463000439 generic binding surface II; other site 374463000440 ssDNA binding site; other site 374463000441 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 374463000442 ATP binding site [chemical binding]; other site 374463000443 putative Mg++ binding site [ion binding]; other site 374463000444 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 374463000445 nucleotide binding region [chemical binding]; other site 374463000446 ATP-binding site [chemical binding]; other site 374463000447 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 374463000448 G1 box; other site 374463000449 GTP/Mg2+ binding site [chemical binding]; other site 374463000450 Switch I region; other site 374463000451 G2 box; other site 374463000452 G3 box; other site 374463000453 Switch II region; other site 374463000454 G4 box; other site 374463000455 G5 box; other site 374463000456 5'-3' exonuclease; Region: 53EXOc; smart00475 374463000457 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 374463000458 active site 374463000459 metal binding site 1 [ion binding]; metal-binding site 374463000460 putative 5' ssDNA interaction site; other site 374463000461 metal binding site 3; metal-binding site 374463000462 metal binding site 2 [ion binding]; metal-binding site 374463000463 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 374463000464 putative DNA binding site [nucleotide binding]; other site 374463000465 putative metal binding site [ion binding]; other site 374463000466 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14961 374463000467 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 374463000468 Walker A motif; other site 374463000469 ATP binding site [chemical binding]; other site 374463000470 Walker B motif; other site 374463000471 arginine finger; other site 374463000472 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 374463000473 hypothetical protein; Validated; Region: PRK00153 374463000474 heat shock protein 90; Provisional; Region: PRK05218 374463000475 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 374463000476 ATP binding site [chemical binding]; other site 374463000477 Mg2+ binding site [ion binding]; other site 374463000478 G-X-G motif; other site 374463000479 adenylate kinase; Reviewed; Region: adk; PRK00279 374463000480 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 374463000481 AMP-binding site [chemical binding]; other site 374463000482 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 374463000483 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 374463000484 ATP-grasp domain; Region: ATP-grasp; pfam02222 374463000485 AIR carboxylase; Region: AIRC; pfam00731 374463000486 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 374463000487 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374463000488 active site 374463000489 HIGH motif; other site 374463000490 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 374463000491 KMSKS motif; other site 374463000492 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 374463000493 tRNA binding surface [nucleotide binding]; other site 374463000494 anticodon binding site; other site 374463000495 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 374463000496 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 374463000497 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 374463000498 homodimer interface [polypeptide binding]; other site 374463000499 NADP binding site [chemical binding]; other site 374463000500 substrate binding site [chemical binding]; other site 374463000501 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 374463000502 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374463000503 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 374463000504 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 374463000505 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 374463000506 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 374463000507 Part of AAA domain; Region: AAA_19; pfam13245 374463000508 Family description; Region: UvrD_C_2; pfam13538 374463000509 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 374463000510 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 374463000511 Cl binding site [ion binding]; other site 374463000512 oligomer interface [polypeptide binding]; other site 374463000513 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 374463000514 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 374463000515 ATP binding site [chemical binding]; other site 374463000516 Mg2+ binding site [ion binding]; other site 374463000517 G-X-G motif; other site 374463000518 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 374463000519 anchoring element; other site 374463000520 dimer interface [polypeptide binding]; other site 374463000521 ATP binding site [chemical binding]; other site 374463000522 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 374463000523 active site 374463000524 putative metal-binding site [ion binding]; other site 374463000525 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 374463000526 DNA polymerase III subunit beta; Validated; Region: PRK05643 374463000527 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 374463000528 putative DNA binding surface [nucleotide binding]; other site 374463000529 dimer interface [polypeptide binding]; other site 374463000530 beta-clamp/clamp loader binding surface; other site 374463000531 beta-clamp/translesion DNA polymerase binding surface; other site 374463000532 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 374463000533 Ribonuclease P; Region: Ribonuclease_P; cl00457 374463000534 hypothetical protein; Validated; Region: PRK00041 374463000535 membrane protein insertase; Provisional; Region: PRK01318 374463000536 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 374463000537 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 374463000538 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 374463000539 trmE is a tRNA modification GTPase; Region: trmE; cd04164 374463000540 G1 box; other site 374463000541 GTP/Mg2+ binding site [chemical binding]; other site 374463000542 Switch I region; other site 374463000543 G2 box; other site 374463000544 Switch II region; other site 374463000545 G3 box; other site 374463000546 G4 box; other site 374463000547 G5 box; other site 374463000548 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 374463000549 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 374463000550 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 374463000551 glutaminase active site [active] 374463000552 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 374463000553 dimer interface [polypeptide binding]; other site 374463000554 active site 374463000555 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 374463000556 dimer interface [polypeptide binding]; other site 374463000557 active site 374463000558 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 374463000559 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 374463000560 Substrate binding site; other site 374463000561 Mg++ binding site; other site 374463000562 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 374463000563 active site 374463000564 substrate binding site [chemical binding]; other site 374463000565 CoA binding site [chemical binding]; other site 374463000566 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 374463000567 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 374463000568 gamma subunit interface [polypeptide binding]; other site 374463000569 epsilon subunit interface [polypeptide binding]; other site 374463000570 LBP interface [polypeptide binding]; other site 374463000571 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 374463000572 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374463000573 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 374463000574 alpha subunit interaction interface [polypeptide binding]; other site 374463000575 Walker A motif; other site 374463000576 ATP binding site [chemical binding]; other site 374463000577 Walker B motif; other site 374463000578 inhibitor binding site; inhibition site 374463000579 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374463000580 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 374463000581 core domain interface [polypeptide binding]; other site 374463000582 delta subunit interface [polypeptide binding]; other site 374463000583 epsilon subunit interface [polypeptide binding]; other site 374463000584 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 374463000585 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 374463000586 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 374463000587 beta subunit interaction interface [polypeptide binding]; other site 374463000588 Walker A motif; other site 374463000589 ATP binding site [chemical binding]; other site 374463000590 Walker B motif; other site 374463000591 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 374463000592 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 374463000593 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 374463000594 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 374463000595 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 374463000596 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 374463000597 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 374463000598 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 374463000599 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 374463000600 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 374463000601 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 374463000602 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 374463000603 putative global regulator; Reviewed; Region: PRK09559 374463000604 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 374463000605 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 374463000606 DHH family; Region: DHH; pfam01368 374463000607 DHHA1 domain; Region: DHHA1; pfam02272 374463000608 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 374463000609 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 374463000610 dimer interface [polypeptide binding]; other site 374463000611 putative anticodon binding site; other site 374463000612 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 374463000613 motif 1; other site 374463000614 active site 374463000615 motif 2; other site 374463000616 motif 3; other site 374463000617 glutamate racemase; Provisional; Region: PRK00865 374463000618 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 374463000619 DALR anticodon binding domain; Region: DALR_1; pfam05746 374463000620 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 374463000621 dimer interface [polypeptide binding]; other site 374463000622 motif 1; other site 374463000623 active site 374463000624 motif 2; other site 374463000625 motif 3; other site 374463000626 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 374463000627 FAD binding site [chemical binding]; other site 374463000628 cystathionine gamma-synthase; Provisional; Region: PRK08045 374463000629 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 374463000630 homodimer interface [polypeptide binding]; other site 374463000631 substrate-cofactor binding pocket; other site 374463000632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463000633 catalytic residue [active] 374463000634 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 374463000635 primosome assembly protein PriA; Validated; Region: PRK05580 374463000636 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 374463000637 ATP binding site [chemical binding]; other site 374463000638 putative Mg++ binding site [ion binding]; other site 374463000639 helicase superfamily c-terminal domain; Region: HELICc; smart00490 374463000640 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 374463000641 active site 374463000642 HslU subunit interaction site [polypeptide binding]; other site 374463000643 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 374463000644 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 374463000645 Walker A motif; other site 374463000646 ATP binding site [chemical binding]; other site 374463000647 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 374463000648 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 374463000649 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 374463000650 triosephosphate isomerase; Provisional; Region: PRK14567 374463000651 substrate binding site [chemical binding]; other site 374463000652 dimer interface [polypeptide binding]; other site 374463000653 catalytic triad [active] 374463000654 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 374463000655 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 374463000656 substrate binding pocket [chemical binding]; other site 374463000657 membrane-bound complex binding site; other site 374463000658 hinge residues; other site 374463000659 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 374463000660 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 374463000661 active site 374463000662 ADP/pyrophosphate binding site [chemical binding]; other site 374463000663 dimerization interface [polypeptide binding]; other site 374463000664 allosteric effector site; other site 374463000665 fructose-1,6-bisphosphate binding site; other site 374463000666 serine acetyltransferase; Provisional; Region: cysE; PRK11132 374463000667 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 374463000668 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 374463000669 trimer interface [polypeptide binding]; other site 374463000670 active site 374463000671 substrate binding site [chemical binding]; other site 374463000672 CoA binding site [chemical binding]; other site 374463000673 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 374463000674 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 374463000675 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 374463000676 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 374463000677 active site residue [active] 374463000678 AmiB activator; Provisional; Region: PRK11637 374463000679 Peptidase family M23; Region: Peptidase_M23; pfam01551 374463000680 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 374463000681 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 374463000682 active site 374463000683 (T/H)XGH motif; other site 374463000684 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 374463000685 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 374463000686 DNA binding site [nucleotide binding] 374463000687 catalytic residue [active] 374463000688 H2TH interface [polypeptide binding]; other site 374463000689 putative catalytic residues [active] 374463000690 turnover-facilitating residue; other site 374463000691 intercalation triad [nucleotide binding]; other site 374463000692 8OG recognition residue [nucleotide binding]; other site 374463000693 putative reading head residues; other site 374463000694 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 374463000695 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374463000696 