-- dump date 20140619_025024 -- class Genbank::misc_feature -- table misc_feature_note -- id note 413404000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 413404000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 413404000003 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 413404000004 Walker A motif; other site 413404000005 ATP binding site [chemical binding]; other site 413404000006 Walker B motif; other site 413404000007 arginine finger; other site 413404000008 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 413404000009 DnaA box-binding interface [nucleotide binding]; other site 413404000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 413404000011 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 413404000012 putative DNA binding surface [nucleotide binding]; other site 413404000013 dimer interface [polypeptide binding]; other site 413404000014 beta-clamp/clamp loader binding surface; other site 413404000015 beta-clamp/translesion DNA polymerase binding surface; other site 413404000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 413404000017 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 413404000018 ATP binding site [chemical binding]; other site 413404000019 Mg2+ binding site [ion binding]; other site 413404000020 G-X-G motif; other site 413404000021 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 413404000022 anchoring element; other site 413404000023 dimer interface [polypeptide binding]; other site 413404000024 ATP binding site [chemical binding]; other site 413404000025 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 413404000026 active site 413404000027 putative metal-binding site [ion binding]; other site 413404000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 413404000029 phosphoribulokinase; Provisional; Region: PRK15453 413404000030 active site 413404000031 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 413404000032 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 413404000033 HIGH motif; other site 413404000034 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 413404000035 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404000036 active site 413404000037 KMSKS motif; other site 413404000038 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 413404000039 tRNA binding surface [nucleotide binding]; other site 413404000040 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 413404000041 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 413404000042 heterodimer interface [polypeptide binding]; other site 413404000043 active site 413404000044 FMN binding site [chemical binding]; other site 413404000045 homodimer interface [polypeptide binding]; other site 413404000046 substrate binding site [chemical binding]; other site 413404000047 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 413404000048 AAA domain; Region: AAA_26; pfam13500 413404000049 stringent starvation protein A; Provisional; Region: sspA; PRK09481 413404000050 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 413404000051 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 413404000052 N-terminal domain interface [polypeptide binding]; other site 413404000053 dimer interface [polypeptide binding]; other site 413404000054 substrate binding pocket (H-site) [chemical binding]; other site 413404000055 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 413404000056 cytochrome b; Provisional; Region: CYTB; MTH00145 413404000057 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 413404000058 Qi binding site; other site 413404000059 intrachain domain interface; other site 413404000060 interchain domain interface [polypeptide binding]; other site 413404000061 heme bH binding site [chemical binding]; other site 413404000062 heme bL binding site [chemical binding]; other site 413404000063 Qo binding site; other site 413404000064 interchain domain interface [polypeptide binding]; other site 413404000065 intrachain domain interface; other site 413404000066 Qi binding site; other site 413404000067 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 413404000068 Qo binding site; other site 413404000069 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 413404000070 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 413404000071 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 413404000072 [2Fe-2S] cluster binding site [ion binding]; other site 413404000073 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 413404000074 DEAD/DEAH box helicase; Region: DEAD; pfam00270 413404000075 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 413404000076 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 413404000077 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 413404000078 active site 413404000079 substrate binding pocket [chemical binding]; other site 413404000080 dimer interface [polypeptide binding]; other site 413404000081 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 413404000082 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 413404000083 active site 413404000084 Riboflavin kinase; Region: Flavokinase; smart00904 413404000085 homoserine O-succinyltransferase; Provisional; Region: PRK05368 413404000086 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 413404000087 conserved cys residue [active] 413404000088 AAA domain; Region: AAA_17; pfam13207 413404000089 aminotransferase; Validated; Region: PRK08175 413404000090 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 413404000091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404000092 homodimer interface [polypeptide binding]; other site 413404000093 catalytic residue [active] 413404000094 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 413404000095 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 413404000096 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 413404000097 ATP binding site [chemical binding]; other site 413404000098 active site 413404000099 substrate binding site [chemical binding]; other site 413404000100 putative peptidase; Provisional; Region: PRK11649 413404000101 Peptidase family M23; Region: Peptidase_M23; pfam01551 413404000102 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 413404000103 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 413404000104 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 413404000105 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 413404000106 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 413404000107 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 413404000108 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 413404000109 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 413404000110 catalytic residue [active] 413404000111 putative FPP diphosphate binding site; other site 413404000112 putative FPP binding hydrophobic cleft; other site 413404000113 dimer interface [polypeptide binding]; other site 413404000114 putative IPP diphosphate binding site; other site 413404000115 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 413404000116 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 413404000117 substrate binding site [chemical binding]; other site 413404000118 glutamase interaction surface [polypeptide binding]; other site 413404000119 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 413404000120 UbiA prenyltransferase family; Region: UbiA; pfam01040 413404000121 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 413404000122 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 413404000123 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 413404000124 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 413404000125 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 413404000126 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 413404000127 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 413404000128 Cytochrome c; Region: Cytochrom_C; pfam00034 413404000129 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 413404000130 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 413404000131 Subunit I/III interface [polypeptide binding]; other site 413404000132 D-pathway; other site 413404000133 Subunit I/VIIc interface [polypeptide binding]; other site 413404000134 Subunit I/IV interface [polypeptide binding]; other site 413404000135 Subunit I/II interface [polypeptide binding]; other site 413404000136 Low-spin heme (heme a) binding site [chemical binding]; other site 413404000137 Subunit I/VIIa interface [polypeptide binding]; other site 413404000138 Subunit I/VIa interface [polypeptide binding]; other site 413404000139 Dimer interface; other site 413404000140 Putative water exit pathway; other site 413404000141 Binuclear center (heme a3/CuB) [ion binding]; other site 413404000142 K-pathway; other site 413404000143 Subunit I/Vb interface [polypeptide binding]; other site 413404000144 Putative proton exit pathway; other site 413404000145 Subunit I/VIb interface; other site 413404000146 Subunit I/VIc interface [polypeptide binding]; other site 413404000147 Electron transfer pathway; other site 413404000148 Subunit I/VIIIb interface [polypeptide binding]; other site 413404000149 Subunit I/VIIb interface [polypeptide binding]; other site 413404000150 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 413404000151 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 413404000152 Subunit III/VIIa interface [polypeptide binding]; other site 413404000153 Phospholipid binding site [chemical binding]; other site 413404000154 Subunit I/III interface [polypeptide binding]; other site 413404000155 Subunit III/VIb interface [polypeptide binding]; other site 413404000156 Subunit III/VIa interface; other site 413404000157 Subunit III/Vb interface [polypeptide binding]; other site 413404000158 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 413404000159 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 413404000160 Low-spin heme binding site [chemical binding]; other site 413404000161 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 413404000162 D-pathway; other site 413404000163 Putative water exit pathway; other site 413404000164 Binuclear center (active site) [active] 413404000165 K-pathway; other site 413404000166 Putative proton exit pathway; other site 413404000167 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 413404000168 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 413404000169 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 413404000170 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 413404000171 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 413404000172 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 413404000173 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 413404000174 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 413404000175 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 413404000176 thioredoxin reductase; Provisional; Region: PRK10262 413404000177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 413404000178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 413404000179 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 413404000180 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 413404000181 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 413404000182 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 413404000183 Transglycosylase SLT domain; Region: SLT_2; pfam13406 413404000184 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 413404000185 N-acetyl-D-glucosamine binding site [chemical binding]; other site 413404000186 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 413404000187 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 413404000188 ApbE family; Region: ApbE; pfam02424 413404000189 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 413404000190 glutathione synthetase; Provisional; Region: PRK05246 413404000191 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 413404000192 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 413404000193 ribosome maturation protein RimP; Reviewed; Region: PRK00092 413404000194 Sm and related proteins; Region: Sm_like; cl00259 413404000195 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 413404000196 putative oligomer interface [polypeptide binding]; other site 413404000197 putative RNA binding site [nucleotide binding]; other site 413404000198 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 413404000199 NusA N-terminal domain; Region: NusA_N; pfam08529 413404000200 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 413404000201 RNA binding site [nucleotide binding]; other site 413404000202 homodimer interface [polypeptide binding]; other site 413404000203 NusA-like KH domain; Region: KH_5; pfam13184 413404000204 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 413404000205 G-X-X-G motif; other site 413404000206 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 413404000207 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 413404000208 translation initiation factor IF-2; Validated; Region: infB; PRK05306 413404000209 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 413404000210 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 413404000211 G1 box; other site 413404000212 putative GEF interaction site [polypeptide binding]; other site 413404000213 GTP/Mg2+ binding site [chemical binding]; other site 413404000214 Switch I region; other site 413404000215 G2 box; other site 413404000216 G3 box; other site 413404000217 Switch II region; other site 413404000218 G4 box; other site 413404000219 G5 box; other site 413404000220 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 413404000221 Translation-initiation factor 2; Region: IF-2; pfam11987 413404000222 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 413404000223 Ribosome-binding factor A; Region: RBFA; pfam02033 413404000224 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 413404000225 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 413404000226 RNA binding site [nucleotide binding]; other site 413404000227 active site 413404000228 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 413404000229 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 413404000230 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 413404000231 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 413404000232 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 413404000233 outer membrane lipoprotein; Provisional; Region: PRK11023 413404000234 Predicted methyltransferases [General function prediction only]; Region: COG0313 413404000235 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 413404000236 putative SAM binding site [chemical binding]; other site 413404000237 putative homodimer interface [polypeptide binding]; other site 413404000238 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 413404000239 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 413404000240 CoA-binding site [chemical binding]; other site 413404000241 ATP-binding [chemical binding]; other site 413404000242 transketolase; Reviewed; Region: PRK12753 413404000243 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 413404000244 TPP-binding site [chemical binding]; other site 413404000245 dimer interface [polypeptide binding]; other site 413404000246 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 413404000247 PYR/PP interface [polypeptide binding]; other site 413404000248 dimer interface [polypeptide binding]; other site 413404000249 TPP binding site [chemical binding]; other site 413404000250 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 413404000251 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 413404000252 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 413404000253 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 413404000254 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 413404000255 Phosphoglycerate kinase; Region: PGK; pfam00162 413404000256 substrate binding site [chemical binding]; other site 413404000257 hinge regions; other site 413404000258 ADP binding site [chemical binding]; other site 413404000259 catalytic site [active] 413404000260 pyruvate kinase; Provisional; Region: PRK05826 413404000261 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 413404000262 domain interfaces; other site 413404000263 active site 413404000264 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 413404000265 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 413404000266 intersubunit interface [polypeptide binding]; other site 413404000267 active site 413404000268 zinc binding site [ion binding]; other site 413404000269 Na+ binding site [ion binding]; other site 413404000270 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 413404000271 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 413404000272 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 413404000273 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 413404000274 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 413404000275 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 413404000276 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 413404000277 active site 413404000278 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 413404000279 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 413404000280 RNA binding surface [nucleotide binding]; other site 413404000281 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 413404000282 active site 413404000283 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 413404000284 UbiA prenyltransferase family; Region: UbiA; pfam01040 413404000285 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 413404000286 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 413404000287 trimer interface [polypeptide binding]; other site 413404000288 active site 413404000289 substrate binding site [chemical binding]; other site 413404000290 CoA binding site [chemical binding]; other site 413404000291 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 413404000292 4Fe-4S binding domain; Region: Fer4_5; pfam12801 413404000293 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 413404000294 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 413404000295 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 413404000296 FixH; Region: FixH; pfam05751 413404000297 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 413404000298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404000299 Walker A/P-loop; other site 413404000300 ATP binding site [chemical binding]; other site 413404000301 Q-loop/lid; other site 413404000302 ABC transporter signature motif; other site 413404000303 Walker B; other site 413404000304 D-loop; other site 413404000305 H-loop/switch region; other site 413404000306 DNA polymerase I; Provisional; Region: PRK05755 413404000307 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 413404000308 active site 413404000309 metal binding site 1 [ion binding]; metal-binding site 413404000310 putative 5' ssDNA interaction site; other site 413404000311 metal binding site 3; metal-binding site 413404000312 metal binding site 2 [ion binding]; metal-binding site 413404000313 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 413404000314 putative DNA binding site [nucleotide binding]; other site 413404000315 putative metal binding site [ion binding]; other site 413404000316 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 413404000317 active site 413404000318 catalytic site [active] 413404000319 substrate binding site [chemical binding]; other site 413404000320 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 413404000321 active site 413404000322 DNA binding site [nucleotide binding] 413404000323 catalytic site [active] 413404000324 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 413404000325 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 413404000326 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 413404000327 active site 413404000328 HIGH motif; other site 413404000329 KMSK motif region; other site 413404000330 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 413404000331 tRNA binding surface [nucleotide binding]; other site 413404000332 anticodon binding site; other site 413404000333 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 413404000334 Part of AAA domain; Region: AAA_19; pfam13245 413404000335 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 413404000336 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 413404000337 thiamine phosphate binding site [chemical binding]; other site 413404000338 active site 413404000339 pyrophosphate binding site [ion binding]; other site 413404000340 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 413404000341 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 413404000342 OstA-like protein; Region: OstA; pfam03968 413404000343 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 413404000344 ATP-sulfurylase; Region: ATPS; cd00517 413404000345 active site 413404000346 HXXH motif; other site 413404000347 flexible loop; other site 413404000348 adenosine phosphosulphate reductase, beta subunit; Region: aprB; TIGR02060 413404000349 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 413404000350 Adenosine-5'-phosphosulfate reductase beta subunit; Region: APS-reductase_C; pfam12139 413404000351 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 413404000352 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 413404000353 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10737 413404000354 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 413404000355 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 413404000356 adenylate kinase; Reviewed; Region: adk; PRK00279 413404000357 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 413404000358 AMP-binding site [chemical binding]; other site 413404000359 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 413404000360 6-phosphofructokinase; Provisional; Region: PRK14072 413404000361 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 413404000362 active site 413404000363 ADP/pyrophosphate binding site [chemical binding]; other site 413404000364 dimerization interface [polypeptide binding]; other site 413404000365 allosteric effector site; other site 413404000366 fructose-1,6-bisphosphate binding site; other site 413404000367 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 413404000368 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 413404000369 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 413404000370 active site 413404000371 HIGH motif; other site 413404000372 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 413404000373 KMSKS motif; other site 413404000374 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 413404000375 tRNA binding surface [nucleotide binding]; other site 413404000376 anticodon binding site; other site 413404000377 peroxidase; Provisional; Region: PRK15000 413404000378 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 413404000379 dimer interface [polypeptide binding]; other site 413404000380 decamer (pentamer of dimers) interface [polypeptide binding]; other site 413404000381 catalytic triad [active] 413404000382 peroxidatic and resolving cysteines [active] 413404000383 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 413404000384 tartrate dehydrogenase; Region: TTC; TIGR02089 413404000385 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 413404000386 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 413404000387 dimer interface [polypeptide binding]; other site 413404000388 ADP-ribose binding site [chemical binding]; other site 413404000389 active site 413404000390 nudix motif; other site 413404000391 metal binding site [ion binding]; metal-binding site 413404000392 diaminopimelate decarboxylase; Region: lysA; TIGR01048 413404000393 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 413404000394 active site 413404000395 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 413404000396 substrate binding site [chemical binding]; other site 413404000397 catalytic residues [active] 413404000398 dimer interface [polypeptide binding]; other site 413404000399 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; pfam01985 413404000400 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 413404000401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 413404000402 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 413404000403 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 413404000404 dimerization interface [polypeptide binding]; other site 413404000405 active site 413404000406 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 413404000407 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 413404000408 active site 413404000409 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 413404000410 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 413404000411 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 413404000412 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 413404000413 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 413404000414 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 413404000415 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 413404000416 DNA binding residues [nucleotide binding] 413404000417 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 413404000418 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 413404000419 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 413404000420 active site 413404000421 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 413404000422 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 413404000423 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 413404000424 catalytic site [active] 413404000425 putative active site [active] 413404000426 putative substrate binding site [chemical binding]; other site 413404000427 dimer interface [polypeptide binding]; other site 413404000428 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 413404000429 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 413404000430 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 413404000431 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 413404000432 proline aminopeptidase P II; Provisional; Region: PRK10879 413404000433 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 413404000434 active site 413404000435 pyrroline-5-carboxylate reductase; Region: PLN02688 413404000436 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 413404000437 phosphoglycolate phosphatase; Provisional; Region: PRK13222 413404000438 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 413404000439 motif II; other site 413404000440 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 413404000441 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 413404000442 inhibitor-cofactor binding pocket; inhibition site 413404000443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404000444 catalytic residue [active] 413404000445 primosome assembly protein PriA; Validated; Region: PRK05580 413404000446 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 413404000447 ATP binding site [chemical binding]; other site 413404000448 putative Mg++ binding site [ion binding]; other site 413404000449 helicase superfamily c-terminal domain; Region: HELICc; smart00490 413404000450 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 413404000451 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 413404000452 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 413404000453 Ligand Binding Site [chemical binding]; other site 413404000454 TilS substrate binding domain; Region: TilS; pfam09179 413404000455 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 413404000456 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 413404000457 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 413404000458 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 413404000459 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 413404000460 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 413404000461 BolA-like protein; Region: BolA; pfam01722 413404000462 helicase 45; Provisional; Region: PTZ00424 413404000463 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 413404000464 ATP binding site [chemical binding]; other site 413404000465 Mg++ binding site [ion binding]; other site 413404000466 motif III; other site 413404000467 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 413404000468 nucleotide binding region [chemical binding]; other site 413404000469 ATP-binding site [chemical binding]; other site 413404000470 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 413404000471 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 413404000472 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 413404000473 active site 413404000474 HIGH motif; other site 413404000475 dimer interface [polypeptide binding]; other site 413404000476 KMSKS motif; other site 413404000477 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 413404000478 RNA binding surface [nucleotide binding]; other site 413404000479 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 413404000480 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 413404000481 putative catalytic cysteine [active] 413404000482 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 413404000483 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 413404000484 Lipopolysaccharide-assembly; Region: LptE; cl01125 413404000485 FtsH Extracellular; Region: FtsH_ext; pfam06480 413404000486 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 413404000487 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 413404000488 Walker A motif; other site 413404000489 ATP binding site [chemical binding]; other site 413404000490 Walker B motif; other site 413404000491 arginine finger; other site 413404000492 Peptidase family M41; Region: Peptidase_M41; pfam01434 413404000493 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 413404000494 dihydropteroate synthase; Region: DHPS; TIGR01496 413404000495 substrate binding pocket [chemical binding]; other site 413404000496 dimer interface [polypeptide binding]; other site 413404000497 inhibitor binding site; inhibition site 413404000498 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 413404000499 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 413404000500 active site 413404000501 substrate binding site [chemical binding]; other site 413404000502 metal binding site [ion binding]; metal-binding site 413404000503 electron transport complex protein RsxA; Provisional; Region: PRK05151 413404000504 ferredoxin; Provisional; Region: PRK08764 413404000505 Putative Fe-S cluster; Region: FeS; pfam04060 413404000506 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 413404000507 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 413404000508 SLBB domain; Region: SLBB; pfam10531 413404000509 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 413404000510 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 413404000511 FMN-binding domain; Region: FMN_bind; cl01081 413404000512 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 413404000513 CoA binding domain; Region: CoA_binding; smart00881 413404000514 CoA-ligase; Region: Ligase_CoA; pfam00549 413404000515 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 413404000516 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 413404000517 Protein of unknown function (DUF3826); Region: DUF3826; pfam12875 413404000518 CoA-ligase; Region: Ligase_CoA; pfam00549 413404000519 elongation factor P; Validated; Region: PRK00529 413404000520 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 413404000521 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 413404000522 RNA binding site [nucleotide binding]; other site 413404000523 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 413404000524 RNA binding site [nucleotide binding]; other site 413404000525 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 413404000526 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 413404000527 motif 1; other site 413404000528 dimer interface [polypeptide binding]; other site 413404000529 active site 413404000530 motif 2; other site 413404000531 motif 3; other site 413404000532 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 413404000533 Sel1-like repeats; Region: SEL1; smart00671 413404000534 Sel1-like repeats; Region: SEL1; smart00671 413404000535 Sel1-like repeats; Region: SEL1; smart00671 413404000536 Sel1-like repeats; Region: SEL1; smart00671 413404000537 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 413404000538 Sel1-like repeats; Region: SEL1; smart00671 413404000539 argininosuccinate synthase; Provisional; Region: PRK13820 413404000540 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 413404000541 ANP binding site [chemical binding]; other site 413404000542 Substrate Binding Site II [chemical binding]; other site 413404000543 Substrate Binding Site I [chemical binding]; other site 413404000544 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 413404000545 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 413404000546 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 413404000547 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 413404000548 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 413404000549 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 413404000550 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 413404000551 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 413404000552 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 413404000553 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 413404000554 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 413404000555 active site 413404000556 metal binding site [ion binding]; metal-binding site 413404000557 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 413404000558 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 413404000559 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 413404000560 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 413404000561 putative active site [active] 413404000562 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 413404000563 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 413404000564 Low molecular weight phosphatase family; Region: LMWPc; cd00115 413404000565 active site 413404000566 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 413404000567 S17 interaction site [polypeptide binding]; other site 413404000568 S8 interaction site; other site 413404000569 16S rRNA interaction site [nucleotide binding]; other site 413404000570 streptomycin interaction site [chemical binding]; other site 413404000571 23S rRNA interaction site [nucleotide binding]; other site 413404000572 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 413404000573 30S ribosomal protein S7; Validated; Region: PRK05302 413404000574 elongation factor G; Reviewed; Region: PRK00007 413404000575 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 413404000576 G1 box; other site 413404000577 putative GEF interaction site [polypeptide binding]; other site 413404000578 GTP/Mg2+ binding site [chemical binding]; other site 413404000579 Switch I region; other site 413404000580 G2 box; other site 413404000581 G3 box; other site 413404000582 Switch II region; other site 413404000583 G4 box; other site 413404000584 G5 box; other site 413404000585 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 413404000586 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 413404000587 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 413404000588 elongation factor Tu; Reviewed; Region: PRK00049 413404000589 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 413404000590 G1 box; other site 413404000591 GEF interaction site [polypeptide binding]; other site 413404000592 GTP/Mg2+ binding site [chemical binding]; other site 413404000593 Switch I region; other site 413404000594 G2 box; other site 413404000595 G3 box; other site 413404000596 Switch II region; other site 413404000597 G4 box; other site 413404000598 G5 box; other site 413404000599 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 413404000600 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 413404000601 Antibiotic Binding Site [chemical binding]; other site 413404000602 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 413404000603 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 413404000604 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 413404000605 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 413404000606 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 413404000607 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 413404000608 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 413404000609 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 413404000610 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 413404000611 putative translocon binding site; other site 413404000612 protein-rRNA interface [nucleotide binding]; other site 413404000613 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 413404000614 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 413404000615 G-X-X-G motif; other site 413404000616 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 413404000617 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 413404000618 23S rRNA interface [nucleotide binding]; other site 413404000619 5S rRNA interface [nucleotide binding]; other site 413404000620 putative antibiotic binding site [chemical binding]; other site 413404000621 L25 interface [polypeptide binding]; other site 413404000622 L27 interface [polypeptide binding]; other site 413404000623 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 413404000624 23S rRNA interface [nucleotide binding]; other site 413404000625 putative translocon interaction site; other site 413404000626 signal recognition particle (SRP54) interaction site; other site 413404000627 L23 interface [polypeptide binding]; other site 413404000628 trigger factor interaction site; other site 413404000629 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 413404000630 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 413404000631 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 413404000632 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 413404000633 RNA binding site [nucleotide binding]; other site 413404000634 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 413404000635 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 413404000636 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 413404000637 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 413404000638 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 413404000639 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 413404000640 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 413404000641 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 413404000642 5S rRNA interface [nucleotide binding]; other site 413404000643 23S rRNA interface [nucleotide binding]; other site 413404000644 L5 interface [polypeptide binding]; other site 413404000645 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 413404000646 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 413404000647 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 413404000648 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 413404000649 23S rRNA binding site [nucleotide binding]; other site 413404000650 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 413404000651 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 413404000652 SecY translocase; Region: SecY; pfam00344 413404000653 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 413404000654 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 413404000655 30S ribosomal protein S13; Region: bact_S13; TIGR03631 413404000656 30S ribosomal protein S11; Validated; Region: PRK05309 413404000657 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 413404000658 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 413404000659 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 413404000660 RNA binding surface [nucleotide binding]; other site 413404000661 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 413404000662 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 413404000663 alphaNTD homodimer interface [polypeptide binding]; other site 413404000664 alphaNTD - beta interaction site [polypeptide binding]; other site 413404000665 alphaNTD - beta' interaction site [polypeptide binding]; other site 413404000666 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 413404000667 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 413404000668 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 413404000669 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 413404000670 SelR domain; Region: SelR; pfam01641 413404000671 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 413404000672 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 413404000673 active site 413404000674 NTP binding site [chemical binding]; other site 413404000675 metal binding triad [ion binding]; metal-binding site 413404000676 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 413404000677 probable DNA repair protein; Region: TIGR03623 413404000678 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 413404000679 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 413404000680 G1 box; other site 413404000681 GTP/Mg2+ binding site [chemical binding]; other site 413404000682 Switch I region; other site 413404000683 G2 box; other site 413404000684 G3 box; other site 413404000685 Switch II region; other site 413404000686 G4 box; other site 413404000687 G5 box; other site 413404000688 Cytochrome c; Region: Cytochrom_C; cl11414 413404000689 Cytochrome c; Region: Cytochrom_C; cl11414 413404000690 Cytochrome c553 [Energy production and conversion]; Region: COG2863 413404000691 Cytochrome c; Region: Cytochrom_C; cl11414 413404000692 trigger factor; Provisional; Region: tig; PRK01490 413404000693 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 413404000694 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 413404000695 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 413404000696 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 413404000697 oligomer interface [polypeptide binding]; other site 413404000698 active site residues [active] 413404000699 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 413404000700 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 413404000701 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 413404000702 Walker A motif; other site 413404000703 ATP binding site [chemical binding]; other site 413404000704 Walker B motif; other site 413404000705 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 413404000706 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 413404000707 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 413404000708 HflX GTPase family; Region: HflX; cd01878 413404000709 G1 box; other site 413404000710 GTP/Mg2+ binding site [chemical binding]; other site 413404000711 Switch I region; other site 413404000712 G2 box; other site 413404000713 G3 box; other site 413404000714 Switch II region; other site 413404000715 G4 box; other site 413404000716 G5 box; other site 413404000717 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 413404000718 Found in ATP-dependent protease La (LON); Region: LON; smart00464 413404000719 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 413404000720 Walker A motif; other site 413404000721 ATP binding site [chemical binding]; other site 413404000722 Walker B motif; other site 413404000723 arginine finger; other site 413404000724 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 413404000725 NusB family; Region: NusB; pfam01029 413404000726 16S rRNA methyltransferase B; Provisional; Region: PRK10901 413404000727 putative RNA binding site [nucleotide binding]; other site 413404000728 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 413404000729 S-adenosylmethionine binding site [chemical binding]; other site 413404000730 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 413404000731 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 413404000732 dimerization domain [polypeptide binding]; other site 413404000733 dimer interface [polypeptide binding]; other site 413404000734 catalytic residues [active] 413404000735 multifunctional aminopeptidase A; Provisional; Region: PRK00913 413404000736 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 413404000737 interface (dimer of trimers) [polypeptide binding]; other site 413404000738 Substrate-binding/catalytic site; other site 413404000739 Zn-binding sites [ion binding]; other site 413404000740 Domain of unknown function DUF302; Region: DUF302; pfam03625 413404000741 FOG: CBS domain [General function prediction only]; Region: COG0517 413404000742 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_17; cd04630 413404000743 Nitrogen regulatory protein P-II; Region: P-II; smart00938 413404000744 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 413404000745 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 413404000746 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 413404000747 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 413404000748 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404000749 catalytic residue [active] 413404000750 thymidylate kinase; Validated; Region: tmk; PRK00698 413404000751 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 413404000752 TMP-binding site; other site 413404000753 ATP-binding site [chemical binding]; other site 413404000754 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 413404000755 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 413404000756 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 413404000757 inhibitor-cofactor binding pocket; inhibition site 413404000758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404000759 catalytic residue [active] 413404000760 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 413404000761 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 413404000762 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 413404000763 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 413404000764 CPxP motif; other site 413404000765 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 413404000766 tetramer (dimer of dimers) interface [polypeptide binding]; other site 413404000767 active site 413404000768 dimer interface [polypeptide binding]; other site 413404000769 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 413404000770 active site 413404000771 dimerization interface [polypeptide binding]; other site 413404000772 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 413404000773 feedback inhibition sensing region; other site 413404000774 homohexameric interface [polypeptide binding]; other site 413404000775 nucleotide binding site [chemical binding]; other site 413404000776 N-acetyl-L-glutamate binding site [chemical binding]; other site 413404000777 2-polyprenylphenol hydroxylase and related flavodoxin oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiB; COG0543 413404000778 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 413404000779 FAD binding pocket [chemical binding]; other site 413404000780 FAD binding motif [chemical binding]; other site 413404000781 phosphate binding motif [ion binding]; other site 413404000782 beta-alpha-beta structure motif; other site 413404000783 NAD binding pocket [chemical binding]; other site 413404000784 Iron coordination center [ion binding]; other site 413404000785 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 413404000786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 413404000787 catalytic residue [active] 413404000788 Protein of unknown function; Region: DUF3971; pfam13116 413404000789 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 413404000790 protease TldD; Provisional; Region: tldD; PRK10735 413404000791 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 413404000792 NADH dehydrogenase subunit B; Validated; Region: PRK06411 413404000793 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 413404000794 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 413404000795 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 413404000796 NADH dehydrogenase subunit D; Validated; Region: PRK06075 413404000797 NADH dehydrogenase subunit E; Validated; Region: PRK07539 413404000798 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 413404000799 putative dimer interface [polypeptide binding]; other site 413404000800 [2Fe-2S] cluster binding site [ion binding]; other site 413404000801 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 413404000802 SLBB domain; Region: SLBB; pfam10531 413404000803 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 413404000804 NADH dehydrogenase subunit G; Validated; Region: PRK09129 413404000805 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 413404000806 catalytic loop [active] 413404000807 iron binding site [ion binding]; other site 413404000808 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 413404000809 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 413404000810 molybdopterin cofactor binding site; other site 413404000811 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 413404000812 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 413404000813 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 413404000814 4Fe-4S binding domain; Region: Fer4; pfam00037 413404000815 4Fe-4S binding domain; Region: Fer4; pfam00037 413404000816 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 413404000817 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 413404000818 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 413404000819 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 413404000820 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 413404000821 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 413404000822 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 413404000823 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 413404000824 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 413404000825 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 413404000826 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 413404000827 Bacterial Ig-like domain; Region: Big_5; pfam13205 413404000828 Bacterial Ig-like domain; Region: Big_5; pfam13205 413404000829 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 413404000830 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 413404000831 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 413404000832 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 413404000833 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404000834 Walker A/P-loop; other site 413404000835 ATP binding site [chemical binding]; other site 413404000836 Q-loop/lid; other site 413404000837 ABC transporter signature motif; other site 413404000838 Walker B; other site 413404000839 D-loop; other site 413404000840 H-loop/switch region; other site 413404000841 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 413404000842 Peptidase family M23; Region: Peptidase_M23; pfam01551 413404000843 HlyD family secretion protein; Region: HlyD_3; pfam13437 413404000844 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 413404000845 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 413404000846 S-adenosylmethionine binding site [chemical binding]; other site 413404000847 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 413404000848 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 413404000849 intersubunit interface [polypeptide binding]; other site 413404000850 Methyltransferase domain; Region: Methyltransf_23; pfam13489 413404000851 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 413404000852 S-adenosylmethionine binding site [chemical binding]; other site 413404000853 ribosome recycling factor; Reviewed; Region: frr; PRK00083 413404000854 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 413404000855 hinge region; other site 413404000856 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 413404000857 putative nucleotide binding site [chemical binding]; other site 413404000858 uridine monophosphate binding site [chemical binding]; other site 413404000859 homohexameric interface [polypeptide binding]; other site 413404000860 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 413404000861 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 413404000862 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 413404000863 