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 374463000697 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 374463000698 hypothetical protein; Provisional; Region: PRK11820 374463000699 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 374463000700 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 374463000701 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374463000702 active site 374463000703 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374463000704 trimer interface [polypeptide binding]; other site 374463000705 active site 374463000706 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 374463000707 Flavoprotein; Region: Flavoprotein; pfam02441 374463000708 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 374463000709 transcription termination factor Rho; Provisional; Region: rho; PRK09376 374463000710 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 374463000711 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 374463000712 RNA binding site [nucleotide binding]; other site 374463000713 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 374463000714 multimer interface [polypeptide binding]; other site 374463000715 Walker A motif; other site 374463000716 ATP binding site [chemical binding]; other site 374463000717 Walker B motif; other site 374463000718 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 374463000719 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 374463000720 catalytic residues [active] 374463000721 hypothetical protein; Provisional; Region: PRK11027 374463000722 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 374463000723 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 374463000724 Outer membrane lipoprotein; Region: YfiO; pfam13525 374463000725 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 374463000726 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 374463000727 RNA binding surface [nucleotide binding]; other site 374463000728 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374463000729 active site 374463000730 protein disaggregation chaperone; Provisional; Region: PRK10865 374463000731 Clp amino terminal domain; Region: Clp_N; pfam02861 374463000732 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 374463000733 Walker A motif; other site 374463000734 ATP binding site [chemical binding]; other site 374463000735 Walker B motif; other site 374463000736 arginine finger; other site 374463000737 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 374463000738 Walker A motif; other site 374463000739 ATP binding site [chemical binding]; other site 374463000740 Walker B motif; other site 374463000741 arginine finger; other site 374463000742 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 374463000743 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 374463000744 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 374463000745 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 374463000746 RimM N-terminal domain; Region: RimM; pfam01782 374463000747 PRC-barrel domain; Region: PRC; pfam05239 374463000748 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 374463000749 signal recognition particle protein; Provisional; Region: PRK10867 374463000750 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 374463000751 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 374463000752 GTP binding site [chemical binding]; other site 374463000753 Signal peptide binding domain; Region: SRP_SPB; pfam02978 374463000754 glutamate--cysteine ligase; Provisional; Region: PRK02107 374463000755 carbon storage regulator; Provisional; Region: PRK01712 374463000756 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 374463000757 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 374463000758 motif 1; other site 374463000759 active site 374463000760 motif 2; other site 374463000761 motif 3; other site 374463000762 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 374463000763 DHHA1 domain; Region: DHHA1; pfam02272 374463000764 recombinase A; Provisional; Region: recA; PRK09354 374463000765 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 374463000766 hexamer interface [polypeptide binding]; other site 374463000767 Walker A motif; other site 374463000768 ATP binding site [chemical binding]; other site 374463000769 Walker B motif; other site 374463000770 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 374463000771 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 374463000772 substrate binding pocket [chemical binding]; other site 374463000773 membrane-bound complex binding site; other site 374463000774 hinge residues; other site 374463000775 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 374463000776 dimer interface [polypeptide binding]; other site 374463000777 conserved gate region; other site 374463000778 putative PBP binding loops; other site 374463000779 ABC-ATPase subunit interface; other site 374463000780 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 374463000781 MutS domain I; Region: MutS_I; pfam01624 374463000782 MutS domain II; Region: MutS_II; pfam05188 374463000783 MutS domain III; Region: MutS_III; pfam05192 374463000784 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 374463000785 Walker A/P-loop; other site 374463000786 ATP binding site [chemical binding]; other site 374463000787 Q-loop/lid; other site 374463000788 ABC transporter signature motif; other site 374463000789 Walker B; other site 374463000790 D-loop; other site 374463000791 H-loop/switch region; other site 374463000792 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 374463000793 homotrimer interaction site [polypeptide binding]; other site 374463000794 zinc binding site [ion binding]; other site 374463000795 CDP-binding sites; other site 374463000796 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 374463000797 substrate binding site; other site 374463000798 dimer interface; other site 374463000799 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 374463000800 ligand-binding site [chemical binding]; other site 374463000801 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 374463000802 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 374463000803 CysD dimerization site [polypeptide binding]; other site 374463000804 G1 box; other site 374463000805 putative GEF interaction site [polypeptide binding]; other site 374463000806 GTP/Mg2+ binding site [chemical binding]; other site 374463000807 Switch I region; other site 374463000808 G2 box; other site 374463000809 G3 box; other site 374463000810 Switch II region; other site 374463000811 G4 box; other site 374463000812 G5 box; other site 374463000813 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 374463000814 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 374463000815 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 374463000816 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 374463000817 Active Sites [active] 374463000818 siroheme synthase; Provisional; Region: cysG; PRK10637 374463000819 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 374463000820 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 374463000821 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 374463000822 active site 374463000823 SAM binding site [chemical binding]; other site 374463000824 homodimer interface [polypeptide binding]; other site 374463000825 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 374463000826 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 374463000827 Active Sites [active] 374463000828 sulfite reductase subunit beta; Provisional; Region: PRK13504 374463000829 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 374463000830 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 374463000831 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 374463000832 Flavodoxin; Region: Flavodoxin_1; pfam00258 374463000833 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 374463000834 FAD binding pocket [chemical binding]; other site 374463000835 FAD binding motif [chemical binding]; other site 374463000836 catalytic residues [active] 374463000837 NAD binding pocket [chemical binding]; other site 374463000838 phosphate binding motif [ion binding]; other site 374463000839 beta-alpha-beta structure motif; other site 374463000840 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 374463000841 active site 374463000842 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 374463000843 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 374463000844 enolase; Provisional; Region: eno; PRK00077 374463000845 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 374463000846 dimer interface [polypeptide binding]; other site 374463000847 metal binding site [ion binding]; metal-binding site 374463000848 substrate binding pocket [chemical binding]; other site 374463000849 CTP synthetase; Validated; Region: pyrG; PRK05380 374463000850 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 374463000851 Catalytic site [active] 374463000852 active site 374463000853 UTP binding site [chemical binding]; other site 374463000854 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 374463000855 active site 374463000856 putative oxyanion hole; other site 374463000857 catalytic triad [active] 374463000858 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 374463000859 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 374463000860 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 374463000861 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 374463000862 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 374463000863 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374463000864 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 374463000865 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 374463000866 catalytic center binding site [active] 374463000867 ATP binding site [chemical binding]; other site 374463000868 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 374463000869 oligomerization interface [polypeptide binding]; other site 374463000870 active site 374463000871 metal binding site [ion binding]; metal-binding site 374463000872 Pantoate-beta-alanine ligase; Region: PanC; cd00560 374463000873 pantoate--beta-alanine ligase; Region: panC; TIGR00018 374463000874 active site 374463000875 ATP-binding site [chemical binding]; other site 374463000876 pantoate-binding site; other site 374463000877 HXXH motif; other site 374463000878 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 374463000879 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 374463000880 HIGH motif; other site 374463000881 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374463000882 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374463000883 active site 374463000884 KMSKS motif; other site 374463000885 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 374463000886 tRNA binding surface [nucleotide binding]; other site 374463000887 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 374463000888 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 374463000889 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 374463000890 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 374463000891 active site 374463000892 (T/H)XGH motif; other site 374463000893 penicillin-binding protein 2; Provisional; Region: PRK10795 374463000894 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 374463000895 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 374463000896 cell wall shape-determining protein; Provisional; Region: PRK10794 374463000897 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 374463000898 lipoyl synthase; Provisional; Region: PRK05481 374463000899 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 374463000900 FeS/SAM binding site; other site 374463000901 multidrug resistance protein MdtH; Provisional; Region: PRK11646 374463000902 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 374463000903 putative substrate translocation pore; other site 374463000904 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 374463000905 6-phosphogluconolactonase; Provisional; Region: PRK11028 374463000906 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 374463000907 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 374463000908 inhibitor-cofactor binding pocket; inhibition site 374463000909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463000910 catalytic residue [active] 374463000911 biotin synthase; Provisional; Region: PRK15108 374463000912 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 374463000913 FeS/SAM binding site; other site 374463000914 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 374463000915 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 374463000916 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 374463000917 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374463000918 catalytic residue [active] 374463000919 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 374463000920 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 374463000921 S-adenosylmethionine binding site [chemical binding]; other site 374463000922 AAA domain; Region: AAA_26; pfam13500 374463000923 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 374463000924 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 374463000925 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 374463000926 Walker A/P-loop; other site 374463000927 ATP binding site [chemical binding]; other site 374463000928 Q-loop/lid; other site 374463000929 ABC transporter signature motif; other site 374463000930 Walker B; other site 374463000931 D-loop; other site 374463000932 H-loop/switch region; other site 374463000933 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 374463000934 catalytic core [active] 374463000935 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 374463000936 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 374463000937 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374463000938 catalytic residue [active] 374463000939 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 374463000940 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 374463000941 hinge; other site 374463000942 active site 374463000943 cytidylate kinase; Provisional; Region: cmk; PRK00023 374463000944 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 374463000945 CMP-binding site; other site 374463000946 The sites determining sugar specificity; other site 374463000947 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 374463000948 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 374463000949 RNA binding site [nucleotide binding]; other site 374463000950 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 374463000951 RNA binding site [nucleotide binding]; other site 374463000952 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 374463000953 RNA binding site [nucleotide binding]; other site 374463000954 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...; Region: S1_RPS1_repeat_ec4; cd05689 374463000955 RNA binding site [nucleotide binding]; other site 