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 413404000864 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 413404000865 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 413404000866 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 413404000867 active site 413404000868 substrate binding site [chemical binding]; other site 413404000869 cosubstrate binding site; other site 413404000870 catalytic site [active] 413404000871 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 413404000872 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 413404000873 dimerization interface [polypeptide binding]; other site 413404000874 putative ATP binding site [chemical binding]; other site 413404000875 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 413404000876 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 413404000877 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 413404000878 Walker A motif; other site 413404000879 ATP binding site [chemical binding]; other site 413404000880 Walker B motif; other site 413404000881 arginine finger; other site 413404000882 siroheme synthase; Provisional; Region: cysG; PRK10637 413404000883 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 413404000884 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 413404000885 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 413404000886 active site 413404000887 SAM binding site [chemical binding]; other site 413404000888 homodimer interface [polypeptide binding]; other site 413404000889 phosphoserine phosphatase SerB; Region: serB; TIGR00338 413404000890 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 413404000891 motif II; other site 413404000892 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 413404000893 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 413404000894 TPR repeat; Region: TPR_11; pfam13414 413404000895 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 413404000896 binding surface 413404000897 TPR motif; other site 413404000898 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 413404000899 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 413404000900 metal binding site [ion binding]; metal-binding site 413404000901 dimer interface [polypeptide binding]; other site 413404000902 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 413404000903 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 413404000904 Nitrogen regulatory protein P-II; Region: P-II; smart00938 413404000905 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 413404000906 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 413404000907 dihydrodipicolinate synthase; Region: dapA; TIGR00674 413404000908 dimer interface [polypeptide binding]; other site 413404000909 active site 413404000910 catalytic residue [active] 413404000911 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 413404000912 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; cl03295 413404000913 DNA ligase, NAD-dependent; Region: dnlj; TIGR00575 413404000914 nucleotide binding pocket [chemical binding]; other site 413404000915 K-X-D-G motif; other site 413404000916 catalytic site [active] 413404000917 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 413404000918 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 413404000919 Dimer interface [polypeptide binding]; other site 413404000920 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 413404000921 Nitrogen regulatory protein P-II; Region: P-II; smart00938 413404000922 FOG: CBS domain [General function prediction only]; Region: COG0517 413404000923 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 413404000924 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 413404000925 phosphorylation site [posttranslational modification] 413404000926 intermolecular recognition site; other site 413404000927 ANTAR domain; Region: ANTAR; pfam03861 413404000928 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 413404000929 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 413404000930 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 413404000931 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 413404000932 metal binding site [ion binding]; metal-binding site 413404000933 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 413404000934 glutathione reductase; Validated; Region: PRK06116 413404000935 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 413404000936 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 413404000937 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 413404000938 peptide chain release factor 2; Validated; Region: prfB; PRK00578 413404000939 This domain is found in peptide chain release factors; Region: PCRF; smart00937 413404000940 RF-1 domain; Region: RF-1; pfam00472 413404000941 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 413404000942 16S/18S rRNA binding site [nucleotide binding]; other site 413404000943 S13e-L30e interaction site [polypeptide binding]; other site 413404000944 25S rRNA binding site [nucleotide binding]; other site 413404000945 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 413404000946 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 413404000947 putative acyl-acceptor binding pocket; other site 413404000948 DNA primase; Validated; Region: dnaG; PRK05667 413404000949 CHC2 zinc finger; Region: zf-CHC2; pfam01807 413404000950 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 413404000951 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 413404000952 active site 413404000953 metal binding site [ion binding]; metal-binding site 413404000954 interdomain interaction site; other site 413404000955 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 413404000956 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 413404000957 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 413404000958 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 413404000959 Cell division protein FtsL; Region: FtsL; cl11433 413404000960 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 413404000961 MraW methylase family; Region: Methyltransf_5; cl17771 413404000962 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 413404000963 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 413404000964 CAP-like domain; other site 413404000965 active site 413404000966 primary dimer interface [polypeptide binding]; other site 413404000967 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 413404000968 active site 413404000969 putative GTP cyclohydrolase; Provisional; Region: PRK13674 413404000970 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 413404000971 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 413404000972 DNA gyrase subunit A; Validated; Region: PRK05560 413404000973 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 413404000974 CAP-like domain; other site 413404000975 active site 413404000976 primary dimer interface [polypeptide binding]; other site 413404000977 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000978 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000979 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000980 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000981 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000982 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 413404000983 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 413404000984 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 413404000985 G1 box; other site 413404000986 putative GEF interaction site [polypeptide binding]; other site 413404000987 GTP/Mg2+ binding site [chemical binding]; other site 413404000988 Switch I region; other site 413404000989 G2 box; other site 413404000990 G3 box; other site 413404000991 Switch II region; other site 413404000992 G4 box; other site 413404000993 G5 box; other site 413404000994 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 413404000995 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 413404000996 active site 413404000997 Zn binding site [ion binding]; other site 413404000998 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 413404000999 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 413404001000 Mg++ binding site [ion binding]; other site 413404001001 putative catalytic motif [active] 413404001002 putative substrate binding site [chemical binding]; other site 413404001003 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 413404001004 active site 413404001005 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 413404001006 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 413404001007 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 413404001008 homodimer interface [polypeptide binding]; other site 413404001009 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404001010 catalytic residue [active] 413404001011 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 413404001012 FAD binding domain; Region: FAD_binding_4; pfam01565 413404001013 FAD binding domain; Region: FAD_binding_4; pfam01565 413404001014 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 413404001015 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 413404001016 Cysteine-rich domain; Region: CCG; pfam02754 413404001017 Cysteine-rich domain; Region: CCG; pfam02754 413404001018 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 413404001019 active site residue [active] 413404001020 muropeptide transporter; Reviewed; Region: ampG; PRK11902 413404001021 muropeptide transporter; Validated; Region: ampG; cl17669 413404001022 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 413404001023 beta-hexosaminidase; Provisional; Region: PRK05337 413404001024 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 413404001025 Part of AAA domain; Region: AAA_19; pfam13245 413404001026 Family description; Region: UvrD_C_2; pfam13538 413404001027 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 413404001028 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 413404001029 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 413404001030 catalytic residues [active] 413404001031 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 413404001032 ArsC family; Region: ArsC; pfam03960 413404001033 catalytic residues [active] 413404001034 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 413404001035 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 413404001036 C-terminal domain interface [polypeptide binding]; other site 413404001037 GSH binding site (G-site) [chemical binding]; other site 413404001038 dimer interface [polypeptide binding]; other site 413404001039 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 413404001040 N-terminal domain interface [polypeptide binding]; other site 413404001041 dimer interface [polypeptide binding]; other site 413404001042 substrate binding pocket (H-site) [chemical binding]; other site 413404001043 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 413404001044 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 413404001045 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 413404001046 active site 413404001047 (T/H)XGH motif; other site 413404001048 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 413404001049 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 413404001050 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 413404001051 RNA binding surface [nucleotide binding]; other site 413404001052 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 413404001053 active site 413404001054 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 413404001055 Catalytic site [active] 413404001056 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 413404001057 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 413404001058 DNA binding site [nucleotide binding] 413404001059 catalytic residue [active] 413404001060 H2TH interface [polypeptide binding]; other site 413404001061 putative catalytic residues [active] 413404001062 turnover-facilitating residue; other site 413404001063 intercalation triad [nucleotide binding]; other site 413404001064 8OG recognition residue [nucleotide binding]; other site 413404001065 putative reading head residues; other site 413404001066 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 413404001067 Protein of unknown function (DUF989); Region: DUF989; pfam06181 413404001068 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 413404001069 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 413404001070 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 413404001071 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 413404001072 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 413404001073 active site 413404001074 HIGH motif; other site 413404001075 dimer interface [polypeptide binding]; other site 413404001076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404001077 active site 413404001078 KMSKS motif; other site 413404001079 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 413404001080 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 413404001081 RNA binding surface [nucleotide binding]; other site 413404001082 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 413404001083 probable active site [active] 413404001084 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 413404001085 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404001086 active site 413404001087 HIGH motif; other site 413404001088 nucleotide binding site [chemical binding]; other site 413404001089 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 413404001090 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 413404001091 active site 413404001092 KMSKS motif; other site 413404001093 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 413404001094 tRNA binding surface [nucleotide binding]; other site 413404001095 anticodon binding site; other site 413404001096 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 413404001097 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 413404001098 active site 413404001099 dimer interface [polypeptide binding]; other site 413404001100 metal binding site [ion binding]; metal-binding site 413404001101 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 413404001102 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 413404001103 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 413404001104 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 413404001105 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 413404001106 GatB domain; Region: GatB_Yqey; smart00845 413404001107 Uncharacterized conserved protein [Function unknown]; Region: COG0397 413404001108 hypothetical protein; Validated; Region: PRK00029 413404001109 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 413404001110 Peptidase family M50; Region: Peptidase_M50; pfam02163 413404001111 active site 413404001112 putative substrate binding region [chemical binding]; other site 413404001113 prolyl-tRNA synthetase; Provisional; Region: PRK09194 413404001114 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 413404001115 dimer interface [polypeptide binding]; other site 413404001116 motif 1; other site 413404001117 active site 413404001118 motif 2; other site 413404001119 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 413404001120 putative deacylase active site [active] 413404001121 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 413404001122 active site 413404001123 motif 3; other site 413404001124 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 413404001125 anticodon binding site; other site 413404001126 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 413404001127 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 413404001128 Domain of unknown function DUF21; Region: DUF21; pfam01595 413404001129 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 413404001130 Transporter associated domain; Region: CorC_HlyC; smart01091 413404001131 enolase; Provisional; Region: eno; PRK00077 413404001132 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 413404001133 dimer interface [polypeptide binding]; other site 413404001134 metal binding site [ion binding]; metal-binding site 413404001135 substrate binding pocket [chemical binding]; other site 413404001136 chaperone protein DnaJ; Provisional; Region: PRK10767 413404001137 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 413404001138 HSP70 interaction site [polypeptide binding]; other site 413404001139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 413404001140 substrate binding site [polypeptide binding]; other site 413404001141 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 413404001142 Zn binding sites [ion binding]; other site 413404001143 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 413404001144 substrate binding site [polypeptide binding]; other site 413404001145 dimer interface [polypeptide binding]; other site 413404001146 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 413404001147 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 413404001148 nucleotide binding site [chemical binding]; other site 413404001149 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 413404001150 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 413404001151 active site 413404001152 (T/H)XGH motif; other site 413404001153 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 413404001154 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 413404001155 S-adenosylmethionine binding site [chemical binding]; other site 413404001156 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 413404001157 substrate binding site [chemical binding]; other site 413404001158 metal binding sites [ion binding]; metal-binding site 413404001159 dimer interface [polypeptide binding]; other site 413404001160 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 413404001161 dimerization interface [polypeptide binding]; other site 413404001162 PAS domain; Region: PAS_9; pfam13426 413404001163 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 413404001164 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 413404001165 dimer interface [polypeptide binding]; other site 413404001166 phosphorylation site [posttranslational modification] 413404001167 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 413404001168 ATP binding site [chemical binding]; other site 413404001169 Mg2+ binding site [ion binding]; other site 413404001170 G-X-G motif; other site 413404001171 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 413404001172 active site 413404001173 phosphorylation site [posttranslational modification] 413404001174 intermolecular recognition site; other site 413404001175 dimerization interface [polypeptide binding]; other site 413404001176 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 413404001177 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 413404001178 TrkA-N domain; Region: TrkA_N; pfam02254 413404001179 TrkA-C domain; Region: TrkA_C; pfam02080 413404001180 TrkA-N domain; Region: TrkA_N; pfam02254 413404001181 TrkA-C domain; Region: TrkA_C; pfam02080 413404001182 Cation transport protein; Region: TrkH; cl17365 413404001183 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 413404001184 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 413404001185 DEAD_2; Region: DEAD_2; pfam06733 413404001186 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 413404001187 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 413404001188 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 413404001189 substrate binding pocket [chemical binding]; other site 413404001190 chain length determination region; other site 413404001191 substrate-Mg2+ binding site; other site 413404001192 catalytic residues [active] 413404001193 aspartate-rich region 1; other site 413404001194 active site lid residues [active] 413404001195 aspartate-rich region 2; other site 413404001196 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 413404001197 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 413404001198 S-adenosylmethionine binding site [chemical binding]; other site 413404001199 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 413404001200 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 413404001201 G1 box; other site 413404001202 putative GEF interaction site [polypeptide binding]; other site 413404001203 GTP/Mg2+ binding site [chemical binding]; other site 413404001204 Switch I region; other site 413404001205 G2 box; other site 413404001206 G3 box; other site 413404001207 Switch II region; other site 413404001208 G4 box; other site 413404001209 G5 box; other site 413404001210 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 413404001211 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 413404001212 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 413404001213 Protein export membrane protein; Region: SecD_SecF; cl14618 413404001214 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 413404001215 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 413404001216 substrate binding site [chemical binding]; other site 413404001217 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 413404001218 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 413404001219 substrate binding site [chemical binding]; other site 413404001220 ligand binding site [chemical binding]; other site 413404001221 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 413404001222 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 413404001223 active site 413404001224 dimer interface [polypeptide binding]; other site 413404001225 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 413404001226 Ligand Binding Site [chemical binding]; other site 413404001227 Molecular Tunnel; other site 413404001228 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 413404001229 RNA/DNA hybrid binding site [nucleotide binding]; other site 413404001230 active site 413404001231 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 413404001232 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 413404001233 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 413404001234 putative coenzyme Q binding site [chemical binding]; other site 413404001235 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 413404001236 SmpB-tmRNA interface; other site 413404001237 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 413404001238 IHF dimer interface [polypeptide binding]; other site 413404001239 IHF - DNA interface [nucleotide binding]; other site 413404001240 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 413404001241 active site 413404001242 multimer interface [polypeptide binding]; other site 413404001243 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 413404001244 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 413404001245 FeS/SAM binding site; other site 413404001246 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 413404001247 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 413404001248 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 413404001249 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 413404001250 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 413404001251 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 413404001252 TPP-binding site; other site 413404001253 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 413404001254 PYR/PP interface [polypeptide binding]; other site 413404001255 dimer interface [polypeptide binding]; other site 413404001256 TPP binding site [chemical binding]; other site 413404001257 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 413404001258 putative protease; Provisional; Region: PRK15452 413404001259 Peptidase family U32; Region: Peptidase_U32; pfam01136 413404001260 Methyltransferase domain; Region: Methyltransf_31; pfam13847 413404001261 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 413404001262 S-adenosylmethionine binding site [chemical binding]; other site 413404001263 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 413404001264 putative GSH binding site [chemical binding]; other site 413404001265 catalytic residues [active] 413404001266 Protein of unknown function DUF45; Region: DUF45; pfam01863 413404001267 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 413404001268 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 413404001269 dimerization interface [polypeptide binding]; other site 413404001270 ATP binding site [chemical binding]; other site 413404001271 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 413404001272 dimerization interface [polypeptide binding]; other site 413404001273 ATP binding site [chemical binding]; other site 413404001274 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 413404001275 putative active site [active] 413404001276 catalytic triad [active] 413404001277 hypothetical protein; Validated; Region: PRK00110 413404001278 quinolinate synthetase; Provisional; Region: PRK09375 413404001279 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 413404001280 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 413404001281 dimer interface [polypeptide binding]; other site 413404001282 anticodon binding site; other site 413404001283 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 413404001284 homodimer interface [polypeptide binding]; other site 413404001285 motif 1; other site 413404001286 active site 413404001287 motif 2; other site 413404001288 GAD domain; Region: GAD; pfam02938 413404001289 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 413404001290 active site 413404001291 motif 3; other site 413404001292 Uncharacterized conserved protein [Function unknown]; Region: COG2928 413404001293 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 413404001294 active site 413404001295 Peptidase family M48; Region: Peptidase_M48; cl12018 413404001296 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 413404001297 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 413404001298 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 413404001299 active site 413404001300 catalytic site [active] 413404001301 substrate binding site [chemical binding]; other site 413404001302 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 413404001303 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 413404001304 dimer interface [polypeptide binding]; other site 413404001305 allosteric