374463000956 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 374463000957 RNA binding site [nucleotide binding]; other site 374463000958 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 374463000959 RNA binding site [nucleotide binding]; other site 374463000960 Trm112p-like protein; Region: Trm112p; cl01066 374463000961 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 374463000962 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 374463000963 catalytic residues [active] 374463000964 hinge region; other site 374463000965 alpha helical domain; other site 374463000966 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 374463000967 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 374463000968 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 374463000969 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 374463000970 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 374463000971 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 374463000972 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 374463000973 homotrimer interaction site [polypeptide binding]; other site 374463000974 putative active site [active] 374463000975 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 374463000976 DNA-binding site [nucleotide binding]; DNA binding site 374463000977 RNA-binding motif; other site 374463000978 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 374463000979 Ligand Binding Site [chemical binding]; other site 374463000980 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 374463000981 Found in ATP-dependent protease La (LON); Region: LON; smart00464 374463000982 Found in ATP-dependent protease La (LON); Region: LON; smart00464 374463000983 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 374463000984 Walker A motif; other site 374463000985 ATP binding site [chemical binding]; other site 374463000986 Walker B motif; other site 374463000987 arginine finger; other site 374463000988 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 374463000989 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 374463000990 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 374463000991 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 374463000992 Walker A motif; other site 374463000993 ATP binding site [chemical binding]; other site 374463000994 Walker B motif; other site 374463000995 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 374463000996 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 374463000997 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 374463000998 oligomer interface [polypeptide binding]; other site 374463000999 active site residues [active] 374463001000 trigger factor; Region: tig; TIGR00115 374463001001 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 374463001002 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 374463001003 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 374463001004 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 374463001005 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 374463001006 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 374463001007 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 374463001008 D-pathway; other site 374463001009 Putative ubiquinol binding site [chemical binding]; other site 374463001010 Low-spin heme (heme b) binding site [chemical binding]; other site 374463001011 Putative water exit pathway; other site 374463001012 Binuclear center (heme o3/CuB) [ion binding]; other site 374463001013 K-pathway; other site 374463001014 Putative proton exit pathway; other site 374463001015 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 374463001016 Subunit I/III interface [polypeptide binding]; other site 374463001017 Subunit III/IV interface [polypeptide binding]; other site 374463001018 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 374463001019 UbiA prenyltransferase family; Region: UbiA; pfam01040 374463001020 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 374463001021 Major Facilitator Superfamily; Region: MFS_1; pfam07690 374463001022 putative substrate translocation pore; other site 374463001023 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 374463001024 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 374463001025 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 374463001026 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 374463001027 active site residue [active] 374463001028 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 374463001029 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 374463001030 substrate binding pocket [chemical binding]; other site 374463001031 chain length determination region; other site 374463001032 substrate-Mg2+ binding site; other site 374463001033 catalytic residues [active] 374463001034 aspartate-rich region 1; other site 374463001035 active site lid residues [active] 374463001036 aspartate-rich region 2; other site 374463001037 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 374463001038 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 374463001039 TPP-binding site; other site 374463001040 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 374463001041 PYR/PP interface [polypeptide binding]; other site 374463001042 dimer interface [polypeptide binding]; other site 374463001043 TPP binding site [chemical binding]; other site 374463001044 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 374463001045 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 374463001046 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 374463001047 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 374463001048 active site 374463001049 HIGH motif; other site 374463001050 KMSK motif region; other site 374463001051 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 374463001052 tRNA binding surface [nucleotide binding]; other site 374463001053 anticodon binding site; other site 374463001054 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 374463001055 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 374463001056 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 374463001057 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 374463001058 active site 374463001059 hydrophilic channel; other site 374463001060 dimerization interface [polypeptide binding]; other site 374463001061 catalytic residues [active] 374463001062 active site lid [active] 374463001063 GTPase Era; Reviewed; Region: era; PRK00089 374463001064 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 374463001065 G1 box; other site 374463001066 GTP/Mg2+ binding site [chemical binding]; other site 374463001067 Switch I region; other site 374463001068 G2 box; other site 374463001069 Switch II region; other site 374463001070 G3 box; other site 374463001071 G4 box; other site 374463001072 G5 box; other site 374463001073 KH domain; Region: KH_2; pfam07650 374463001074 ribonuclease III; Reviewed; Region: rnc; PRK00102 374463001075 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 374463001076 dimerization interface [polypeptide binding]; other site 374463001077 active site 374463001078 metal binding site [ion binding]; metal-binding site 374463001079 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 374463001080 dsRNA binding site [nucleotide binding]; other site 374463001081 signal peptidase I; Provisional; Region: PRK10861 374463001082 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 374463001083 Catalytic site [active] 374463001084 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 374463001085 GTP-binding protein LepA; Provisional; Region: PRK05433 374463001086 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 374463001087 G1 box; other site 374463001088 putative GEF interaction site [polypeptide binding]; other site 374463001089 GTP/Mg2+ binding site [chemical binding]; other site 374463001090 Switch I region; other site 374463001091 G2 box; other site 374463001092 G3 box; other site 374463001093 Switch II region; other site 374463001094 G4 box; other site 374463001095 G5 box; other site 374463001096 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 374463001097 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 374463001098 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 374463001099 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 374463001100 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374463001101 active site 374463001102 HIGH motif; other site 374463001103 nucleotide binding site [chemical binding]; other site 374463001104 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374463001105 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 374463001106 active site 374463001107 KMSKS motif; other site 374463001108 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 374463001109 tRNA binding surface [nucleotide binding]; other site 374463001110 anticodon binding site; other site 374463001111 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 374463001112 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 374463001113 multifunctional aminopeptidase A; Provisional; Region: PRK00913 374463001114 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 374463001115 interface (dimer of trimers) [polypeptide binding]; other site 374463001116 Substrate-binding/catalytic site; other site 374463001117 Zn-binding sites [ion binding]; other site 374463001118 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 374463001119 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 374463001120 homodimer interface [polypeptide binding]; other site 374463001121 NAD binding pocket [chemical binding]; other site 374463001122 ATP binding pocket [chemical binding]; other site 374463001123 Mg binding site [ion binding]; other site 374463001124 active-site loop [active] 374463001125 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 374463001126 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 374463001127 S-adenosylmethionine binding site [chemical binding]; other site 374463001128 peptide chain release factor 1; Validated; Region: prfA; PRK00591 374463001129 This domain is found in peptide chain release factors; Region: PCRF; smart00937 374463001130 RF-1 domain; Region: RF-1; pfam00472 374463001131 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 374463001132 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 374463001133 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 374463001134 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 374463001135 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 374463001136 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374463001137 active site 374463001138 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 374463001139 putative active site [active] 374463001140 catalytic residue [active] 374463001141 GTP-binding protein YchF; Reviewed; Region: PRK09601 374463001142 YchF GTPase; Region: YchF; cd01900 374463001143 G1 box; other site 374463001144 GTP/Mg2+ binding site [chemical binding]; other site 374463001145 Switch I region; other site 374463001146 G2 box; other site 374463001147 Switch II region; other site 374463001148 G3 box; other site 374463001149 G4 box; other site 374463001150 G5 box; other site 374463001151 Protein of unknown function (DUF933); Region: YchF-GTPase_C; pfam06071 374463001152 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 374463001153 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 374463001154 NAD binding site [chemical binding]; other site 374463001155 homotetramer interface [polypeptide binding]; other site 374463001156 homodimer interface [polypeptide binding]; other site 374463001157 substrate binding site [chemical binding]; other site 374463001158 active site 374463001159 exoribonuclease II; Provisional; Region: PRK05054 374463001160 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 374463001161 RNB domain; Region: RNB; pfam00773 374463001162 S1 RNA binding domain; Region: S1; pfam00575 374463001163 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 374463001164 active site 374463001165 dimer interface [polypeptide binding]; other site 374463001166 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 374463001167 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 374463001168 dimerization interface [polypeptide binding]; other site 374463001169 active site 374463001170 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 374463001171 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 374463001172 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 374463001173 dimerization interface [polypeptide binding]; other site 374463001174 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 374463001175 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 374463001176 active site 374463001177 interdomain interaction site; other site 374463001178 putative metal-binding site [ion binding]; other site 374463001179 nucleotide binding site [chemical binding]; other site 374463001180 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 374463001181 domain I; other site 374463001182 DNA binding groove [nucleotide binding] 374463001183 phosphate binding site [ion binding]; other site 374463001184 domain II; other site 374463001185 domain III; other site 374463001186 nucleotide binding site [chemical binding]; other site 374463001187 catalytic site [active] 374463001188 domain IV; other site 374463001189 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 374463001190 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 374463001191 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 374463001192 hypothetical protein; Provisional; Region: PRK02868 374463001193 YCII-related domain; Region: YCII; cl00999 374463001194 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 374463001195 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 374463001196 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 374463001197 putative active site [active] 374463001198 catalytic site [active] 374463001199 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 374463001200 putative active site [active] 374463001201 catalytic site [active] 374463001202 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 374463001203 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 374463001204 heat shock protein HtpX; Provisional; Region: PRK05457 374463001205 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 374463001206 Ferritin-like domain; Region: Ferritin; pfam00210 374463001207 ferroxidase diiron center [ion binding]; other site 374463001208 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 374463001209 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 374463001210 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 374463001211 pyruvate kinase; Provisional; Region: PRK05826 374463001212 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 374463001213 domain interfaces; other site 374463001214 active site 374463001215 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 374463001216 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 374463001217 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 374463001218 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 374463001219 Walker A motif; other site 374463001220 ATP binding site [chemical binding]; other site 374463001221 Walker B motif; other site 374463001222 arginine finger; other site 374463001223 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 374463001224 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 374463001225 RuvA N terminal domain; Region: RuvA_N; pfam01330 374463001226 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 374463001227 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 374463001228 active site 374463001229 putative DNA-binding cleft [nucleotide binding]; other site 374463001230 dimer interface [polypeptide binding]; other site 374463001231 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 374463001232 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 374463001233 dimer interface [polypeptide binding]; other site 374463001234 anticodon binding site; other site 374463001235 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...; Region: AspRS_core; cd00777 374463001236 homodimer interface [polypeptide binding]; other site 374463001237 motif 1; other site 374463001238 active site 374463001239 motif 2; other site 374463001240 GAD domain; Region: GAD; pfam02938 374463001241 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 374463001242 active site 374463001243 motif 3; other site 374463001244 putative hydrolase; Validated; Region: PRK09248 374463001245 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 374463001246 active site 374463001247 seryl-tRNA synthetase; Provisional; Region: PRK05431 374463001248 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 374463001249 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 374463001250 dimer interface [polypeptide binding]; other site 374463001251 active site 374463001252 motif 1; other site 374463001253 motif 2; other site 374463001254 motif 3; other site 374463001255 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 374463001256 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 374463001257 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 374463001258 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 374463001259 thioredoxin reductase; Provisional; Region: PRK10262 374463001260 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 374463001261 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374463001262 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 374463001263 rRNA binding site [nucleotide binding]; other site 374463001264 predicted 30S ribosome binding site; other site 374463001265 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 374463001266 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 374463001267 Walker A/P-loop; other site 374463001268 ATP binding site [chemical binding]; other site 374463001269 Q-loop/lid; other site 374463001270 ABC transporter signature motif; other site 374463001271 Walker B; other site 374463001272 D-loop; other site 374463001273 H-loop/switch region; other site 374463001274 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 374463001275 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 374463001276 substrate binding pocket [chemical binding]; other site 374463001277 membrane-bound complex binding site; other site 374463001278 hinge residues; other site 374463001279 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 374463001280 putative PBP binding loops; other site 374463001281 dimer interface [polypeptide binding]; other site 374463001282 ABC-ATPase subunit interface; other site 374463001283 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 374463001284 dimer interface [polypeptide binding]; other site 374463001285 conserved gate region; other site 374463001286 putative PBP binding loops; other site 374463001287 ABC-ATPase subunit interface; other site 374463001288 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 374463001289 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 374463001290 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 374463001291 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 374463001292 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 374463001293 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 374463001294 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 374463001295 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 374463001296 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 374463001297 protein-rRNA interface [nucleotide binding]; other site 374463001298 putative translocon binding site; other site 374463001299 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 374463001300 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 374463001301 G-X-X-G motif; other site 374463001302 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 374463001303 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 374463001304 23S rRNA interface [nucleotide binding]; other site 374463001305 5S rRNA interface [nucleotide binding]; other site 374463001306 putative antibiotic binding site [chemical binding]; other site 374463001307 L25 interface [polypeptide binding]; other site 374463001308 L27 interface [polypeptide binding]; other site 374463001309 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 374463001310 putative translocon interaction site; other site 374463001311 23S rRNA interface [nucleotide binding]; other site 374463001312 signal recognition particle (SRP54) interaction site; other site 374463001313 L23 interface [polypeptide binding]; other site 374463001314 trigger factor interaction site; other site 374463001315 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 374463001316 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 374463001317 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 374463001318 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 374463001319 RNA binding site [nucleotide binding]; other site 374463001320 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 374463001321 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 374463001322 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 374463001323 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 374463001324 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 374463001325 ribosomal protein L6, bacterial type; Region: L6_bact; TIGR03654 374463001326 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374463001327 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 374463001328 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 374463001329 5S rRNA interface [nucleotide binding]; other site 374463001330 23S rRNA interface [nucleotide binding]; other site 374463001331 L5 interface [polypeptide binding]; other site 374463001332 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 374463001333 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 374463001334 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 374463001335 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 374463001336 23S rRNA binding site [nucleotide binding]; other site 374463001337 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 374463001338 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 374463001339 SecY translocase; Region: SecY; pfam00344 374463001340 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 374463001341 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 374463001342 30S ribosomal protein S13; Region: bact_S13; TIGR03631 374463001343 30S ribosomal protein S11; Validated; Region: PRK05309 374463001344 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 374463001345 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 374463001346 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 374463001347 RNA binding surface [nucleotide binding]; other site 374463001348 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 374463001349 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 374463001350 alphaNTD homodimer interface [polypeptide binding]; other site 374463001351 alphaNTD - beta interaction site [polypeptide binding]; other site 374463001352 alphaNTD - beta' interaction site [polypeptide binding]; other site 374463001353 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 374463001354 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 374463001355 pantothenate kinase; Provisional; Region: PRK05439 374463001356 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 374463001357 ATP-binding site [chemical binding]; other site 374463001358 CoA-binding site [chemical binding]; other site 374463001359 Mg2+-binding site [ion binding]; other site 374463001360 HemK family putative methylases; Region: hemK_fam; TIGR00536 374463001361 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 374463001362 S-adenosylmethionine binding site [chemical binding]; other site 374463001363 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 374463001364 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 374463001365 Tetramer interface [polypeptide binding]; other site 374463001366 active site 374463001367 FMN-binding site [chemical binding]; other site 374463001368 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 374463001369 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 374463001370 dimer interface [polypeptide binding]; other site 374463001371 active site 374463001372 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 374463001373 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 374463001374 ligand binding site [chemical binding]; other site 374463001375 NAD binding site [chemical binding]; other site 374463001376 catalytic site [active] 374463001377 homodimer interface [polypeptide binding]; other site 374463001378 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 374463001379 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 374463001380 dimerization interface 3.5A [polypeptide binding]; other site 374463001381 active site 374463001382 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 374463001383 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 374463001384 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 374463001385 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374463001386 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374463001387 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 374463001388 Colicin V production protein; Region: Colicin_V; cl00567 374463001389 amidophosphoribosyltransferase; Provisional; Region: PRK09246 374463001390 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 374463001391 active site 374463001392 tetramer interface [polypeptide binding]; other site 374463001393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 374463001394 active site 374463001395 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 374463001396 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374463001397 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 374463001398 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374463001399 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 374463001400 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 374463001401 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 374463001402 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 374463001403 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 374463001404 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 374463001405 4Fe-4S binding domain; Region: Fer4; cl02805 374463001406 4Fe-4S binding domain; Region: Fer4; pfam00037 374463001407 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 374463001408 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 374463001409 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 374463001410 catalytic loop [active] 374463001411 iron binding site [ion binding]; other site 374463001412 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 374463001413 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 374463001414 [4Fe-4S] binding site [ion binding]; other site 374463001415 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 374463001416 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 374463001417 SLBB domain; Region: SLBB; pfam10531 374463001418 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 374463001419 NADH dehydrogenase subunit E; Validated; Region: PRK07539 374463001420 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 374463001421 putative dimer interface [polypeptide binding]; other site 374463001422 [2Fe-2S] cluster binding site [ion binding]; other site 374463001423 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 374463001424 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 374463001425 NADH dehydrogenase subunit D; Validated; Region: PRK06075 374463001426 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 374463001427 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 374463001428 propionate/acetate kinase; Provisional; Region: PRK12379 374463001429 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 374463001430 phosphate acetyltransferase; Reviewed; Region: PRK05632 374463001431 DRTGG domain; Region: DRTGG; pfam07085 374463001432 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 374463001433 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 374463001434 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 374463001435 catalytic loop [active] 374463001436 iron binding site [ion binding]; other site 374463001437 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 374463001438 dimer interface [polypeptide binding]; other site 374463001439 putative radical transfer pathway; other site 374463001440 diiron center [ion binding]; other site 374463001441 tyrosyl radical; other site 374463001442 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 374463001443 ATP cone domain; Region: ATP-cone; pfam03477 374463001444 Class I ribonucleotide reductase; Region: RNR_I; cd01679 374463001445 active site 374463001446 dimer interface [polypeptide binding]; other site 374463001447 catalytic residues [active] 374463001448 effector binding site; other site 374463001449 R2 peptide binding site; other site 374463001450 DNA gyrase subunit A; Validated; Region: PRK05560 374463001451 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 374463001452 CAP-like domain; other site 374463001453 active site 374463001454 primary dimer interface [polypeptide binding]; other site 374463001455 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001456 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001457 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001458 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001459 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001460 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 374463001461 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 374463001462 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 374463001463 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 374463001464 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 374463001465 5S rRNA interface [nucleotide binding]; other site 374463001466 