magnesium binding site [ion binding]; other site 413404001306 active site 413404001307 aspartate-rich active site metal binding site; other site 413404001308 Schiff base residues; other site 413404001309 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 413404001310 ThiC-associated domain; Region: ThiC-associated; pfam13667 413404001311 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 413404001312 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 413404001313 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 413404001314 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 413404001315 GTPase CgtA; Reviewed; Region: obgE; PRK12299 413404001316 GTP1/OBG; Region: GTP1_OBG; pfam01018 413404001317 Obg GTPase; Region: Obg; cd01898 413404001318 G1 box; other site 413404001319 GTP/Mg2+ binding site [chemical binding]; other site 413404001320 Switch I region; other site 413404001321 G2 box; other site 413404001322 G3 box; other site 413404001323 Switch II region; other site 413404001324 G4 box; other site 413404001325 G5 box; other site 413404001326 gamma-glutamyl kinase; Provisional; Region: PRK05429 413404001327 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 413404001328 nucleotide binding site [chemical binding]; other site 413404001329 homotetrameric interface [polypeptide binding]; other site 413404001330 putative phosphate binding site [ion binding]; other site 413404001331 putative allosteric binding site; other site 413404001332 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 413404001333 catalytic center binding site [active] 413404001334 ATP binding site [chemical binding]; other site 413404001335 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 413404001336 oligomerization interface [polypeptide binding]; other site 413404001337 active site 413404001338 metal binding site [ion binding]; metal-binding site 413404001339 Pantoate-beta-alanine ligase; Region: PanC; cd00560 413404001340 pantoate--beta-alanine ligase; Region: panC; TIGR00018 413404001341 active site 413404001342 ATP-binding site [chemical binding]; other site 413404001343 pantoate-binding site; other site 413404001344 HXXH motif; other site 413404001345 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 413404001346 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 413404001347 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 413404001348 thiamine monophosphate kinase; Provisional; Region: PRK05731 413404001349 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 413404001350 ATP binding site [chemical binding]; other site 413404001351 dimerization interface [polypeptide binding]; other site 413404001352 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 413404001353 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 413404001354 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 413404001355 motif II; other site 413404001356 isocitrate dehydrogenase; Validated; Region: PRK07362 413404001357 isocitrate dehydrogenase; Reviewed; Region: PRK07006 413404001358 aspartate aminotransferase; Provisional; Region: PRK05764 413404001359 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 413404001360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404001361 homodimer interface [polypeptide binding]; other site 413404001362 catalytic residue [active] 413404001363 excinuclease ABC subunit B; Provisional; Region: PRK05298 413404001364 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 413404001365 ATP binding site [chemical binding]; other site 413404001366 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 413404001367 nucleotide binding region [chemical binding]; other site 413404001368 ATP-binding site [chemical binding]; other site 413404001369 Ultra-violet resistance protein B; Region: UvrB; pfam12344 413404001370 UvrB/uvrC motif; Region: UVR; pfam02151 413404001371 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 413404001372 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 413404001373 FeS/SAM binding site; other site 413404001374 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 413404001375 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 413404001376 putative dimer interface [polypeptide binding]; other site 413404001377 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 413404001378 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 413404001379 Tetramer interface [polypeptide binding]; other site 413404001380 active site 413404001381 FMN-binding site [chemical binding]; other site 413404001382 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 413404001383 active site 413404001384 dimer interface [polypeptide binding]; other site 413404001385 hypothetical protein; Provisional; Region: PRK09126 413404001386 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 413404001387 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 413404001388 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 413404001389 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 413404001390 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 413404001391 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 413404001392 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 413404001393 shikimate binding site; other site 413404001394 NAD(P) binding site [chemical binding]; other site 413404001395 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 413404001396 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 413404001397 homodimer interface [polypeptide binding]; other site 413404001398 oligonucleotide binding site [chemical binding]; other site 413404001399 pteridine reductase; Provisional; Region: PRK09135 413404001400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 413404001401 NAD(P) binding site [chemical binding]; other site 413404001402 active site 413404001403 Uncharacterized conserved protein [Function unknown]; Region: COG1565 413404001404 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 413404001405 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 413404001406 aminopeptidase N; Provisional; Region: pepN; PRK14015 413404001407 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 413404001408 Zn binding site [ion binding]; other site 413404001409 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 413404001410 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 413404001411 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 413404001412 FMN binding site [chemical binding]; other site 413404001413 active site 413404001414 catalytic residues [active] 413404001415 substrate binding site [chemical binding]; other site 413404001416 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 413404001417 Cell division protein FtsA; Region: FtsA; smart00842 413404001418 Cell division protein FtsA; Region: FtsA; pfam14450 413404001419 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 413404001420 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 413404001421 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 413404001422 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 413404001423 PYR/PP interface [polypeptide binding]; other site 413404001424 dimer interface [polypeptide binding]; other site 413404001425 TPP binding site [chemical binding]; other site 413404001426 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 413404001427 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 413404001428 TPP-binding site [chemical binding]; other site 413404001429 dimer interface [polypeptide binding]; other site 413404001430 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 413404001431 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 413404001432 putative valine binding site [chemical binding]; other site 413404001433 dimer interface [polypeptide binding]; other site 413404001434 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 413404001435 ketol-acid reductoisomerase; Provisional; Region: PRK05479 413404001436 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 413404001437 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 413404001438 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 413404001439 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 413404001440 2-isopropylmalate synthase; Validated; Region: PRK00915 413404001441 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 413404001442 active site 413404001443 catalytic residues [active] 413404001444 metal binding site [ion binding]; metal-binding site 413404001445 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 413404001446 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 413404001447 ornithine carbamoyltransferase; Provisional; Region: PRK00779 413404001448 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 413404001449 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 413404001450 acetylornithine aminotransferase; Provisional; Region: PRK02627 413404001451 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 413404001452 inhibitor-cofactor binding pocket; inhibition site 413404001453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404001454 catalytic residue [active] 413404001455 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 413404001456 30S subunit binding site; other site 413404001457 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 413404001458 MgtE intracellular N domain; Region: MgtE_N; smart00924 413404001459 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 413404001460 Divalent cation transporter; Region: MgtE; pfam01769 413404001461 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 413404001462 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 413404001463 active site 413404001464 substrate binding site [chemical binding]; other site 413404001465 metal binding site [ion binding]; metal-binding site 413404001466 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 413404001467 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 413404001468 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 413404001469 dimer interface [polypeptide binding]; other site 413404001470 TPP-binding site [chemical binding]; other site 413404001471 SlyX; Region: SlyX; cl01090 413404001472 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 413404001473 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 413404001474 RNase E interface [polypeptide binding]; other site 413404001475 trimer interface [polypeptide binding]; other site 413404001476 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 413404001477 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 413404001478 RNase E interface [polypeptide binding]; other site 413404001479 trimer interface [polypeptide binding]; other site 413404001480 active site 413404001481 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 413404001482 putative nucleic acid binding region [nucleotide binding]; other site 413404001483 G-X-X-G motif; other site 413404001484 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 413404001485 RNA binding site [nucleotide binding]; other site 413404001486 domain interface; other site 413404001487 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 413404001488 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 413404001489 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 413404001490 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 413404001491 active site 413404001492 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 413404001493 Bacterial SH3 domain; Region: SH3_3; pfam08239 413404001494 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 413404001495 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404001496 active site 413404001497 HIGH motif; other site 413404001498 nucleotide binding site [chemical binding]; other site 413404001499 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 413404001500 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 413404001501 active site 413404001502 KMSKS motif; other site 413404001503 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 413404001504 tRNA binding surface [nucleotide binding]; other site 413404001505 anticodon binding site; other site 413404001506 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 413404001507 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14969 413404001508 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 413404001509 Walker A motif; other site 413404001510 ATP binding site [chemical binding]; other site 413404001511 Walker B motif; other site 413404001512 arginine finger; other site 413404001513 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 413404001514 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 413404001515 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 413404001516 Substrate binding site; other site 413404001517 metal-binding site 413404001518 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 413404001519 Phosphotransferase enzyme family; Region: APH; pfam01636 413404001520 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 413404001521 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 413404001522 homodimer interface [polypeptide binding]; other site 413404001523 substrate-cofactor binding pocket; other site 413404001524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404001525 catalytic residue [active] 413404001526 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 413404001527 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 413404001528 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 413404001529 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 413404001530 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 413404001531 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 413404001532 Sel1 repeat; Region: Sel1; cl02723 413404001533 Sel1-like repeats; Region: SEL1; smart00671 413404001534 Sel1-like repeats; Region: SEL1; smart00671 413404001535 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 413404001536 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 413404001537 HIGH motif; other site 413404001538 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 413404001539 active site 413404001540 KMSKS motif; other site 413404001541 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 413404001542 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 413404001543 metal binding triad; other site 413404001544 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 413404001545 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 413404001546 Zn2+ binding site [ion binding]; other site 413404001547 Mg2+ binding site [ion binding]; other site 413404001548 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 413404001549 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 413404001550 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 413404001551 catalytic residues [active] 413404001552 transcription termination factor Rho; Provisional; Region: rho; PRK09376 413404001553 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 413404001554 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 413404001555 RNA binding site [nucleotide binding]; other site 413404001556 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 413404001557 multimer interface [polypeptide binding]; other site 413404001558 Walker A motif; other site 413404001559 ATP binding site [chemical binding]; other site 413404001560 Walker B motif; other site 413404001561 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 413404001562 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 413404001563 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 413404001564 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 413404001565 active site 413404001566 NTP binding site [chemical binding]; other site 413404001567 metal binding triad [ion binding]; metal-binding site 413404001568 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 413404001569 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 413404001570 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 413404001571 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 413404001572 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 413404001573 substrate binding pocket [chemical binding]; other site 413404001574 chain length determination region; other site 413404001575 substrate-Mg2+ binding site; other site 413404001576 catalytic residues [active] 413404001577 aspartate-rich region 1; other site 413404001578 active site lid residues [active] 413404001579 aspartate-rich region 2; other site 413404001580 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 413404001581 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 413404001582 dimer interface [polypeptide binding]; other site 413404001583 active site 413404001584 CoA binding pocket [chemical binding]; other site 413404001585 putative phosphate acyltransferase; Provisional; Region: PRK05331 413404001586 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 413404001587 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 413404001588 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 413404001589 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 413404001590 putative acyl-acceptor binding pocket; other site 413404001591 phosphoglycolate phosphatase; Provisional; Region: PRK13222 413404001592 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 413404001593 active site 413404001594 motif I; other site 413404001595 motif II; other site 413404001596 RmuC family; Region: RmuC; pfam02646 413404001597 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 413404001598 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 413404001599 NAD(P) binding site [chemical binding]; other site 413404001600 active site 413404001601 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 413404001602 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 413404001603 active site 413404001604 dimerization interface [polypeptide binding]; other site 413404001605 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 413404001606 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 413404001607 heat shock protein 90; Provisional; Region: PRK05218 413404001608 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 413404001609 ATP binding site [chemical binding]; other site 413404001610 Mg2+ binding site [ion binding]; other site 413404001611 G-X-G motif; other site 413404001612 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 413404001613 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 413404001614 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 413404001615 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 413404001616 CPxP motif; other site 413404001617 glutamine synthetase; Provisional; Region: glnA; PRK09469 413404001618 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 413404001619 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 413404001620 biotin synthase; Region: bioB; TIGR00433 413404001621 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 413404001622 FeS/SAM binding site; other site 413404001623 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 413404001624 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 413404001625 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 413404001626 active site 413404001627 homodimer interface [polypeptide binding]; other site 413404001628 cell division protein FtsW; Region: ftsW; TIGR02614 413404001629 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 413404001630 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 413404001631 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404001632 Walker A/P-loop; other site 413404001633 ATP binding site [chemical binding]; other site 413404001634 ABC transporter signature motif; other site 413404001635 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 413404001636 Walker B; other site 413404001637 ABC transporter; Region: ABC_tran_2; pfam12848 413404001638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 413404001639 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 413404001640 Lumazine binding domain; Region: Lum_binding; pfam00677 413404001641 Lumazine binding domain; Region: Lum_binding; pfam00677 413404001642 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 413404001643 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 413404001644 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 413404001645 dimerization interface [polypeptide binding]; other site 413404001646 active site 413404001647 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 413404001648 homopentamer interface [polypeptide binding]; other site 413404001649 active site 413404001650 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 413404001651 putative RNA binding site [nucleotide binding]; other site 413404001652 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 413404001653 nucleotide binding site/active site [active] 413404001654 HIT family signature motif; other site 413404001655 catalytic residue [active] 413404001656 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 413404001657 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 413404001658 dimer interface [polypeptide binding]; other site 413404001659 ssDNA binding site [nucleotide binding]; other site 413404001660 tetramer (dimer of dimers) interface [polypeptide binding]; other site 413404001661 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 413404001662 Major Facilitator Superfamily; Region: MFS_1; pfam07690 413404001663 putative substrate translocation pore; other site 413404001664 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 413404001665 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 413404001666 binding surface 413404001667 TPR motif; other site 413404001668 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 413404001669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 413404001670 Zn2+ binding site [ion binding]; other site 413404001671 Mg2+ binding site [ion binding]; other site 413404001672 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 413404001673 synthetase active site [active] 413404001674 NTP binding site [chemical binding]; other site 413404001675 metal binding site [ion binding]; metal-binding site 413404001676 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 413404001677 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 413404001678 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 413404001679 translocation protein TolB; Provisional; Region: tolB; PRK04922 413404001680 TolB amino-terminal domain; Region: TolB_N; pfam04052 413404001681 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 413404001682 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 413404001683 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 413404001684 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 413404001685 ligand binding site [chemical binding]; other site 413404001686 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 413404001687 hypothetical protein; Validated; Region: PRK09070 413404001688 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 413404001689 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 413404001690 MarC family integral membrane protein; Region: MarC; pfam01914 413404001691 Helix-turn-helix; Region: HTH_3; pfam01381 413404001692 NAD synthetase; Provisional; Region: PRK13981 413404001693 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 413404001694 multimer interface [polypeptide binding]; other site 413404001695 active site 413404001696 catalytic triad [active] 413404001697 protein interface 1 [polypeptide binding]; other site 413404001698 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 413404001699 homodimer interface [polypeptide binding]; other site 413404001700 NAD binding pocket [chemical binding]; other site 413404001701 ATP binding pocket [chemical binding]; other site 413404001702 Mg binding site [ion binding]; other site 413404001703 active-site loop [active] 413404001704 Ferrochelatase; Region: Ferrochelatase; pfam00762 413404001705 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 413404001706 C-terminal domain interface [polypeptide binding]; other site 413404001707 active site 413404001708 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 413404001709 active site 413404001710 N-terminal domain interface [polypeptide binding]; other site 413404001711 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 413404001712 ATP cone domain; Region: ATP-cone; pfam03477 413404001713 Class I ribonucleotide reductase; Region: RNR_I; cd01679 413404001714 active site 413404001715 dimer interface [polypeptide binding]; other site 413404001716 catalytic residues [active] 413404001717 effector binding site; other site 413404001718 R2 peptide binding site; other site 413404001719 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 413404001720 dimer interface [polypeptide binding]; other site 413404001721 putative radical transfer pathway; other site 413404001722 diiron center [ion binding]; other site 413404001723 tyrosyl radical; other site 413404001724 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 413404001725 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 413404001726 catalytic loop [active] 413404001727 iron binding site [ion binding]; other site 413404001728 dUTPase; Region: dUTPase_2; pfam08761 413404001729 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 413404001730 active site 413404001731 homodimer interface [polypeptide binding]; other site 413404001732 metal binding site [ion binding]; metal-binding site 413404001733 ribonuclease T; Provisional; Region: PRK05168 413404001734 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 413404001735 active site 413404001736 catalytic site [active] 413404001737 substrate binding site [chemical binding]; other site 413404001738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 413404001739 Coenzyme A binding pocket [chemical binding]; other site 413404001740 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 413404001741 ribonuclease R; Region: RNase_R; TIGR02063 413404001742 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 413404001743 RNB domain; Region: RNB; pfam00773 413404001744 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 413404001745 RNA binding site [nucleotide binding]; other site 413404001746 