CTC domain interface [polypeptide binding]; other site 374463001467 L16 interface [polypeptide binding]; other site 374463001468 NlpC/P60 family; Region: NLPC_P60; pfam00877 374463001469 endonuclease IV; Provisional; Region: PRK01060 374463001470 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 374463001471 AP (apurinic/apyrimidinic) site pocket; other site 374463001472 DNA interaction; other site 374463001473 Metal-binding active site; metal-binding site 374463001474 lysine transporter; Provisional; Region: PRK10836 374463001475 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 374463001476 active site 374463001477 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 374463001478 trimer interface [polypeptide binding]; other site 374463001479 active site 374463001480 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 374463001481 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 374463001482 active site 374463001483 HIGH motif; other site 374463001484 KMSKS motif; other site 374463001485 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 374463001486 anticodon binding site; other site 374463001487 tRNA binding surface [nucleotide binding]; other site 374463001488 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 374463001489 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 374463001490 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 374463001491 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 374463001492 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 374463001493 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 374463001494 metal binding site [ion binding]; metal-binding site 374463001495 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 374463001496 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 374463001497 substrate binding site [chemical binding]; other site 374463001498 glutamase interaction surface [polypeptide binding]; other site 374463001499 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 374463001500 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 374463001501 catalytic residues [active] 374463001502 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 374463001503 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 374463001504 putative active site [active] 374463001505 oxyanion strand; other site 374463001506 catalytic triad [active] 374463001507 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 374463001508 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 374463001509 active site 374463001510 motif I; other site 374463001511 motif II; other site 374463001512 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 374463001513 putative active site pocket [active] 374463001514 4-fold oligomerization interface [polypeptide binding]; other site 374463001515 metal binding residues [ion binding]; metal-binding site 374463001516 3-fold/trimer interface [polypeptide binding]; other site 374463001517 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 374463001518 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 374463001519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463001520 homodimer interface [polypeptide binding]; other site 374463001521 catalytic residue [active] 374463001522 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 374463001523 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 374463001524 NAD binding site [chemical binding]; other site 374463001525 dimerization interface [polypeptide binding]; other site 374463001526 product binding site; other site 374463001527 substrate binding site [chemical binding]; other site 374463001528 zinc binding site [ion binding]; other site 374463001529 catalytic residues [active] 374463001530 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 374463001531 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 374463001532 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 374463001533 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 374463001534 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 374463001535 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 374463001536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463001537 homodimer interface [polypeptide binding]; other site 374463001538 catalytic residue [active] 374463001539 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 374463001540 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 374463001541 putative dimer interface [polypeptide binding]; other site 374463001542 putative anticodon binding site; other site 374463001543 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 374463001544 homodimer interface [polypeptide binding]; other site 374463001545 motif 1; other site 374463001546 motif 2; other site 374463001547 active site 374463001548 motif 3; other site 374463001549 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 374463001550 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 374463001551 quinone interaction residues [chemical binding]; other site 374463001552 active site 374463001553 catalytic residues [active] 374463001554 FMN binding site [chemical binding]; other site 374463001555 substrate binding site [chemical binding]; other site 374463001556 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 374463001557 active site 2 [active] 374463001558 active site 1 [active] 374463001559 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 374463001560 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 374463001561 heat shock protein HspQ; Provisional; Region: PRK14129 374463001562 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 374463001563 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 374463001564 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 374463001565 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 374463001566 putative active site [active] 374463001567 substrate binding site [chemical binding]; other site 374463001568 putative cosubstrate binding site; other site 374463001569 catalytic site [active] 374463001570 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 374463001571 substrate binding site [chemical binding]; other site 374463001572 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 374463001573 active site 374463001574 catalytic residues [active] 374463001575 metal binding site [ion binding]; metal-binding site 374463001576 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 374463001577 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 374463001578 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 374463001579 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 374463001580 shikimate binding site; other site 374463001581 NAD(P) binding site [chemical binding]; other site 374463001582 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 374463001583 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 374463001584 dimer interface [polypeptide binding]; other site 374463001585 PYR/PP interface [polypeptide binding]; other site 374463001586 TPP binding site [chemical binding]; other site 374463001587 substrate binding site [chemical binding]; other site 374463001588 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 374463001589 Domain of unknown function; Region: EKR; pfam10371 374463001590 4Fe-4S binding domain; Region: Fer4; pfam00037 374463001591 4Fe-4S binding domain; Region: Fer4; pfam00037 374463001592 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 374463001593 TPP-binding site [chemical binding]; other site 374463001594 fumarate hydratase; Reviewed; Region: fumC; PRK00485 374463001595 Class II fumarases; Region: Fumarase_classII; cd01362 374463001596 active site 374463001597 tetramer interface [polypeptide binding]; other site 374463001598 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 374463001599 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 374463001600 adenylosuccinate lyase; Provisional; Region: PRK09285 374463001601 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 374463001602 tetramer interface [polypeptide binding]; other site 374463001603 active site 374463001604 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 374463001605 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374463001606 FtsX-like permease family; Region: FtsX; pfam02687 374463001607 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 374463001608 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 374463001609 Walker A/P-loop; other site 374463001610 ATP binding site [chemical binding]; other site 374463001611 Q-loop/lid; other site 374463001612 ABC transporter signature motif; other site 374463001613 Walker B; other site 374463001614 D-loop; other site 374463001615 H-loop/switch region; other site 374463001616 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 374463001617 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 374463001618 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 374463001619 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 374463001620 nucleotide binding site/active site [active] 374463001621 HIT family signature motif; other site 374463001622 catalytic residue [active] 374463001623 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 374463001624 active site 374463001625 DNA polymerase III subunit delta'; Validated; Region: PRK07993 374463001626 DNA polymerase III subunit delta'; Validated; Region: PRK08485 374463001627 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 374463001628 thymidylate kinase; Validated; Region: tmk; PRK00698 374463001629 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 374463001630 TMP-binding site; other site 374463001631 ATP-binding site [chemical binding]; other site 374463001632 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 374463001633 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 374463001634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 374463001635 catalytic residue [active] 374463001636 acyl carrier protein; Provisional; Region: acpP; PRK00982 374463001637 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 374463001638 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 374463001639 NAD(P) binding site [chemical binding]; other site 374463001640 homotetramer interface [polypeptide binding]; other site 374463001641 homodimer interface [polypeptide binding]; other site 374463001642 active site 374463001643 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 374463001644 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 374463001645 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 374463001646 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 374463001647 dimer interface [polypeptide binding]; other site 374463001648 active site 374463001649 CoA binding pocket [chemical binding]; other site 374463001650 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 374463001651 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 374463001652 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 374463001653 RNA binding surface [nucleotide binding]; other site 374463001654 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 374463001655 active site 374463001656 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 374463001657 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 374463001658 homodimer interface [polypeptide binding]; other site 374463001659 oligonucleotide binding site [chemical binding]; other site 374463001660 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 374463001661 active site 374463001662 substrate binding pocket [chemical binding]; other site 374463001663 dimer interface [polypeptide binding]; other site 374463001664 protease 4; Provisional; Region: PRK10949 374463001665 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 374463001666 tandem repeat interface [polypeptide binding]; other site 374463001667 oligomer interface [polypeptide binding]; other site 374463001668 active site residues [active] 374463001669 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 374463001670 active site 374463001671 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 374463001672 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 374463001673 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 374463001674 septum formation inhibitor; Reviewed; Region: minC; PRK03511 374463001675 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 374463001676 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 374463001677 cell division inhibitor MinD; Provisional; Region: PRK10818 374463001678 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 374463001679 Switch I; other site 374463001680 Switch II; other site 374463001681 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 374463001682 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 374463001683 Glycoprotease family; Region: Peptidase_M22; pfam00814 374463001684 L,D-transpeptidase; Provisional; Region: PRK10260 374463001685 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 374463001686 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 374463001687 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 374463001688 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 374463001689 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 374463001690 active pocket/dimerization site; other site 374463001691 active site 374463001692 phosphorylation site [posttranslational modification] 374463001693 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 374463001694 active site 374463001695 phosphorylation site [posttranslational modification] 374463001696 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 374463001697 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 374463001698 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 374463001699 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 374463001700 chorismate binding enzyme; Region: Chorismate_bind; cl10555 374463001701 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 374463001702 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 374463001703 active site residue [active] 374463001704 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 374463001705 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374463001706 active site 374463001707 HIGH motif; other site 374463001708 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 374463001709 active site 374463001710 KMSKS motif; other site 374463001711 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 374463001712 Major Facilitator Superfamily; Region: MFS_1; pfam07690 374463001713 putative substrate translocation pore; other site 374463001714 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 374463001715 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 374463001716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 374463001717 HlyD family secretion protein; Region: HlyD_3; pfam13437 374463001718 cysteine desufuration protein SufE; Provisional; Region: PRK09296 374463001719 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 374463001720 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 374463001721 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374463001722 