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 413404001747 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 413404001748 GDP-binding site [chemical binding]; other site 413404001749 ACT binding site; other site 413404001750 IMP binding site; other site 413404001751 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 413404001752 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 413404001753 motif 1; other site 413404001754 dimer interface [polypeptide binding]; other site 413404001755 active site 413404001756 motif 3; other site 413404001757 HflC protein; Region: hflC; TIGR01932 413404001758 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 413404001759 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 413404001760 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 413404001761 HflK protein; Region: hflK; TIGR01933 413404001762 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 413404001763 Organic solvent tolerance protein; Region: OstA_C; pfam04453 413404001764 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 413404001765 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 413404001766 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 413404001767 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 413404001768 isocitrate lyase; Provisional; Region: PRK15063 413404001769 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 413404001770 tetramer interface [polypeptide binding]; other site 413404001771 active site 413404001772 Mg2+/Mn2+ binding site [ion binding]; other site 413404001773 Protein of unknown function (DUF493); Region: DUF493; pfam04359 413404001774 lipoate-protein ligase B; Provisional; Region: PRK14342 413404001775 lipoyl synthase; Provisional; Region: PRK05481 413404001776 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 413404001777 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 413404001778 HlyD family secretion protein; Region: HlyD_3; pfam13437 413404001779 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 413404001780 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 413404001781 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 413404001782 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 413404001783 S-adenosylmethionine binding site [chemical binding]; other site 413404001784 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 413404001785 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 413404001786 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 413404001787 active site 413404001788 metal binding site [ion binding]; metal-binding site 413404001789 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 413404001790 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 413404001791 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 413404001792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 413404001793 zinc metallopeptidase RseP; Provisional; Region: PRK10779 413404001794 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 413404001795 active site 413404001796 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 413404001797 protein binding site [polypeptide binding]; other site 413404001798 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 413404001799 protein binding site [polypeptide binding]; other site 413404001800 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 413404001801 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 413404001802 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 413404001803 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 413404001804 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 413404001805 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 413404001806 Surface antigen; Region: Bac_surface_Ag; pfam01103 413404001807 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 413404001808 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 413404001809 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 413404001810 trimer interface [polypeptide binding]; other site 413404001811 active site 413404001812 UDP-GlcNAc binding site [chemical binding]; other site 413404001813 lipid binding site [chemical binding]; lipid-binding site 413404001814 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 413404001815 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 413404001816 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 413404001817 active site 413404001818 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 413404001819 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 413404001820 oxidative damage protection protein; Provisional; Region: PRK05408 413404001821 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 413404001822 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 413404001823 catalytic site [active] 413404001824 G-X2-G-X-G-K; other site 413404001825 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 413404001826 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 413404001827 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 413404001828 DNA binding residues [nucleotide binding] 413404001829 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 413404001830 oligomerisation interface [polypeptide binding]; other site 413404001831 mobile loop; other site 413404001832 roof hairpin; other site 413404001833 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 413404001834 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 413404001835 ring oligomerisation interface [polypeptide binding]; other site 413404001836 ATP/Mg binding site [chemical binding]; other site 413404001837 stacking interactions; other site 413404001838 hinge regions; other site 413404001839 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 413404001840 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 413404001841 ATP binding site [chemical binding]; other site 413404001842 Mg2+ binding site [ion binding]; other site 413404001843 G-X-G motif; other site 413404001844 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 413404001845 anchoring element; other site 413404001846 dimer interface [polypeptide binding]; other site 413404001847 ATP binding site [chemical binding]; other site 413404001848 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 413404001849 active site 413404001850 metal binding site [ion binding]; metal-binding site 413404001851 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 413404001852 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 413404001853 Ligand Binding Site [chemical binding]; other site 413404001854 acyl carrier protein; Provisional; Region: acpP; PRK00982 413404001855 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 413404001856 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 413404001857 dimer interface [polypeptide binding]; other site 413404001858 active site 413404001859 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 413404001860 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 413404001861 active site 413404001862 Zn binding site [ion binding]; other site 413404001863 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 413404001864 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 413404001865 active site 413404001866 HIGH motif; other site 413404001867 KMSKS motif; other site 413404001868 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 413404001869 anticodon binding site; other site 413404001870 tRNA binding surface [nucleotide binding]; other site 413404001871 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 413404001872 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 413404001873 Walker A motif; other site 413404001874 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 413404001875 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 413404001876 catalytic loop [active] 413404001877 iron binding site [ion binding]; other site 413404001878 chaperone protein HscA; Provisional; Region: hscA; PRK05183 413404001879 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 413404001880 nucleotide binding site [chemical binding]; other site 413404001881 putative NEF/HSP70 interaction site [polypeptide binding]; other site 413404001882 SBD interface [polypeptide binding]; other site 413404001883 co-chaperone HscB; Provisional; Region: hscB; PRK05014 413404001884 DnaJ domain; Region: DnaJ; pfam00226 413404001885 HSP70 interaction site [polypeptide binding]; other site 413404001886 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 413404001887 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 413404001888 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 413404001889 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 413404001890 trimerization site [polypeptide binding]; other site 413404001891 active site 413404001892 cysteine desulfurase; Provisional; Region: PRK14012 413404001893 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 413404001894 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 413404001895 catalytic residue [active] 413404001896 Transcriptional regulator; Region: Rrf2; cl17282 413404001897 Rrf2 family protein; Region: rrf2_super; TIGR00738 413404001898 serine O-acetyltransferase; Region: cysE; TIGR01172 413404001899 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 413404001900 trimer interface [polypeptide binding]; other site 413404001901 active site 413404001902 substrate binding site [chemical binding]; other site 413404001903 CoA binding site [chemical binding]; other site 413404001904 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 413404001905 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 413404001906 putative acyl-acceptor binding pocket; other site 413404001907 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 413404001908 Ligand Binding Site [chemical binding]; other site 413404001909 Outer membrane efflux protein; Region: OEP; pfam02321 413404001910 shikimate kinase; Reviewed; Region: aroK; PRK00131 413404001911 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 413404001912 ADP binding site [chemical binding]; other site 413404001913 magnesium binding site [ion binding]; other site 413404001914 putative shikimate binding site; other site 413404001915 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 413404001916 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 413404001917 homodimer interface [polypeptide binding]; other site 413404001918 substrate-cofactor binding pocket; other site 413404001919 catalytic residue [active] 413404001920 aspartate kinase; Reviewed; Region: PRK06635 413404001921 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 413404001922 putative nucleotide binding site [chemical binding]; other site 413404001923 putative catalytic residues [active] 413404001924 putative Mg ion binding site [ion binding]; other site 413404001925 putative aspartate binding site [chemical binding]; other site 413404001926 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 413404001927 putative allosteric regulatory site; other site 413404001928 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 413404001929 Peptidase family M48; Region: Peptidase_M48; pfam01435 413404001930 GTPase RsgA; Reviewed; Region: PRK12288 413404001931 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 413404001932 RNA binding site [nucleotide binding]; other site 413404001933 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 413404001934 GTPase/Zn-binding domain interface [polypeptide binding]; other site 413404001935 GTP/Mg2+ binding site [chemical binding]; other site 413404001936 G4 box; other site 413404001937 G5 box; other site 413404001938 G1 box; other site 413404001939 Switch I region; other site 413404001940 G2 box; other site 413404001941 G3 box; other site 413404001942 Switch II region; other site 413404001943 Protein of unknown function (DUF423); Region: DUF423; pfam04241 413404001944 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 413404001945 IHF - DNA interface [nucleotide binding]; other site 413404001946 IHF dimer interface [polypeptide binding]; other site 413404001947 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 413404001948 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 413404001949 RNA binding site [nucleotide binding]; other site 413404001950 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 413404001951 RNA binding site [nucleotide binding]; other site 413404001952 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 413404001953 RNA binding site [nucleotide binding]; other site 413404001954 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 413404001955 RNA binding site [nucleotide binding]; other site 413404001956 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 413404001957 RNA binding site [nucleotide binding]; other site 413404001958 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 413404001959 RNA binding site [nucleotide binding]; other site 413404001960 cytidylate kinase; Provisional; Region: cmk; PRK00023 413404001961 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 413404001962 CMP-binding site; other site 413404001963 The sites determining sugar specificity; other site 413404001964 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 413404001965 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 413404001966 dimer interface [polypeptide binding]; other site 413404001967 putative anticodon binding site; other site 413404001968 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 413404001969 motif 1; other site 413404001970 active site 413404001971 motif 2; other site 413404001972 motif 3; other site 413404001973 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 413404001974 ABC transporter ATPase component; Reviewed; Region: PRK11147 413404001975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404001976 Walker A/P-loop; other site 413404001977 ATP binding site [chemical binding]; other site 413404001978 Q-loop/lid; other site 413404001979 ABC transporter signature motif; other site 413404001980 Walker B; other site 413404001981 D-loop; other site 413404001982 H-loop/switch region; other site 413404001983 ABC transporter; Region: ABC_tran_2; pfam12848 413404001984 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 413404001985 hypothetical protein; Validated; Region: PRK08238 413404001986 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 413404001987 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 413404001988 GIY-YIG motif/motif A; other site 413404001989 active site 413404001990 catalytic site [active] 413404001991 putative DNA binding site [nucleotide binding]; other site 413404001992 metal binding site [ion binding]; metal-binding site 413404001993 UvrB/uvrC motif; Region: UVR; pfam02151 413404001994 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 413404001995 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 413404001996 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 413404001997 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 413404001998 hinge; other site 413404001999 active site 413404002000 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 413404002001 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 413404002002 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 413404002003 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 413404002004 NAD binding site [chemical binding]; other site 413404002005 dimerization interface [polypeptide binding]; other site 413404002006 product binding site; other site 413404002007 substrate binding site [chemical binding]; other site 413404002008 zinc binding site [ion binding]; other site 413404002009 catalytic residues [active] 413404002010 signal recognition particle protein; Provisional; Region: PRK10867 413404002011 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 413404002012 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 413404002013 P loop; other site 413404002014 GTP binding site [chemical binding]; other site 413404002015 Signal peptide binding domain; Region: SRP_SPB; pfam02978 413404002016 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 413404002017 GTP-binding protein LepA; Provisional; Region: PRK05433 413404002018 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 413404002019 G1 box; other site 413404002020 putative GEF interaction site [polypeptide binding]; other site 413404002021 GTP/Mg2+ binding site [chemical binding]; other site 413404002022 Switch I region; other site 413404002023 G2 box; other site 413404002024 G3 box; other site 413404002025 Switch II region; other site 413404002026 G4 box; other site 413404002027 G5 box; other site 413404002028 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 413404002029 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 413404002030 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 413404002031 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 413404002032 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 413404002033 catalytic triad [active] 413404002034 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 413404002035 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 413404002036 S-adenosylmethionine binding site [chemical binding]; other site 413404002037 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 413404002038 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 413404002039 active site 413404002040 hydrophilic channel; other site 413404002041 dimerization interface [polypeptide binding]; other site 413404002042 catalytic residues [active] 413404002043 active site lid [active] 413404002044 GTPase Era; Reviewed; Region: era; PRK00089 413404002045 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 413404002046 G1 box; other site 413404002047 GTP/Mg2+ binding site [chemical binding]; other site 413404002048 Switch I region; other site 413404002049 G2 box; other site 413404002050 Switch II region; other site 413404002051 G3 box; other site 413404002052 G4 box; other site 413404002053 G5 box; other site 413404002054 KH domain; Region: KH_2; pfam07650 413404002055 ribonuclease III; Reviewed; Region: rnc; PRK00102 413404002056 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 413404002057 dimerization interface [polypeptide binding]; other site 413404002058 active site 413404002059 metal binding site [ion binding]; metal-binding site 413404002060 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 413404002061 dsRNA binding site [nucleotide binding]; other site 413404002062 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09733 413404002063 thymidylate synthase; Reviewed; Region: thyA; PRK01827 413404002064 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 413404002065 dimerization interface [polypeptide binding]; other site 413404002066 active site 413404002067 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 413404002068 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 413404002069 dimerization interface [polypeptide binding]; other site 413404002070 putative DNA binding site [nucleotide binding]; other site 413404002071 putative Zn2+ binding site [ion binding]; other site 413404002072 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 413404002073 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 413404002074 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 413404002075 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 413404002076 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 413404002077 Catalytic dyad [active] 413404002078 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 413404002079 Catalytic site [active] 413404002080 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 413404002081 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 413404002082 DsrC like protein; Region: DsrC; pfam04358 413404002083 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 413404002084 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 413404002085 hinge; other site 413404002086 active site 413404002087 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 413404002088 prephenate dehydrogenase; Validated; Region: PRK08507 413404002089 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 413404002090 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 413404002091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404002092 homodimer interface [polypeptide binding]; other site 413404002093 catalytic residue [active] 413404002094 Chorismate mutase type II; Region: CM_2; cl00693 413404002095 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 413404002096 Prephenate dehydratase; Region: PDT; pfam00800 413404002097 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 413404002098 putative L-Phe binding site [chemical binding]; other site 413404002099 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 413404002100 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 413404002101 putative ligand binding site [chemical binding]; other site 413404002102 putative NAD binding site [chemical binding]; other site 413404002103 putative catalytic site [active] 413404002104 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 413404002105 L-serine binding site [chemical binding]; other site 413404002106 ACT domain interface; other site 413404002107 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 413404002108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 413404002109 catalytic residue [active] 413404002110 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 413404002111 ATP cone domain; Region: ATP-cone; pfam03477 413404002112 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 413404002113 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 413404002114 dimer interface [polypeptide binding]; other site 413404002115 active site 413404002116 glycine-pyridoxal phosphate binding site [chemical binding]; other site 413404002117 folate binding site [chemical binding]; other site 413404002118 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 413404002119 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 413404002120 ATP binding site [chemical binding]; other site 413404002121 substrate interface [chemical binding]; other site 413404002122 methionine sulfoxide reductase A; Provisional; Region: PRK14054 413404002123 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 413404002124 A new structural DNA glycosylase; Region: AlkD_like; cd06561 413404002125 active site 413404002126 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 413404002127 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 413404002128 IHF dimer interface [polypeptide binding]; other site 413404002129 IHF - DNA interface [nucleotide binding]; other site 413404002130 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 413404002131 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 413404002132 putative tRNA-binding site [nucleotide binding]; other site 413404002133 B3/4 domain; Region: B3_4; pfam03483 413404002134 tRNA synthetase B5 domain; Region: B5; smart00874 413404002135 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 413404002136 dimer interface [polypeptide binding]; other site 413404002137 motif 1; other site 413404002138 motif 3; other site 413404002139 motif 2; other site 413404002140 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 413404002141 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 413404002142 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 413404002143 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 413404002144 dimer interface [polypeptide binding]; other site 413404002145 motif 1; other site 413404002146 active site 413404002147 motif 2; other site 413404002148 motif 3; other site 413404002149 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 413404002150 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 413404002151 23S rRNA binding site [nucleotide binding]; other site 413404002152 L21 binding site [polypeptide binding]; other site 413404002153 L13 binding site [polypeptide binding]; other site 413404002154 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 413404002155 translation initiation factor IF-3; Region: infC; TIGR00168 413404002156 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 413404002157 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 413404002158 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 413404002159 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 413404002160 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 413404002161 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 413404002162 active site 413404002163 dimer interface [polypeptide binding]; other site 413404002164 motif 1; other site 413404002165 motif 2; other site 413404002166 motif 3; other site 413404002167 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 413404002168 anticodon binding site; other site 413404002169 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 413404002170 DHH family; Region: DHH; pfam01368 413404002171 DHHA1 domain; Region: DHHA1; pfam02272 413404002172 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 413404002173 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 413404002174 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 413404002175 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 413404002176 lipoprotein signal peptidase; Provisional; Region: PRK14787 413404002177 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 413404002178 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 413404002179 NAD binding site [chemical binding]; other site 413404002180 homotetramer interface [polypeptide binding]; other site 413404002181 homodimer interface [polypeptide binding]; other site 413404002182 substrate binding site [chemical binding]; other site 413404002183 active site 413404002184 periplasmic folding chaperone; Provisional; Region: PRK10788 413404002185 SurA N-terminal domain; Region: SurA_N_3; cl07813 413404002186 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 413404002187 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 413404002188 Heme exporter protein D (CcmD); Region: CcmD; cl11475 413404002189 heme exporter protein CcmC; Region: ccmC; TIGR01191 413404002190 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 413404002191 Glycoprotease family; Region: Peptidase_M22; pfam00814 413404002192 Transglycosylase; Region: Transgly; pfam00912 