catalytic residue [active] 374463001723 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 374463001724 FeS assembly protein SufD; Region: sufD; TIGR01981 374463001725 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 374463001726 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 374463001727 Walker A/P-loop; other site 374463001728 ATP binding site [chemical binding]; other site 374463001729 Q-loop/lid; other site 374463001730 ABC transporter signature motif; other site 374463001731 Walker B; other site 374463001732 D-loop; other site 374463001733 H-loop/switch region; other site 374463001734 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 374463001735 putative ABC transporter; Region: ycf24; CHL00085 374463001736 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 374463001737 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 374463001738 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 374463001739 putative tRNA-binding site [nucleotide binding]; other site 374463001740 B3/4 domain; Region: B3_4; pfam03483 374463001741 tRNA synthetase B5 domain; Region: B5; smart00874 374463001742 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 374463001743 dimer interface [polypeptide binding]; other site 374463001744 motif 1; other site 374463001745 motif 3; other site 374463001746 motif 2; other site 374463001747 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 374463001748 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 374463001749 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 374463001750 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 374463001751 dimer interface [polypeptide binding]; other site 374463001752 motif 1; other site 374463001753 active site 374463001754 motif 2; other site 374463001755 motif 3; other site 374463001756 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 374463001757 23S rRNA binding site [nucleotide binding]; other site 374463001758 L21 binding site [polypeptide binding]; other site 374463001759 L13 binding site [polypeptide binding]; other site 374463001760 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 374463001761 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 374463001762 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 374463001763 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 374463001764 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 374463001765 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 374463001766 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 374463001767 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 374463001768 active site 374463001769 dimer interface [polypeptide binding]; other site 374463001770 motif 1; other site 374463001771 motif 2; other site 374463001772 motif 3; other site 374463001773 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 374463001774 anticodon binding site; other site 374463001775 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 374463001776 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 374463001777 active site 374463001778 catalytic site [active] 374463001779 substrate binding site [chemical binding]; other site 374463001780 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 374463001781 RNA/DNA hybrid binding site [nucleotide binding]; other site 374463001782 active site 374463001783 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 374463001784 hypothetical protein; Provisional; Region: PRK05421 374463001785 putative catalytic site [active] 374463001786 putative metal binding site [ion binding]; other site 374463001787 putative phosphate binding site [ion binding]; other site 374463001788 putative catalytic site [active] 374463001789 putative phosphate binding site [ion binding]; other site 374463001790 putative metal binding site [ion binding]; other site 374463001791 murein transglycosylase C; Provisional; Region: mltC; PRK11671 374463001792 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 374463001793 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 374463001794 N-acetyl-D-glucosamine binding site [chemical binding]; other site 374463001795 catalytic residue [active] 374463001796 oxidative damage protection protein; Provisional; Region: PRK05408 374463001797 HemN family oxidoreductase; Provisional; Region: PRK05660 374463001798 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 374463001799 FeS/SAM binding site; other site 374463001800 HemN C-terminal domain; Region: HemN_C; pfam06969 374463001801 hypothetical protein; Validated; Region: PRK00228 374463001802 glutathione synthetase; Provisional; Region: PRK05246 374463001803 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 374463001804 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 374463001805 superoxide dismutase; Provisional; Region: PRK10925 374463001806 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 374463001807 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 374463001808 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 374463001809 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 374463001810 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 374463001811 carboxylesterase BioH; Provisional; Region: PRK10349 374463001812 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 374463001813 metal binding site 2 [ion binding]; metal-binding site 374463001814 putative DNA binding helix; other site 374463001815 metal binding site 1 [ion binding]; metal-binding site 374463001816 dimer interface [polypeptide binding]; other site 374463001817 structural Zn2+ binding site [ion binding]; other site 374463001818 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 374463001819 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 374463001820 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 374463001821 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 374463001822 S17 interaction site [polypeptide binding]; other site 374463001823 S8 interaction site; other site 374463001824 16S rRNA interaction site [nucleotide binding]; other site 374463001825 streptomycin interaction site [chemical binding]; other site 374463001826 23S rRNA interaction site [nucleotide binding]; other site 374463001827 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 374463001828 30S ribosomal protein S7; Validated; Region: PRK05302 374463001829 elongation factor G; Reviewed; Region: PRK00007 374463001830 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 374463001831 G1 box; other site 374463001832 putative GEF interaction site [polypeptide binding]; other site 374463001833 GTP/Mg2+ binding site [chemical binding]; other site 374463001834 Switch I region; other site 374463001835 G2 box; other site 374463001836 G3 box; other site 374463001837 Switch II region; other site 374463001838 G4 box; other site 374463001839 G5 box; other site 374463001840 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 374463001841 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 374463001842 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 374463001843 elongation factor Tu; Reviewed; Region: PRK00049 374463001844 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 374463001845 G1 box; other site 374463001846 GEF interaction site [polypeptide binding]; other site 374463001847 GTP/Mg2+ binding site [chemical binding]; other site 374463001848 Switch I region; other site 374463001849 G2 box; other site 374463001850 G3 box; other site 374463001851 Switch II region; other site 374463001852 G4 box; other site 374463001853 G5 box; other site 374463001854 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 374463001855 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 374463001856 Antibiotic Binding Site [chemical binding]; other site 374463001857 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 374463001858 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 374463001859 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 374463001860 putative homodimer interface [polypeptide binding]; other site 374463001861 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 374463001862 heterodimer interface [polypeptide binding]; other site 374463001863 homodimer interface [polypeptide binding]; other site 374463001864 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 374463001865 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 374463001866 23S rRNA interface [nucleotide binding]; other site 374463001867 L7/L12 interface [polypeptide binding]; other site 374463001868 putative thiostrepton binding site; other site 374463001869 L25 interface [polypeptide binding]; other site 374463001870 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 374463001871 mRNA/rRNA interface [nucleotide binding]; other site 374463001872 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 374463001873 23S rRNA interface [nucleotide binding]; other site 374463001874 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 374463001875 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 374463001876 core dimer interface [polypeptide binding]; other site 374463001877 peripheral dimer interface [polypeptide binding]; other site 374463001878 L10 interface [polypeptide binding]; other site 374463001879 L11 interface [polypeptide binding]; other site 374463001880 putative EF-Tu interaction site [polypeptide binding]; other site 374463001881 putative EF-G interaction site [polypeptide binding]; other site 374463001882 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 374463001883 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 374463001884 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 374463001885 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 374463001886 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 374463001887 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 374463001888 RPB1 interaction site [polypeptide binding]; other site 374463001889 RNA polymerase Rpb2, domain 7; Region: RNA_pol_Rpb2_7; pfam04560 374463001890 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 374463001891 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 374463001892 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 374463001893 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 374463001894 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 374463001895 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 374463001896 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 374463001897 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 374463001898 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 374463001899 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 374463001900 DNA binding site [nucleotide binding] 374463001901 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 374463001902 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 374463001903 FAD binding domain; Region: FAD_binding_4; pfam01565 374463001904 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 374463001905 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 374463001906 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 374463001907 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 374463001908 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 374463001909 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 374463001910 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 374463001911 e3 binding domain; Region: E3_binding; pfam02817 374463001912 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 374463001913 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 374463001914 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 374463001915 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 374463001916 dimer interface [polypeptide binding]; other site 374463001917 TPP-binding site [chemical binding]; other site 374463001918 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 374463001919 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 374463001920 dimerization interface [polypeptide binding]; other site 374463001921 active site 374463001922 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 374463001923 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 374463001924 CoA-binding site [chemical binding]; other site 374463001925 ATP-binding [chemical binding]; other site 374463001926 Protein of unknown function (DUF721); Region: DUF721; cl02324 374463001927 cell division protein FtsZ; Validated; Region: PRK09330 374463001928 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 374463001929 nucleotide binding site [chemical binding]; other site 374463001930 SulA interaction site; other site 374463001931 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 374463001932 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374463001933 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374463001934 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374463001935 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 374463001936 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 374463001937 active site 374463001938 homodimer interface [polypeptide binding]; other site 374463001939 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 374463001940 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374463001941 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374463001942 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 374463001943 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 374463001944 Mg++ binding site [ion binding]; other site 374463001945 putative catalytic motif [active] 374463001946 putative substrate binding site [chemical binding]; other site 374463001947 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 374463001948 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374463001949 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374463001950 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374463001951 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 374463001952 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 374463001953 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 374463001954 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 374463001955 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 374463001956 MraW methylase family; Region: Methyltransf_5; cl17771 374463001957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 374463001958 7-cyano-7-deazaguanine reductase; Region: QueF; TIGR03138 374463001959 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 374463001960 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 374463001961 active site 374463001962 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 374463001963 rRNA interaction site [nucleotide binding]; other site 374463001964 S8 interaction site; other site 374463001965 putative laminin-1 binding site; other site 374463001966 elongation factor Ts; Provisional; Region: tsf; PRK09377 374463001967 UBA/TS-N domain; Region: UBA; pfam00627 374463001968 Elongation factor TS; Region: EF_TS; pfam00889 374463001969 Elongation factor TS; Region: EF_TS; pfam00889 374463001970 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 