413404002193 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 413404002194 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 413404002195 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 413404002196 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 413404002197 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 413404002198 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 413404002199 replicative DNA helicase; Region: DnaB; TIGR00665 413404002200 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 413404002201 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 413404002202 Walker A motif; other site 413404002203 ATP binding site [chemical binding]; other site 413404002204 Walker B motif; other site 413404002205 DNA binding loops [nucleotide binding] 413404002206 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 413404002207 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 413404002208 active site 413404002209 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 413404002210 substrate binding site [chemical binding]; other site 413404002211 catalytic residues [active] 413404002212 dimer interface [polypeptide binding]; other site 413404002213 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 413404002214 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 413404002215 active site 413404002216 metal binding site [ion binding]; metal-binding site 413404002217 hexamer interface [polypeptide binding]; other site 413404002218 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 413404002219 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 413404002220 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 413404002221 dimer interface [polypeptide binding]; other site 413404002222 motif 1; other site 413404002223 active site 413404002224 motif 2; other site 413404002225 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 413404002226 anticodon binding site; other site 413404002227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 413404002228 GTP-binding protein Der; Reviewed; Region: PRK00093 413404002229 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 413404002230 G1 box; other site 413404002231 GTP/Mg2+ binding site [chemical binding]; other site 413404002232 Switch I region; other site 413404002233 G2 box; other site 413404002234 Switch II region; other site 413404002235 G3 box; other site 413404002236 G4 box; other site 413404002237 G5 box; other site 413404002238 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 413404002239 G1 box; other site 413404002240 GTP/Mg2+ binding site [chemical binding]; other site 413404002241 Switch I region; other site 413404002242 G2 box; other site 413404002243 G3 box; other site 413404002244 Switch II region; other site 413404002245 G4 box; other site 413404002246 G5 box; other site 413404002247 CTP synthetase; Validated; Region: pyrG; PRK05380 413404002248 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 413404002249 Catalytic site [active] 413404002250 active site 413404002251 UTP binding site [chemical binding]; other site 413404002252 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 413404002253 active site 413404002254 putative oxyanion hole; other site 413404002255 catalytic triad [active] 413404002256 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 413404002257 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 413404002258 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404002259 Walker A/P-loop; other site 413404002260 ATP binding site [chemical binding]; other site 413404002261 Q-loop/lid; other site 413404002262 ABC transporter signature motif; other site 413404002263 Walker B; other site 413404002264 D-loop; other site 413404002265 H-loop/switch region; other site 413404002266 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 413404002267 Anthranilate phosphoribosyltransferase [Amino acid transport and metabolism]; Region: TrpD; COG0547 413404002268 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 413404002269 iron-sulfur cluster [ion binding]; other site 413404002270 [2Fe-2S] cluster binding site [ion binding]; other site 413404002271 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 413404002272 N-acetyl-D-glucosamine binding site [chemical binding]; other site 413404002273 catalytic residue [active] 413404002274 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 413404002275 DNA-binding site [nucleotide binding]; DNA binding site 413404002276 RNA-binding motif; other site 413404002277 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 413404002278 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 413404002279 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 413404002280 ligand binding site [chemical binding]; other site 413404002281 active site 413404002282 UGI interface [polypeptide binding]; other site 413404002283 catalytic site [active] 413404002284 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 413404002285 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 413404002286 ligand binding site [chemical binding]; other site 413404002287 NAD binding site [chemical binding]; other site 413404002288 catalytic site [active] 413404002289 homodimer interface [polypeptide binding]; other site 413404002290 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 413404002291 [4Fe-4S] binding site [ion binding]; other site 413404002292 molybdopterin cofactor binding site; other site 413404002293 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 413404002294 molybdopterin cofactor binding site; other site 413404002295 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 413404002296 active site 413404002297 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 413404002298 Catalytic domain of Protein Kinases; Region: PKc; cd00180 413404002299 active site 413404002300 ATP binding site [chemical binding]; other site 413404002301 substrate binding site [chemical binding]; other site 413404002302 activation loop (A-loop); other site 413404002303 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 413404002304 putative substrate translocation pore; other site 413404002305 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 413404002306 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 413404002307 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 413404002308 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 413404002309 MoaE homodimer interface [polypeptide binding]; other site 413404002310 MoaD interaction [polypeptide binding]; other site 413404002311 active site residues [active] 413404002312 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 413404002313 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 413404002314 GTP binding site; other site 413404002315 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 413404002316 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 413404002317 dimer interface [polypeptide binding]; other site 413404002318 putative functional site; other site 413404002319 putative MPT binding site; other site 413404002320 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 413404002321 trimer interface [polypeptide binding]; other site 413404002322 dimer interface [polypeptide binding]; other site 413404002323 putative active site [active] 413404002324 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 413404002325 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 413404002326 FeS/SAM binding site; other site 413404002327 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 413404002328 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 413404002329 MoaE interaction surface [polypeptide binding]; other site 413404002330 MoeB interaction surface [polypeptide binding]; other site 413404002331 thiocarboxylated glycine; other site 413404002332 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 413404002333 MPT binding site; other site 413404002334 trimer interface [polypeptide binding]; other site 413404002335 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 413404002336 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 413404002337 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 413404002338 Walker A motif; other site 413404002339 ATP binding site [chemical binding]; other site 413404002340 Walker B motif; other site 413404002341 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 413404002342 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 413404002343 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 413404002344 dimer interface [polypeptide binding]; other site 413404002345 active site 413404002346 catalytic residue [active] 413404002347 metal binding site [ion binding]; metal-binding site 413404002348 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 413404002349 heterotetramer interface [polypeptide binding]; other site 413404002350 active site pocket [active] 413404002351 cleavage site 413404002352 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 413404002353 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 413404002354 dimer interface [polypeptide binding]; other site 413404002355 conserved gate region; other site 413404002356 putative PBP binding loops; other site 413404002357 ABC-ATPase subunit interface; other site 413404002358 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 413404002359 dimer interface [polypeptide binding]; other site 413404002360 conserved gate region; other site 413404002361 putative PBP binding loops; other site 413404002362 ABC-ATPase subunit interface; other site 413404002363 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 413404002364 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 413404002365 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 413404002366 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 413404002367 Walker A/P-loop; other site 413404002368 ATP binding site [chemical binding]; other site 413404002369 Q-loop/lid; other site 413404002370 ABC transporter signature motif; other site 413404002371 Walker B; other site 413404002372 D-loop; other site 413404002373 H-loop/switch region; other site 413404002374 multicopper oxidase; Provisional; Region: PRK10965 413404002375 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 413404002376 Multicopper oxidase; Region: Cu-oxidase; pfam00394 413404002377 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 413404002378 Imelysin; Region: Peptidase_M75; cl09159 413404002379 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 413404002380 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 413404002381 Imelysin; Region: Peptidase_M75; cl09159 413404002382 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 413404002383 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 413404002384 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 413404002385 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 413404002386 catalytic residues [active] 413404002387 ArsC family; Region: ArsC; pfam03960 413404002388 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 413404002389 putative catalytic residues [active] 413404002390 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 413404002391 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 413404002392 Gram-negative bacterial tonB protein; Region: TonB; cl10048 413404002393 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 413404002394 TolR protein; Region: tolR; TIGR02801 413404002395 TolQ protein; Region: tolQ; TIGR02796 413404002396 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 413404002397 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 413404002398 tRNA; other site 413404002399 putative tRNA binding site [nucleotide binding]; other site 413404002400 putative NADP binding site [chemical binding]; other site 413404002401 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 413404002402 peptide chain release factor 1; Validated; Region: prfA; PRK00591 413404002403 This domain is found in peptide chain release factors; Region: PCRF; smart00937 413404002404 RF-1 domain; Region: RF-1; pfam00472 413404002405 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 413404002406 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 413404002407 dimer interface [polypeptide binding]; other site 413404002408 putative PBP binding regions; other site 413404002409 ABC-ATPase subunit interface; other site 413404002410 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 413404002411 metal binding site 2 [ion binding]; metal-binding site 413404002412 putative DNA binding helix; other site 413404002413 metal binding site 1 [ion binding]; metal-binding site 413404002414 dimer interface [polypeptide binding]; other site 413404002415 structural Zn2+ binding site [ion binding]; other site 413404002416 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 413404002417 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 413404002418 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 413404002419 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 413404002420 tandem repeat interface [polypeptide binding]; other site 413404002421 oligomer interface [polypeptide binding]; other site 413404002422 active site residues [active] 413404002423 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 413404002424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404002425 Walker A/P-loop; other site 413404002426 ATP binding site [chemical binding]; other site 413404002427 Q-loop/lid; other site 413404002428 ABC transporter signature motif; other site 413404002429 Walker B; other site 413404002430 D-loop; other site 413404002431 H-loop/switch region; other site 413404002432 heme exporter protein CcmB; Region: ccmB; TIGR01190 413404002433 S-adenosylmethionine synthetase; Validated; Region: PRK05250 413404002434 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 413404002435 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 413404002436 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 413404002437 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 413404002438 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 413404002439 homotetramer interface [polypeptide binding]; other site 413404002440 ligand binding site [chemical binding]; other site 413404002441 catalytic site [active] 413404002442 NAD binding site [chemical binding]; other site 413404002443 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 413404002444 dimer interface [polypeptide binding]; other site 413404002445 motif 1; other site 413404002446 active site 413404002447 motif 2; other site 413404002448 motif 3; other site 413404002449 Predicted membrane protein [Function unknown]; Region: COG1238 413404002450 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 413404002451 Mechanosensitive ion channel; Region: MS_channel; pfam00924 413404002452 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 413404002453 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 413404002454 TRAM domain; Region: TRAM; pfam01938 413404002455 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 413404002456 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 413404002457 Cu(I) binding site [ion binding]; other site 413404002458 Protein of unknown function (DUF461); Region: DUF461; pfam04314 413404002459 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 413404002460 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 413404002461 Ligand Binding Site [chemical binding]; other site 413404002462 putative lysogenization regulator; Reviewed; Region: PRK00218 413404002463 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 413404002464 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 413404002465 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 413404002466 generic binding surface II; other site 413404002467 generic binding surface I; other site 413404002468 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 413404002469 Peptidase family M23; Region: Peptidase_M23; pfam01551 413404002470 RDD family; Region: RDD; pfam06271 413404002471 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 413404002472 substrate binding site; other site 413404002473 dimer interface; other site 413404002474 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 413404002475 homotrimer interaction site [polypeptide binding]; other site 413404002476 zinc binding site [ion binding]; other site 413404002477 CDP-binding sites; other site 413404002478 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 413404002479 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 413404002480 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 413404002481 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 413404002482 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 413404002483 FAD binding domain; Region: FAD_binding_4; pfam01565 413404002484 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 413404002485 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 413404002486 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 413404002487 ATP-grasp domain; Region: ATP-grasp_4; cl17255 413404002488 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 413404002489 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 413404002490 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 413404002491 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 413404002492 N-acetyl-D-glucosamine binding site [chemical binding]; other site 413404002493 catalytic residue [active] 413404002494 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 413404002495 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 413404002496 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 413404002497 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 413404002498 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 413404002499 BolA-like protein; Region: BolA; cl00386 413404002500 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 413404002501 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 413404002502 catalytic loop [active] 413404002503 iron binding site [ion binding]; other site 413404002504 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 413404002505 FAD binding pocket [chemical binding]; other site 413404002506 FAD binding motif [chemical binding]; other site 413404002507 phosphate binding motif [ion binding]; other site 413404002508 beta-alpha-beta structure motif; other site 413404002509 NAD binding pocket [chemical binding]; other site 413404002510 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 413404002511 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 413404002512 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 413404002513 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 413404002514 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 413404002515 YccA-like proteins; Region: YccA_like; cd10433 413404002516 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 413404002517 putative active site [active] 413404002518 Ap4A binding site [chemical binding]; other site 413404002519 nudix motif; other site 413404002520 putative metal binding site [ion binding]; other site 413404002521 homoserine dehydrogenase; Provisional; Region: PRK06349 413404002522 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 413404002523 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 413404002524 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 413404002525 threonine synthase; Reviewed; Region: PRK06721 413404002526 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 413404002527 homodimer interface [polypeptide binding]; other site 413404002528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404002529 catalytic residue [active] 413404002530 Uncharacterized protein conserved in archaea (DUF2099); Region: DUF2099; cl01645 413404002531 cysteine synthase B; Region: cysM; TIGR01138 413404002532 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 413404002533 dimer interface [polypeptide binding]; other site 413404002534 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404002535 catalytic residue [active] 413404002536 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 413404002537 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 413404002538 putative ion selectivity filter; other site 413404002539 putative pore gating glutamate residue; other site 413404002540 putative H+/Cl- coupling transport residue; other site 413404002541 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 413404002542 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 413404002543 putative active site pocket [active] 413404002544 dimerization interface [polypeptide binding]; other site 413404002545 putative catalytic residue [active] 413404002546 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 413404002547 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 413404002548 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 413404002549 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 413404002550 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 413404002551 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 413404002552 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 413404002553 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 413404002554 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 413404002555 P loop; other site 413404002556 GTP binding site [chemical binding]; other site 413404002557 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 413404002558 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 413404002559 domain interfaces; other site 413404002560 active site 413404002561 argininosuccinate lyase; Provisional; Region: PRK00855 413404002562 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 413404002563 active sites [active] 413404002564 tetramer interface [polypeptide binding]; other site 413404002565 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 413404002566 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 413404002567 putative active site [active] 413404002568 substrate binding site [chemical binding]; other site 413404002569 putative cosubstrate binding site; other site 413404002570 catalytic site [active] 413404002571 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 413404002572 substrate binding site [chemical binding]; other site 413404002573 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 413404002574 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 413404002575 Clp amino terminal domain; Region: Clp_N; pfam02861 413404002576 Clp amino terminal domain; Region: Clp_N; pfam02861 413404002577 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 413404002578 Walker A motif; other site 413404002579 ATP binding site [chemical binding]; other site 413404002580 Walker B motif; other site 413404002581 arginine finger; other site 413404002582 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 413404002583 Walker A motif; other site 413404002584 ATP binding site [chemical binding]; other site 413404002585 Walker B motif; other site 413404002586 arginine finger; other site 413404002587 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 413404002588 electron transport complex RsxE subunit; Provisional; Region: PRK12405 413404002589 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 413404002590 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 413404002591 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 413404002592 Fumarase C-terminus; Region: Fumerase_C; pfam05683 413404002593 rod shape-determining protein MreB; Provisional; Region: PRK13927 413404002594 MreB and similar proteins; Region: MreB_like; cd10225 413404002595 nucleotide binding site [chemical binding]; other site 413404002596 Mg binding site [ion binding]; other site 413404002597 putative protofilament interaction site [polypeptide binding]; other site 413404002598 RodZ interaction site [polypeptide binding]; other site 413404002599 rod shape-determining protein MreC; Provisional; Region: PRK13922 413404002600 rod shape-determining protein MreC; Region: MreC; pfam04085 413404002601 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 413404002602 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 413404002603 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 413404002604 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 413404002605 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 413404002606 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 413404002607 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404002608 Walker A/P-loop; other site 413404002609 ATP binding site [chemical binding]; other site 413404002610 Q-loop/lid; other site 413404002611 ABC transporter signature motif; other site 413404002612 Walker B; other site 413404002613 D-loop; other site 413404002614 H-loop/switch region; other site 413404002615 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 413404002616 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 413404002617 catalytic motif [active] 413404002618 Zn binding site [ion binding]; other site 413404002619 RibD C-terminal domain; Region: RibD_C; cl17279 413404002620 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 413404002621 Flavoprotein; Region: Flavoprotein; pfam02441 413404002622 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 413404002623 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 413404002624 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 413404002625 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 413404002626 putative active site [active] 413404002627 putative PHP Thumb interface [polypeptide binding]; other site 413404002628 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 413404002629 generic binding surface II; other site 413404002630 generic binding surface I; other site 413404002631 Cytochrome c [Energy production and conversion]; Region: COG3258 413404002632 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 413404002633 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 413404002634 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 413404002635 anthranilate synthase component I; Provisional; Region: PRK13565 413404002636 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 413404002637 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 413404002638 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 413404002639 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 413404002640 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 413404002641 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 413404002642 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 413404002643 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 413404002644 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 413404002645 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 413404002646 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 413404002647 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 413404002648 DNA binding site [nucleotide binding] 413404002649 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 413404002650 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 413404002651 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 413404002652 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 413404002653 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 413404002654 RPB11 interaction site [polypeptide binding]; other site 413404002655 RPB12 interaction site [polypeptide binding]; other site 413404002656 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 413404002657 RPB3 interaction site [polypeptide binding]; other site 413404002658 RPB1 interaction site [polypeptide binding]; other site 413404002659 RPB11 interaction site [polypeptide binding]; other site 413404002660 RPB10 interaction site [polypeptide binding]; other site 413404002661 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 413404002662 core dimer interface [polypeptide binding]; other site 413404002663 peripheral dimer interface [polypeptide binding]; other site 413404002664 L10 interface [polypeptide binding]; other site 413404002665 L11 interface [polypeptide binding]; other site 413404002666 putative EF-Tu interaction site [polypeptide binding]; other site 413404002667 putative EF-G interaction site [polypeptide binding]; other site 413404002668 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 413404002669 23S rRNA interface [nucleotide binding]; other site 413404002670 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 413404002671 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 413404002672 mRNA/rRNA interface [nucleotide binding]; other site 413404002673 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 413404002674 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 413404002675 23S rRNA interface [nucleotide binding]; other site 413404002676 L7/L12 interface [polypeptide binding]; other site 413404002677 putative thiostrepton binding site; other site 413404002678 L25 interface [polypeptide binding]; other site 413404002679 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 413404002680 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 413404002681 putative homodimer interface [polypeptide binding]; other site 413404002682 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 413404002683 heterodimer interface [polypeptide binding]; other site 413404002684 homodimer interface [polypeptide binding]; other site 413404002685 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 413404002686 elongation factor Tu; Reviewed; Region: PRK00049 413404002687 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 413404002688 G1 box; other site 413404002689 GEF interaction site [polypeptide binding]; other site 413404002690 GTP/Mg2+ binding site [chemical binding]; other site 413404002691 Switch I region; other site 413404002692 G2 box; other site 413404002693 G3 box; other site 413404002694 Switch II region; other site 413404002695 G4 box; other site 413404002696 G5 box; other site 413404002697 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 413404002698 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 413404002699 Antibiotic Binding Site [chemical binding]; other site 413404002700 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 413404002701 Malic enzyme, N-terminal domain; Region: malic; pfam00390 413404002702 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 413404002703 putative NAD(P) binding site [chemical binding]; other site 413404002704 glycine dehydrogenase; Provisional; Region: PRK05367 413404002705 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 413404002706 tetramer interface [polypeptide binding]; other site 413404002707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404002708 catalytic residue [active] 413404002709 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 413404002710 tetramer interface [polypeptide binding]; other site 413404002711 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404002712 catalytic residue [active] 413404002713 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 413404002714 nucleotide binding site/active site [active] 413404002715 HIT family signature motif; other site 413404002716 catalytic residue [active] 413404002717 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 413404002718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 413404002719 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 413404002720 putative FMN binding site [chemical binding]; other site 413404002721 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 413404002722 dihydrodipicolinate reductase; Provisional; Region: PRK00048 413404002723 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 413404002724 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 413404002725 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 413404002726 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 413404002727 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 413404002728 active site 413404002729 ribulose/triose binding site [chemical binding]; other site 413404002730 phosphate binding site [ion binding]; other site 413404002731 substrate (anthranilate) binding pocket [chemical binding]; other site 413404002732 product (indole) binding pocket [chemical binding]; other site 413404002733 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 413404002734 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 413404002735 ThiS interaction site; other site 413404002736 putative active site [active] 413404002737 tetramer interface [polypeptide binding]; other site 413404002738 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 413404002739 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 413404002740 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 413404002741 catalytic residue [active] 413404002742 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 413404002743 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 413404002744 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 413404002745 ATP-grasp domain; Region: ATP-grasp; pfam02222 413404002746 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 413404002747 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 413404002748 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 413404002749 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 413404002750 homodimer interface [polypeptide binding]; other site 413404002751 NADP binding site [chemical binding]; other site 413404002752 substrate binding site [chemical binding]; other site 413404002753 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 413404002754 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 413404002755 Ligand binding site; other site 413404002756 oligomer interface; other site 413404002757 Uncharacterized conserved protein [Function unknown]; Region: COG2835 413404002758 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 413404002759 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 413404002760 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 413404002761 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 413404002762 FtsX-like permease family; Region: FtsX; pfam02687 413404002763 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 413404002764 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 413404002765 Walker A/P-loop; other site 413404002766 ATP binding site [chemical binding]; other site 413404002767 Q-loop/lid; other site 413404002768 ABC transporter signature motif; other site 413404002769 Walker B; other site 413404002770 D-loop; other site 413404002771 H-loop/switch region; other site 413404002772 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 413404002773 tetramerization interface [polypeptide binding]; other site 413404002774 active site 413404002775 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 413404002776 oxaloacetate decarboxylase; Provisional; Region: PRK14040 413404002777 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 413404002778 active site 413404002779 catalytic residues [active] 413404002780 metal binding site [ion binding]; metal-binding site 413404002781 homodimer binding site [polypeptide binding]; other site 413404002782 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 413404002783 carboxyltransferase (CT) interaction site; other site 413404002784 biotinylation site [posttranslational modification]; other site 413404002785 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; cl01458 413404002786 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 413404002787 rRNA binding site [nucleotide binding]; other site 413404002788 predicted 30S ribosome binding site; other site 413404002789 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 413404002790 FAD binding site [chemical binding]; other site 413404002791 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 413404002792 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 413404002793 active site 413404002794 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 413404002795 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 413404002796 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 413404002797 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 413404002798 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 413404002799 Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]; Region: CobB; COG1797 413404002800 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 413404002801 catalytic triad [active] 413404002802 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 413404002803 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 413404002804 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 413404002805 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 413404002806 4Fe-4S binding domain; Region: Fer4_6; pfam12837 413404002807 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 413404002808 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 413404002809 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 413404002810 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 413404002811 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 413404002812 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 413404002813 DsrC like protein; Region: DsrC; pfam04358 413404002814 DsrH like protein; Region: DsrH; pfam04077 413404002815 DsrE/DsrF-like family; Region: DrsE; cl00672 413404002816 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 413404002817 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 413404002818 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 413404002819 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 413404002820 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 413404002821 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 413404002822 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 413404002823 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 413404002824 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 413404002825 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 413404002826 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 413404002827 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 413404002828 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 413404002829 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 413404002830 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 413404002831 ATP-grasp domain; Region: ATP-grasp_4; cl17255 413404002832 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 413404002833 IMP binding site; other site 413404002834 dimer interface [polypeptide binding]; other site 413404002835 VacJ like lipoprotein; Region: VacJ; cl01073 413404002836 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 413404002837 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 413404002838 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 413404002839 catalytic site [active] 413404002840 subunit interface [polypeptide binding]; other site 413404002841 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 413404002842 thiS-thiF/thiG interaction site; other site 413404002843 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 413404002844 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 413404002845 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 413404002846 DsrC like protein; Region: DsrC; cl01101 413404002847 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 413404002848 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 413404002849 motif 1; other site 413404002850 active site 413404002851 motif 2; other site 413404002852 motif 3; other site 413404002853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 413404002854 DHHA1 domain; Region: DHHA1; pfam02272 413404002855 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 413404002856 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 413404002857 glutaminase active site [active] 413404002858 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 413404002859 dimer interface [polypeptide binding]; other site 413404002860 active site 413404002861 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 413404002862 dimer interface [polypeptide binding]; other site 413404002863 active site 413404002864 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 413404002865 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 413404002866 dimer interface [polypeptide binding]; other site 413404002867 active site 413404002868 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 413404002869 dimer interface [polypeptide binding]; other site 413404002870 active site 413404002871 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 413404002872 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 413404002873 active site 413404002874 tetramer interface; other site 413404002875 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 413404002876 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 413404002877 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 413404002878 NAD(P) binding site [chemical binding]; other site 413404002879 homodimer interface [polypeptide binding]; other site 413404002880 substrate binding site [chemical binding]; other site 413404002881 active site 413404002882 Bacterial sugar transferase; Region: Bac_transf; pfam02397 413404002883 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 413404002884 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 413404002885 metal-binding site 413404002886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 413404002887 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 413404002888 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 413404002889 metal-binding site 413404002890 LicD family; Region: LicD; cl01378 413404002891 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404002892 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 413404002893 active site 413404002894 nucleotide binding site [chemical binding]; other site 413404002895 HIGH motif; other site 413404002896 KMSKS motif; other site 413404002897 Methyltransferase domain; Region: Methyltransf_23; pfam13489 413404002898 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 413404002899 S-adenosylmethionine binding site [chemical binding]; other site 413404002900 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 413404002901 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 413404002902 active site 413404002903 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 413404002904 Phosphotransferase enzyme family; Region: APH; pfam01636 413404002905 Cupin domain; Region: Cupin_2; cl17218 413404002906 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 413404002907 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 413404002908 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 413404002909 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 413404002910 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 413404002911 NADP binding site [chemical binding]; other site 413404002912 active site 413404002913 putative substrate binding site [chemical binding]; other site 413404002914 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 413404002915 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 413404002916 NADP-binding site; other site 413404002917 homotetramer interface [polypeptide binding]; other site 413404002918 substrate binding site [chemical binding]; other site 413404002919 homodimer interface [polypeptide binding]; other site 413404002920 active site 413404002921 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 413404002922 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 413404002923 Substrate binding site; other site 413404002924 Cupin domain; Region: Cupin_2; cl17218 413404002925 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 413404002926 O-Antigen ligase; Region: Wzy_C; pfam04932 413404002927 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 413404002928 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 413404002929 active site 413404002930 HIGH motif; other site 413404002931 nucleotide binding site [chemical binding]; other site 413404002932 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 413404002933 KMSKS motif; other site 413404002934 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 413404002935 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 413404002936 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 413404002937 Clp amino terminal domain; Region: Clp_N; pfam02861 413404002938 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 413404002939 Walker A motif; other site 413404002940 ATP binding site [chemical binding]; other site 413404002941 Walker B motif; other site 413404002942 arginine finger; other site 413404002943 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 413404002944 Walker A motif; other site 413404002945 ATP binding site [chemical binding]; other site 413404002946 Walker B motif; other site 413404002947 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 413404002948 Uncharacterized conserved protein [Function unknown]; Region: COG2127 413404002949 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 413404002950 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 413404002951 GMP synthase; Reviewed; Region: guaA; PRK00074 413404002952 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 413404002953 AMP/PPi binding site [chemical binding]; other site 413404002954 candidate oxyanion hole; other site 413404002955 catalytic triad [active] 413404002956 potential glutamine specificity residues [chemical binding]; other site 413404002957 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 413404002958 ATP Binding subdomain [chemical binding]; other site 413404002959 Dimerization subdomain; other site 413404002960 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 413404002961 nucleoside/Zn binding site; other site 413404002962 dimer interface [polypeptide binding]; other site 413404002963 catalytic motif [active] 413404002964 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 413404002965 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 413404002966 NAD(P) binding site [chemical binding]; other site 413404002967 homotetramer interface [polypeptide binding]; other site 413404002968 homodimer interface [polypeptide binding]; other site 413404002969 active site 413404002970 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 413404002971 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 413404002972 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 413404002973 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 413404002974 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 413404002975 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 413404002976 active site 413404002977 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 413404002978 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 413404002979 putative active site [active] 413404002980 putative metal binding site [ion binding]; other site 413404002981 RNB domain; Region: RNB; pfam00773 413404002982 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 413404002983 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 413404002984 lipoyl attachment site [posttranslational modification]; other site 413404002985 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 413404002986 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 413404002987 Intracellular septation protein A; Region: IspA; pfam04279 413404002988 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 413404002989 homotrimer interaction site [polypeptide binding]; other site 413404002990 putative active site [active] 413404002991 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 413404002992 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 413404002993 ssDNA binding site; other site 413404002994 generic binding surface II; other site 413404002995 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 413404002996 ATP binding site [chemical binding]; other site 413404002997 putative Mg++ binding site [ion binding]; other site 413404002998 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 413404002999 nucleotide binding region [chemical binding]; other site 413404003000 ATP-binding site [chemical binding]; other site 413404003001 Chorismate lyase; Region: Chor_lyase; cl01230 413404003002 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 413404003003 S-adenosylmethionine binding site [chemical binding]; other site 413404003004 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 413404003005 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 413404003006 glutamine binding [chemical binding]; other site 413404003007 catalytic triad [active] 413404003008 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 413404003009 active site residue [active] 413404003010 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 413404003011 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 413404003012 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 413404003013 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 413404003014 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 413404003015 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 413404003016 23S rRNA interface [nucleotide binding]; other site 413404003017 L3 interface [polypeptide binding]; other site 413404003018 putative metal dependent hydrolase; Provisional; Region: PRK11598 413404003019 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 413404003020 Sulfatase; Region: Sulfatase; pfam00884 413404003021 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 413404003022 putative catalytic residue [active] 413404003023 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 413404003024 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 413404003025 ATP binding site [chemical binding]; other site 413404003026 Mg++ binding site [ion binding]; other site 413404003027 motif III; other site 413404003028 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 413404003029 nucleotide binding region [chemical binding]; other site 413404003030 ATP-binding site [chemical binding]; other site 413404003031 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 413404003032 putative RNA binding site [nucleotide binding]; other site 413404003033 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 413404003034 DNA-binding site [nucleotide binding]; DNA binding site 413404003035 RNA-binding motif; other site 413404003036 exonuclease I; Provisional; Region: sbcB; PRK11779 413404003037 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 413404003038 active site 413404003039 catalytic site [active] 413404003040 substrate binding site [chemical binding]; other site 413404003041 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 413404003042 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 413404003043 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 413404003044 minor groove reading motif; other site 413404003045 helix-hairpin-helix signature motif; other site 413404003046 substrate binding pocket [chemical binding]; other site 413404003047 active site 413404003048 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 413404003049 Fructosamine kinase; Region: Fructosamin_kin; cl17579 413404003050 Phosphotransferase enzyme family; Region: APH; pfam01636 413404003051 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 413404003052 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 413404003053 putative active site [active] 413404003054 oxyanion strand; other site 413404003055 catalytic triad [active] 413404003056 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 413404003057 putative active site pocket [active] 413404003058 4-fold oligomerization interface [polypeptide binding]; other site 413404003059 metal binding residues [ion binding]; metal-binding site 413404003060 3-fold/trimer interface [polypeptide binding]; other site 413404003061 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 413404003062 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 413404003063 Uncharacterized conserved protein [Function unknown]; Region: COG0327 413404003064 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 413404003065 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 413404003066 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 413404003067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404003068 homodimer interface [polypeptide binding]; other site 413404003069 catalytic residue [active] 413404003070 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 413404003071 dimer