374463001971 putative nucleotide binding site [chemical binding]; other site 374463001972 uridine monophosphate binding site [chemical binding]; other site 374463001973 homohexameric interface [polypeptide binding]; other site 374463001974 ribosome recycling factor; Reviewed; Region: frr; PRK00083 374463001975 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 374463001976 hinge region; other site 374463001977 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 374463001978 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 374463001979 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 374463001980 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 374463001981 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 374463001982 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 374463001983 catalytic residue [active] 374463001984 putative FPP diphosphate binding site; other site 374463001985 putative FPP binding hydrophobic cleft; other site 374463001986 dimer interface [polypeptide binding]; other site 374463001987 putative IPP diphosphate binding site; other site 374463001988 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 374463001989 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 374463001990 zinc metallopeptidase RseP; Provisional; Region: PRK10779 374463001991 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 374463001992 active site 374463001993 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 374463001994 protein binding site [polypeptide binding]; other site 374463001995 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 374463001996 putative substrate binding region [chemical binding]; other site 374463001997 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 374463001998 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374463001999 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374463002000 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374463002001 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 374463002002 Surface antigen; Region: Bac_surface_Ag; pfam01103 374463002003 periplasmic chaperone; Provisional; Region: PRK10780 374463002004 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 374463002005 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 374463002006 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 374463002007 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 374463002008 putative active site [active] 374463002009 putative PHP Thumb interface [polypeptide binding]; other site 374463002010 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 374463002011 generic binding surface II; other site 374463002012 generic binding surface I; other site 374463002013 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 374463002014 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 374463002015 cystathionine beta-lyase; Provisional; Region: PRK08114 374463002016 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 374463002017 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 374463002018 catalytic residue [active] 374463002019 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 374463002020 putative DNA-binding cleft [nucleotide binding]; other site 374463002021 putative DNA clevage site; other site 374463002022 molecular lever; other site 374463002023 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 374463002024 putative active site [active] 374463002025 Ap4A binding site [chemical binding]; other site 374463002026 nudix motif; other site 374463002027 putative metal binding site [ion binding]; other site 374463002028 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 374463002029 thymidylate synthase; Reviewed; Region: thyA; PRK01827 374463002030 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 374463002031 dimerization interface [polypeptide binding]; other site 374463002032 active site 374463002033 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 374463002034 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 374463002035 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 374463002036 Part of AAA domain; Region: AAA_19; pfam13245 374463002037 Family description; Region: UvrD_C_2; pfam13538 374463002038 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 374463002039 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 374463002040 AAA domain; Region: AAA_30; pfam13604 374463002041 Family description; Region: UvrD_C_2; pfam13538 374463002042 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 374463002043 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 374463002044 ligand binding site [chemical binding]; other site 374463002045 flexible hinge region; other site 374463002046 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 374463002047 putative switch regulator; other site 374463002048 non-specific DNA interactions [nucleotide binding]; other site 374463002049 DNA binding site [nucleotide binding] 374463002050 sequence specific DNA binding site [nucleotide binding]; other site 374463002051 putative cAMP binding site [chemical binding]; other site 374463002052 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 374463002053 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 374463002054 glutamine binding [chemical binding]; other site 374463002055 catalytic triad [active] 374463002056 replicative DNA helicase; Provisional; Region: PRK08006 374463002057 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 374463002058 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 374463002059 Walker A motif; other site 374463002060 ATP binding site [chemical binding]; other site 374463002061 Walker B motif; other site 374463002062 DNA binding loops [nucleotide binding] 374463002063 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 374463002064 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 374463002065 nucleotide binding site [chemical binding]; other site 374463002066 chaperone protein DnaJ; Provisional; Region: PRK10767 374463002067 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 374463002068 HSP70 interaction site [polypeptide binding]; other site 374463002069 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 374463002070 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 374463002071 Zn binding sites [ion binding]; other site 374463002072 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 374463002073 dimer interface [polypeptide binding]; other site 374463002074 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 374463002075 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 374463002076 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 374463002077 active site 374463002078 Riboflavin kinase; Region: Flavokinase; smart00904 374463002079 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 374463002080 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 374463002081 active site 374463002082 HIGH motif; other site 374463002083 nucleotide binding site [chemical binding]; other site 374463002084 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 374463002085 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 374463002086 active site 374463002087 KMSKS motif; other site 374463002088 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 374463002089 tRNA binding surface [nucleotide binding]; other site 374463002090 anticodon binding site; other site 374463002091 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 374463002092 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 374463002093 lipoprotein signal peptidase; Provisional; Region: PRK14787 374463002094 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 374463002095 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 374463002096 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 374463002097 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 374463002098 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 374463002099 catalytic site [active] 374463002100 subunit interface [polypeptide binding]; other site 374463002101 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 374463002102 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374463002103 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 374463002104 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 374463002105 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 374463002106 ATP-grasp domain; Region: ATP-grasp_4; cl17255 374463002107 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 374463002108 substrate binding site [chemical binding]; other site 374463002109 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 374463002110 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 374463002111 folate binding site [chemical binding]; other site 374463002112 NADP+ binding site [chemical binding]; other site 374463002113 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 374463002114 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 374463002115 active site 374463002116 metal binding site [ion binding]; metal-binding site 374463002117 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 374463002118 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 374463002119 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 374463002120 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 374463002121 SurA N-terminal domain; Region: SurA_N; pfam09312 374463002122 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 374463002123 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 374463002124 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 374463002125 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 374463002126 hypothetical protein; Validated; Region: PRK01777 374463002127 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 374463002128 SmpB-tmRNA interface; other site 374463002129 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 374463002130 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 374463002131 active site 374463002132 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 374463002133 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 374463002134 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 374463002135 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 374463002136 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 374463002137 dimer interface [polypeptide binding]; other site 374463002138 ssDNA binding site [nucleotide binding]; other site 374463002139 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374463002140 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 374463002141 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 374463002142 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 374463002143 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 374463002144 ribonuclease R; Region: RNase_R; TIGR02063 374463002145 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 374463002146 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 374463002147 RNB domain; Region: RNB; pfam00773 374463002148 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 374463002149 RNA binding site [nucleotide binding]; other site 374463002150 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 374463002151 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 374463002152 GDP-binding site [chemical binding]; other site 374463002153 ACT binding site; other site 374463002154 IMP binding site; other site 374463002155 FtsH protease regulator HflC; Provisional; Region: PRK11029 374463002156 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 374463002157 FtsH protease regulator HflK; Provisional; Region: PRK10930 374463002158 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 374463002159 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 374463002160 GTPase HflX; Provisional; Region: PRK11058 374463002161 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 374463002162 HflX GTPase family; Region: HflX; cd01878 374463002163 G1 box; other site 374463002164 GTP/Mg2+ binding site [chemical binding]; other site 374463002165 Switch I region; other site 374463002166 G2 box; other site 374463002167 G3 box; other site 374463002168 Switch II region; other site 374463002169 G4 box; other site 374463002170 G5 box; other site 374463002171 bacterial Hfq-like; Region: Hfq; cd01716 374463002172 hexamer interface [polypeptide binding]; other site 374463002173 Sm1 motif; other site 374463002174 RNA binding site [nucleotide binding]; other site 374463002175 Sm2 motif; other site 374463002176 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 374463002177 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 374463002178 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 374463002179 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 374463002180 ATP binding site [chemical binding]; other site 374463002181 Mg2+ binding site [ion binding]; other site 374463002182 G-X-G motif; other site 374463002183 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 374463002184 ATP binding site [chemical binding]; other site 374463002185 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 374463002186 AMIN domain; Region: AMIN; pfam11741 374463002187 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 374463002188 active site 374463002189 metal binding site [ion binding]; metal-binding site 374463002190 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 374463002191 catalytic site [active] 374463002192 putative active site [active] 374463002193 putative substrate binding site [chemical binding]; other site 374463002194 dimer interface [polypeptide binding]; other site 374463002195 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 374463002196 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 374463002197 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 374463002198 motif 1; other site 374463002199 dimer interface [polypeptide binding]; other site 374463002200 active site 374463002201 motif 2; other site 374463002202 motif 3; other site 374463002203 translation elongation factor P; Region: efp; TIGR00038 374463002204 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 374463002205 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 374463002206 RNA binding site [nucleotide binding]; other site 374463002207 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 374463002208 RNA binding site [nucleotide binding]; other site 374463002209 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 374463002210 Radical SAM superfamily; Region: Radical_SAM; pfam04055 374463002211 FeS/SAM binding site; other site 374463002212 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 374463002213 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 374463002214 ring oligomerisation interface [polypeptide binding]; other site 374463002215 ATP/Mg binding site [chemical binding]; other site 374463002216 stacking interactions; other site 374463002217 hinge regions; other site 374463002218 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 374463002219 oligomerisation interface [polypeptide binding]; other site 374463002220 mobile loop; other site 374463002221 roof hairpin; other site 374463002222 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 374463002223 Aspartase; Region: Aspartase; cd01357 374463002224 active sites [active] 374463002225 tetramer interface [polypeptide binding]; other site 374463002226 peroxidase; Provisional; Region: PRK15000 374463002227 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 374463002228 dimer interface [polypeptide binding]; other site 374463002229 decamer (pentamer of dimers) interface [polypeptide binding]; other site 374463002230 catalytic triad [active] 374463002231 peroxidatic and resolving cysteines [active] 374463002232 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 374463002233 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 374463002234 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 374463002235 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 374463002236 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 374463002237 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 374463002238 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 374463002239 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374463002240 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 374463002241 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 374463002242 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 374463002243 Protein export membrane protein; Region: SecD_SecF; pfam02355 374463002244 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 374463002245 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 374463002246 catalytic motif [active] 374463002247 Zn binding site [ion binding]; other site 374463002248 RibD C-terminal domain; Region: RibD_C; cl17279 374463002249 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 374463002250 homopentamer interface [polypeptide binding]; other site 374463002251 active site 374463002252 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 374463002253 putative RNA binding site [nucleotide binding]; other site 374463002254 thiamine monophosphate kinase; Provisional; Region: PRK05731 374463002255 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 374463002256 ATP binding site [chemical binding]; other site 374463002257 dimerization interface [polypeptide binding]; other site 374463002258 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 374463002259 tetramer interfaces [polypeptide binding]; other site 374463002260 binuclear metal-binding site [ion binding]; other site 374463002261 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 374463002262 Surface antigen; Region: Bac_surface_Ag; pfam01103 374463002263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 374463002264 Family of unknown function (DUF490); Region: DUF490; pfam04357 374463002265 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 374463002266 dimer interface [polypeptide binding]; other site 374463002267 substrate binding site [chemical binding]; other site 374463002268 metal binding sites [ion binding]; metal-binding site 374463002269 prolyl-tRNA synthetase; Provisional; Region: PRK09194 374463002270 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 374463002271 dimer interface [polypeptide binding]; other site 374463002272 motif 1; other site 374463002273 active site 374463002274 motif 2; other site 374463002275 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 374463002276 putative deacylase active site [active] 374463002277 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 374463002278 active site 374463002279 motif 3; other site 374463002280 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 374463002281 anticodon binding site; other site 374463002282 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 374463002283 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 374463002284 GrpE; Region: GrpE; pfam01025 374463002285 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 374463002286 dimer interface [polypeptide binding]; other site 374463002287 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 374463002288 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 374463002289 ligand binding site [chemical binding]; other site 374463002290 active site 374463002291 UGI interface [polypeptide binding]; other site 374463002292 catalytic site [active] 374463002293 L-aspartate oxidase; Provisional; Region: PRK09077 374463002294 L-aspartate oxidase; Provisional; Region: PRK06175 374463002295 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 374463002296 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 374463002297 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 374463002298 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 374463002299 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 374463002300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 374463002301 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 374463002302 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 374463002303 DNA binding residues [nucleotide binding] 374463002304 DNA primase; Validated; Region: dnaG; PRK05667 374463002305 CHC2 zinc finger; Region: zf-CHC2; pfam01807 374463002306 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 374463002307 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 374463002308 active site 374463002309 metal binding site [ion binding]; metal-binding site 374463002310 interdomain interaction site; other site 374463002311 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 374463002312 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 374463002313 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 374463002314 UGMP family protein; Validated; Region: PRK09604 374463002315 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 374463002316 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 374463002317 homooctamer interface [polypeptide binding]; other site 374463002318 active site 374463002319 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 374463002320 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 374463002321 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 374463002322 active site 374463002323 NTP binding site [chemical binding]; other site 374463002324 metal binding triad [ion binding]; metal-binding site 374463002325 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 374463002326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 374463002327 Zn2+ binding site [ion binding]; other site 374463002328 Mg2+ binding site [ion binding]; other site 374463002329 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 374463002330 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 374463002331 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 374463002332 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 374463002333 putative acyl-acceptor binding pocket; other site 374463002334 DNA polymerase III psi subunit; Region: DNA_III_psi; pfam03603 374463002335 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 374463002336 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 374463002337 ATP binding site [chemical binding]; other site 374463002338 Mg++ binding site [ion binding]; other site 374463002339 motif III; other site 374463002340 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 374463002341 nucleotide binding region [chemical binding]; other site 374463002342 ATP-binding site [chemical binding]; other site 374463002343 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 374463002344 putative RNA binding site [nucleotide binding]; other site 374463002345 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 374463002346 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 374463002347 oligomer interface [polypeptide binding]; other site 374463002348 RNA binding site [nucleotide binding]; other site 374463002349 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 374463002350 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 374463002351 RNase E interface [polypeptide binding]; other site 374463002352 trimer interface [polypeptide binding]; other site 374463002353 active site 374463002354 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 374463002355 putative nucleic acid binding region [nucleotide binding]; other site 374463002356 G-X-X-G motif; other site 374463002357 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 374463002358 RNA binding site [nucleotide binding]; other site 374463002359 domain interface; other site 374463002360 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 374463002361 16S/18S rRNA binding site [nucleotide binding]; other site 374463002362 S13e-L30e interaction site [polypeptide binding]; other site 374463002363 25S rRNA binding site [nucleotide binding]; other site 374463002364 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 374463002365 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 374463002366 RNA binding site [nucleotide binding]; other site 374463002367 active site 374463002368 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 374463002369 Ribosome-binding factor A; Region: RBFA; pfam02033 374463002370 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 374463002371 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 374463002372 translation initiation factor IF-2; Validated; Region: infB; PRK05306 374463002373 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 374463002374 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 374463002375 G1 box; other site 374463002376 putative GEF interaction site [polypeptide binding]; other site 374463002377 GTP/Mg2+ binding site [chemical binding]; other site 374463002378 Switch I region; other site 374463002379 G2 box; other site 374463002380 G3 box; other site 374463002381 Switch II region; other site 374463002382 G4 box; other site 374463002383 G5 box; other site 374463002384 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 374463002385 Translation-initiation factor 2; Region: IF-2; pfam11987 374463002386 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 374463002387 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 374463002388 NusA N-terminal domain; Region: NusA_N; pfam08529 374463002389 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 374463002390 RNA binding site [nucleotide binding]; other site 374463002391 homodimer interface [polypeptide binding]; other site 374463002392 NusA-like KH domain; Region: KH_5; pfam13184 374463002393 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 374463002394 G-X-X-G motif; other site 374463002395 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374463002396 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 374463002397 Preprotein translocase SecG subunit; Region: SecG; pfam03840 374463002398 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 374463002399 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 374463002400 active site 374463002401 substrate binding site [chemical binding]; other site 374463002402 metal binding site [ion binding]; metal-binding site 374463002403 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 374463002404 dihydropteroate synthase; Region: DHPS; TIGR01496 374463002405 substrate binding pocket [chemical binding]; other site 374463002406 dimer interface [polypeptide binding]; other site 374463002407 inhibitor binding site; inhibition site 374463002408 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 374463002409 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 374463002410 Walker A motif; other site 374463002411 ATP binding site [chemical binding]; other site 374463002412 Walker B motif; other site 374463002413 arginine finger; other site 374463002414 Peptidase family M41; Region: Peptidase_M41; pfam01434 374463002415 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 374463002416 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 374463002417 S-adenosylmethionine binding site [chemical binding]; other site 374463002418 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 374463002419 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 374463002420 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 374463002421 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 374463002422 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 374463002423 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 374463002424 GTP1/OBG; Region: GTP1_OBG; pfam01018 374463002425 Obg GTPase; Region: Obg; cd01898 374463002426 G1 box; other site 374463002427 GTP/Mg2+ binding site [chemical binding]; other site 374463002428 Switch I region; other site 374463002429 G2 box; other site 374463002430 G3 box; other site 374463002431 Switch II region; other site 374463002432 G4 box; other site 374463002433 G5 box; other site 374463002434 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 374463002435 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 374463002436 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 374463002437 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 374463002438 Phosphoglycerate kinase; Region: PGK; pfam00162 374463002439 substrate binding site [chemical binding]; other site 374463002440 hinge regions; other site 374463002441 ADP binding site [chemical binding]; other site 374463002442 catalytic site [active] 374463002443 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 374463002444 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 374463002445 active site 374463002446 intersubunit interface [polypeptide binding]; other site 374463002447 zinc binding site [ion binding]; other site 374463002448 Na+ binding site [ion binding]; other site 374463002449 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 374463002450 tetramer (dimer of dimers) interface [polypeptide binding]; other site 374463002451 active site 374463002452 dimer interface [polypeptide binding]; other site 374463002453 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 374463002454 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 374463002455 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 374463002456 dimer interface [polypeptide binding]; other site 374463002457 substrate binding site [chemical binding]; other site 374463002458 ATP binding site [chemical binding]; other site 374463002459 GMP synthase; Reviewed; Region: guaA; PRK00074 374463002460 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 374463002461 AMP/PPi binding site [chemical binding]; other site 374463002462 candidate oxyanion hole; other site 374463002463 catalytic triad [active] 374463002464 potential glutamine specificity residues [chemical binding]; other site 374463002465 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 374463002466 ATP Binding subdomain [chemical binding]; other site 374463002467 Ligand Binding sites [chemical binding]; other site 374463002468 Dimerization subdomain; other site 374463002469 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 374463002470 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 374463002471 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 374463002472 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 374463002473 active site