interface [polypeptide binding]; other site 413404003072 substrate binding site [chemical binding]; other site 413404003073 ATP binding site [chemical binding]; other site 413404003074 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 413404003075 catalytic residues [active] 413404003076 hinge region; other site 413404003077 alpha helical domain; other site 413404003078 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK); Region: HPPK; pfam01288 413404003079 catalytic center binding site [active] 413404003080 ATP binding site [chemical binding]; other site 413404003081 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 413404003082 homooctamer interface [polypeptide binding]; other site 413404003083 active site 413404003084 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 413404003085 inner membrane transport permease; Provisional; Region: PRK15066 413404003086 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 413404003087 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 413404003088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 413404003089 Walker A/P-loop; other site 413404003090 ATP binding site [chemical binding]; other site 413404003091 Q-loop/lid; other site 413404003092 ABC transporter signature motif; other site 413404003093 Walker B; other site 413404003094 D-loop; other site 413404003095 H-loop/switch region; other site 413404003096 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 413404003097 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 413404003098 E3 interaction surface; other site 413404003099 lipoyl attachment site [posttranslational modification]; other site 413404003100 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 413404003101 E3 interaction surface; other site 413404003102 lipoyl attachment site [posttranslational modification]; other site 413404003103 e3 binding domain; Region: E3_binding; pfam02817 413404003104 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 413404003105 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 413404003106 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 413404003107 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 413404003108 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 413404003109 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 413404003110 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 413404003111 S-adenosylmethionine binding site [chemical binding]; other site 413404003112 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 413404003113 Protein export membrane protein; Region: SecD_SecF; cl14618 413404003114 L-aspartate oxidase; Provisional; Region: PRK09077 413404003115 L-aspartate oxidase; Provisional; Region: PRK06175 413404003116 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 413404003117 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 413404003118 active site 413404003119 catalytic residues [active] 413404003120 metal binding site [ion binding]; metal-binding site 413404003121 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 413404003122 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 413404003123 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 413404003124 purine monophosphate binding site [chemical binding]; other site 413404003125 dimer interface [polypeptide binding]; other site 413404003126 putative catalytic residues [active] 413404003127 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 413404003128 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 413404003129 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 413404003130 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 413404003131 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 413404003132 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 413404003133 Family description; Region: DsbD_2; pfam13386 413404003134 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 413404003135 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 413404003136 Transporter associated domain; Region: CorC_HlyC; smart01091 413404003137 hypothetical protein; Validated; Region: PRK01777 413404003138 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 413404003139 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 413404003140 catalytic residues [active] 413404003141 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 413404003142 dimer interface [polypeptide binding]; other site 413404003143 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 413404003144 active site 413404003145 metal binding site [ion binding]; metal-binding site 413404003146 glutathione binding site [chemical binding]; other site 413404003147 UGMP family protein; Validated; Region: PRK09604 413404003148 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 413404003149 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 413404003150 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 413404003151 Walker A/P-loop; other site 413404003152 ATP binding site [chemical binding]; other site 413404003153 Q-loop/lid; other site 413404003154 ABC transporter signature motif; other site 413404003155 Walker B; other site 413404003156 D-loop; other site 413404003157 H-loop/switch region; other site 413404003158 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 413404003159 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 413404003160 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 413404003161 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 413404003162 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 413404003163 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 413404003164 dimerization interface 3.5A [polypeptide binding]; other site 413404003165 active site 413404003166 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 413404003167 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 413404003168 THF binding site; other site 413404003169 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 413404003170 substrate binding site [chemical binding]; other site 413404003171 THF binding site; other site 413404003172 zinc-binding site [ion binding]; other site 413404003173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 413404003174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 413404003175 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 413404003176 dimerization interface [polypeptide binding]; other site 413404003177 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 413404003178 transmembrane helices; other site 413404003179 TrkA-C domain; Region: TrkA_C; pfam02080 413404003180 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 413404003181 TrkA-C domain; Region: TrkA_C; pfam02080 413404003182 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 413404003183 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 413404003184 active site clefts [active] 413404003185 zinc binding site [ion binding]; other site 413404003186 dimer interface [polypeptide binding]; other site 413404003187 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 413404003188 RimM N-terminal domain; Region: RimM; pfam01782 413404003189 PRC-barrel domain; Region: PRC; pfam05239 413404003190 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 413404003191 adenylosuccinate lyase; Provisional; Region: PRK09285 413404003192 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 413404003193 tetramer interface [polypeptide binding]; other site 413404003194 active site 413404003195 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 413404003196 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 413404003197 substrate binding site [chemical binding]; other site 413404003198 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 413404003199 substrate binding site [chemical binding]; other site 413404003200 ligand binding site [chemical binding]; other site 413404003201 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 413404003202 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 413404003203 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 413404003204 active site 413404003205 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 413404003206 putative active site [active] 413404003207 putative catalytic site [active] 413404003208 putative DNA binding site [nucleotide binding]; other site 413404003209 putative phosphate binding site [ion binding]; other site 413404003210 metal binding site A [ion binding]; metal-binding site 413404003211 putative AP binding site [nucleotide binding]; other site 413404003212 putative metal binding site B [ion binding]; other site 413404003213 Putative methyltransferase; Region: Methyltransf_4; cl17290 413404003214 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 413404003215 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 413404003216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 413404003217 amidophosphoribosyltransferase; Provisional; Region: PRK09246 413404003218 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 413404003219 active site 413404003220 tetramer interface [polypeptide binding]; other site 413404003221 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 413404003222 active site 413404003223 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 413404003224 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 413404003225 homodimer interface [polypeptide binding]; other site 413404003226 substrate-cofactor binding pocket; other site 413404003227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404003228 catalytic residue [active] 413404003229 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 413404003230 active site 2 [active] 413404003231 active site 1 [active] 413404003232 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 413404003233 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 413404003234 dimer interface [polypeptide binding]; other site 413404003235 active site 413404003236 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 413404003237 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 413404003238 Protein export membrane protein; Region: SecD_SecF; pfam02355 413404003239 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 413404003240 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 413404003241 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 413404003242 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 413404003243 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 413404003244 seryl-tRNA synthetase; Provisional; Region: PRK05431 413404003245 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 413404003246 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 413404003247 dimer interface [polypeptide binding]; other site 413404003248 active site 413404003249 motif 1; other site 413404003250 motif 2; other site 413404003251 motif 3; other site 413404003252 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 413404003253 active site residue [active] 413404003254 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 413404003255 active site residue [active] 413404003256 transcriptional regulator NarL; Provisional; Region: PRK10651 413404003257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 413404003258 active site 413404003259 phosphorylation site [posttranslational modification] 413404003260 intermolecular recognition site; other site 413404003261 dimerization interface [polypeptide binding]; other site 413404003262 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 413404003263 DNA binding residues [nucleotide binding] 413404003264 dimerization interface [polypeptide binding]; other site 413404003265 GAF domain; Region: GAF_3; pfam13492 413404003266 Histidine kinase; Region: HisKA_3; pfam07730 413404003267 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 413404003268 ATP binding site [chemical binding]; other site 413404003269 Mg2+ binding site [ion binding]; other site 413404003270 G-X-G motif; other site 413404003271 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 413404003272 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 413404003273 trmE is a tRNA modification GTPase; Region: trmE; cd04164 413404003274 G1 box; other site 413404003275 GTP/Mg2+ binding site [chemical binding]; other site 413404003276 Switch I region; other site 413404003277 G2 box; other site 413404003278 Switch II region; other site 413404003279 G3 box; other site 413404003280 G4 box; other site 413404003281 G5 box; other site 413404003282 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 413404003283 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 413404003284 hypothetical protein; Provisional; Region: PRK08999 413404003285 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 413404003286 active site 413404003287 8-oxo-dGMP binding site [chemical binding]; other site 413404003288 nudix motif; other site 413404003289 metal binding site [ion binding]; metal-binding site 413404003290 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 413404003291 thiamine phosphate binding site [chemical binding]; other site 413404003292 active site 413404003293 pyrophosphate binding site [ion binding]; other site 413404003294 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 413404003295 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 413404003296 active site 413404003297 dimer interface [polypeptide binding]; other site 413404003298 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 413404003299 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 413404003300 active site 413404003301 FMN binding site [chemical binding]; other site 413404003302 substrate binding site [chemical binding]; other site 413404003303 3Fe-4S cluster binding site [ion binding]; other site 413404003304 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 413404003305 domain interface; other site 413404003306 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 413404003307 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 413404003308 folate binding site [chemical binding]; other site 413404003309 NADP+ binding site [chemical binding]; other site 413404003310 Maf-like protein; Region: Maf; pfam02545 413404003311 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 413404003312 active site 413404003313 dimer interface [polypeptide binding]; other site 413404003314 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 413404003315 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 413404003316 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 413404003317 ATP binding site [chemical binding]; other site 413404003318 putative Mg++ binding site [ion binding]; other site 413404003319 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 413404003320 nucleotide binding region [chemical binding]; other site 413404003321 ATP-binding site [chemical binding]; other site 413404003322 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 413404003323 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 413404003324 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 413404003325 substrate binding site [chemical binding]; other site 413404003326 ATP binding site [chemical binding]; other site 413404003327 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 413404003328 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 413404003329 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 413404003330 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 413404003331 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 413404003332 substrate binding site [chemical binding]; other site 413404003333 active site 413404003334 catalytic residues [active] 413404003335 heterodimer interface [polypeptide binding]; other site 413404003336 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 413404003337 substrate binding site [chemical binding]; other site 413404003338 active site 413404003339 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 413404003340 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 413404003341 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 413404003342 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 413404003343 metal-binding site [ion binding] 413404003344 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 413404003345 Soluble P-type ATPase [General function prediction only]; Region: COG4087 413404003346 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 413404003347 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 413404003348 Substrate binding site; other site 413404003349 Mg++ binding site; other site 413404003350 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 413404003351 active site 413404003352 substrate binding site [chemical binding]; other site 413404003353 CoA binding site [chemical binding]; other site 413404003354 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 413404003355 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 413404003356 pyridoxal 5'-phosphate binding site [chemical binding]; other site 413404003357 catalytic residue [active] 413404003358 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 413404003359 active site 413404003360 DNA topoisomerase I; Provisional; Region: PRK08780 413404003361 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 413404003362 active site 413404003363 interdomain interaction site; other site 413404003364 putative metal-binding site [ion binding]; other site 413404003365 nucleotide binding site [chemical binding]; other site 413404003366 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 413404003367 domain I; other site 413404003368 DNA binding groove [nucleotide binding] 413404003369 phosphate binding site [ion binding]; other site 413404003370 domain II; other site 413404003371 domain III; other site 413404003372 nucleotide binding site [chemical binding]; other site 413404003373 catalytic site [active] 413404003374 domain IV; other site 413404003375 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 413404003376 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 413404003377 Protein of unknown function (DUF494); Region: DUF494; pfam04361 413404003378 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 413404003379 Ribonuclease P; Region: Ribonuclease_P; pfam00825 413404003380 Haemolytic domain; Region: Haemolytic; pfam01809 413404003381 membrane protein insertase; Provisional; Region: PRK01318 413404003382 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 413404003383 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 413404003384 active site 413404003385 iron coordination sites [ion binding]; other site 413404003386 substrate binding pocket [chemical binding]; other site 413404003387 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 413404003388 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 413404003389 amidase catalytic site [active] 413404003390 Zn binding residues [ion binding]; other site 413404003391 substrate binding site [chemical binding]; other site 413404003392 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 413404003393 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 413404003394 active site 413404003395 motif I; other site 413404003396 motif II; other site 413404003397 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 413404003398 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 413404003399 gamma subunit interface [polypeptide binding]; other site 413404003400 epsilon subunit interface [polypeptide binding]; other site 413404003401 LBP interface [polypeptide binding]; other site 413404003402 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 413404003403 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 413404003404 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 413404003405 alpha subunit interaction interface [polypeptide binding]; other site 413404003406 Walker A motif; other site 413404003407 ATP binding site [chemical binding]; other site 413404003408 Walker B motif; other site 413404003409 inhibitor binding site; inhibition site 413404003410 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 413404003411 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 413404003412 core domain interface [polypeptide binding]; other site 413404003413 delta subunit interface [polypeptide binding]; other site 413404003414 epsilon subunit interface [polypeptide binding]; other site 413404003415 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 413404003416 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 413404003417 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 413404003418 beta subunit interaction interface [polypeptide binding]; other site 413404003419 Walker A motif; other site 413404003420 ATP binding site [chemical binding]; other site 413404003421 Walker B motif; other site 413404003422 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 413404003423 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 413404003424 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 413404003425 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 413404003426 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 413404003427 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 413404003428 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 413404003429 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 413404003430 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 413404003431 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 413404003432 ATP-NAD kinase; Region: NAD_kinase; pfam01513 413404003433 GrpE; Region: GrpE; pfam01025 413404003434 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 413404003435 dimer interface [polypeptide binding]; other site 413404003436 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 413404003437 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 413404003438 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 413404003439 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 413404003440 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 413404003441 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 413404003442 DsbD alpha interface [polypeptide binding]; other site 413404003443 catalytic residues [active] 413404003444 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 413404003445 Dehydroquinase class II; Region: DHquinase_II; pfam01220 413404003446 active site 413404003447 trimer interface [polypeptide binding]; other site 413404003448 dimer interface [polypeptide binding]; other site 413404003449 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 413404003450 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 413404003451 carboxyltransferase (CT) interaction site; other site 413404003452 biotinylation site [posttranslational modification]; other site 413404003453 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 413404003454 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 413404003455 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 413404003456 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 413404003457 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 413404003458 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 413404003459 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 413404003460 citrate synthase; Provisional; Region: PRK14036 413404003461 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_1; cd06112 413404003462 dimer interface [polypeptide binding]; other site 413404003463 active site 413404003464 citrylCoA binding site [chemical binding]; other site 413404003465 oxalacetate/citrate binding site [chemical binding]; other site 413404003466 coenzyme A binding site [chemical binding]; other site 413404003467 catalytic triad [active] 413404003468 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 413404003469 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 413404003470 S-adenosylmethionine binding site [chemical binding]; other site 413404003471 SCP-2 sterol transfer family; Region: SCP2; pfam02036 413404003472 ABC1 family; Region: ABC1; cl17513 413404003473 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 413404003474 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 413404003475 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 413404003476 5S rRNA interface [nucleotide binding]; other site 413404003477 CTC domain interface [polypeptide binding]; other site 413404003478 L16 interface [polypeptide binding]; other site 413404003479 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 413404003480 putative active site [active] 413404003481 catalytic residue [active] 413404003482 GTP-binding protein YchF; Reviewed; Region: PRK09601 413404003483 YchF GTPase; Region: YchF; cd01900 413404003484 G1 box; other site 413404003485 GTP/Mg2+ binding site [chemical binding]; other site 413404003486 Switch I region; other site 413404003487 G2 box; other site 413404003488 Switch II region; other site 413404003489 G3 box; other site 413404003490 G4 box; other site 413404003491 G5 box; other site 413404003492 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 413404003493 phosphoglyceromutase; Provisional; Region: PRK05434 413404003494 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 413404003495 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 413404003496 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 413404003497 substrate binding site [chemical binding]; other site 413404003498 hexamer interface [polypeptide binding]; other site 413404003499 metal binding site [ion binding]; metal-binding site 413404003500 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 413404003501 rRNA interaction site [nucleotide binding]; other site 413404003502 S8 interaction site; other site 413404003503 putative laminin-1 binding site; other site 413404003504 elongation factor Ts; Provisional; Region: tsf; PRK09377 413404003505 UBA/TS-N domain; Region: UBA; pfam00627 413404003506 Elongation factor TS; Region: EF_TS; pfam00889 413404003507 Elongation factor TS; Region: EF_TS; pfam00889 413404003508 Preprotein translocase SecG subunit; Region: SecG; pfam03840 413404003509 triosephosphate isomerase; Provisional; Region: PRK14567 413404003510 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 413404003511 substrate binding site [chemical binding]; other site 413404003512 dimer interface [polypeptide binding]; other site 413404003513 catalytic triad [active]